# Patent

## Title
Sequences of E. coli O157

## Abstract

The entire genome of pathogenic E. coli strain 0157:H7 has been sequenced. All of the genomic DNA sequences present in 0157 and absent in the previously sequenced laboratory strain K12 are presented here.

## Background
CROSS-REFERENCE TO RELATED APPLICATIONS
This application is a continuation of U.S. Ser. No. 09/453,702 filed Dec. 3, 1999 now U.S. Pat. No. 6,365,723 which claims priority from U.S. Provisional Patent Application No. 60/110,955 filed on Dec. 4, 1998.


STATEMENT REGARDING FEDERALLY SPONSORED RESEARCH OR DEVELOPMENT
This invention was made with United States government support awarded by NIH-A141329. The United States has certain rights in this invention.


BACKGROUND OF THE INVENTION
Escherichia coli is a common enteric bacterial strain that has both laboratory and human health importance. One particular strain of E. coli designated O157:H7 is a human enteric pathogen that causes acute hemorrhagic colitis. Young children and the elderly are particularly susceptible to disease caused by this bacteria, which is usually contracted by eating contaminated food such as undercooked meat. In the most vulnerable patients, the colitis frequently develops into hemolytic uremic syndrome (HUS), a condition that is often fatal. The disease has a very rapid progression, and is consequently very difficult to treat. Often, patients are severely ill by the time the disease is diagnosed. Once a diagnosis has been made, appropriate antibiotics may be administered to kill the infective bacteria. Sometimes, however, by the time a diagnosis has been rendered, toxic proteins secreted by the bacteria have damaged mucosal cells and entered the blood stream. Recently, clinical isolates of O157:H7 have been found to exhibit resistance to an increasing spectrum of antibiotics, which will further complicate treatment.
The source of the bacteria in the several recent cases of disease caused by this organism were traced to hamburgers purchased in fast food restaurants. The bacteria are extremely proficient at establishing an infection; ingestion of as few as 10 live bacteria is sufficient to establish an infection. The highly infective nature of O157:H7 and the devastating sequelae associated with infection by this bacteria, together with the extensive public attention given to outbreaks of hemorrhagic colitis, has generated a great deal of interest among medical professionals and the general public in developing the means for early diagnosis and treatment of the disease. Farmers are desirous of an effective treatment of infections in cattle and pigs, which are the main reservoirs for E. coli enteric pathogens. The ability to diagnose and treat livestock infected by this organism will prevent the loss of livestock and the transmission of the organism from animals to humans. Meat suppliers and those in the food industry are very much interested in a means for detecting the organism in tainted meat. Because the infective dose of O157:H7 is extremely low, a highly sensitive test is needed to identify contaminating organisms in food.
Modern geneticists have been working to resolve the genetic code of many organisms. Efforts to sequence the human genome are ongoing. The effort to sequence the genomes of whole organisms began with an effort to sequence the genome of E. coli. For the original effort to sequence the E. coli genome, a useful and common laboratory strain, designated K12, was chosen. The entire genome of that strain was sequenced and published. Science, 277:1453-1462 (1997). Since the genes which are responsible for the pathogenicity of E. coli 0157:H7 are missing from strain K12, the sequence of the K12 genome is of limited help in developing tools to detect, hinder or destroy E. coli 0157:H7.
Some efforts have been directed toward the sequencing of specific genes from 0157:H7. U.S. Pat. No. 5,798,260 describes the sequence of one specific gene, named adhesion, from that genome. The development of additional sequence information from E. coli 0157:H7 would be needed for comprehensive efforts at detection, diagnosis, prophylaxis and therapeutic approaches to infections caused by the organism.
BRIEF SUMMARY OF THE INVENTION
It is an object of the invention to provide essentially the entire sequence of E. coli 0157:H7 to enable detection, diagnosis, prophylaxis and therapeutic tools to combat bacterial infections.
It is another object of the present invention to provide a means to detect low numbers of Escherichia coli O157:H7 in a contaminated food source.
It is yet another object of this invention to provide a means for the early diagnosis of humans and livestock infected with O157:H7.
Another object of the present invention is to provide a means of treating humans and livestock infected with 0157:H7.
It is a further object of the present invention to provide a means for the prevention of infection by O157:H7.
The present invention includes many DNA sequences that are unique to E. coli O157:H7.
One aspect of the present invention is a DNA sequence comprising an open reading frame (ORF), designated 03169, that encodes a putative cytotoxin 3169 amino acids in length that resembles the clostridial cytotoxins ToxA and ToxB of C. difficile and cytotoxin L of C. sordelli. 
Another aspect of the present invention is a DNA sequence that constitutes an urease gene cluster.
A third aspect of the present invention is a chromosomal gene that encodes a toxin related to the RTX family of cytotoxins and associated transport proteins.
Another aspect of the present invention are genes that are found in the Locus of Enterocyte Effacement (LEE), a 45-kb cluster of genes that are involved in the attachment of pathogens to intestinal epithelial cells and other related functions necessary to establish infection.
Another aspect of the present invention is a hypothetical serine/threonine kinase (stk) encoded by phage 933W, a lysogenic bacteriophage found in O157:H7.
The present invention is also a putative tail fiber gene, which is found on phage 933W.
Another aspect of the present invention is a method for detecting E. coli O157:H7 and distinguishing the strain from other strains of E. coli by genetic analysis and testing.
It is a feature of the invention disclosed here that virtually the entire genome of E. coli 0157:H7 is set forth in the data contained here, combined with the information already published in the field.
BRIEF DESCRIPTION OF THE SEVERAL VIEWS OF THE DRAWINGS
Not applicable.


DETAILED DESCRIPTION OF THE INVENTION
The investigators here have sequenced virtually the entire genome of E. coli 0157:H7. Presented in this specification is essentially all the DNA sequence which is contained in strain 0157:H7 and not found in the prviously sequenced E. coli strain K12. The genome sequence is essentially complete, lacking only an occasional presumably small sequence linkage between established long sequences known. The availability of the sequence data presented here will enable intelligent design of diagnostic detection, prophylaxis and therapeutic tools for disease and infections caused by this organisms.
The sequence of E. coli 0157:H7 was, in brief, performed by shotgun cloning in the M13 Janus vector (Burland et al. Nucl. Acids Res. 21:3385-3390 (1993)). Genomic DNA was prepared for library construction by nebulization, end-repair and size fractionation as described in Mahillon et al. Gene 223:47-54 (1998). Recovered DNA fragments were ligated into the M13 Janus vectors. Library subclones were picked as plaques, from which template DNAs were prepared and then sequenced by Prism-terminator Cycle Sequencing chemistry and analyzed on ABI377 automated sequencers. Sequences were assembled by the Seqman II program (DNASTAR), and finishing employed a combination of PCR and primer walking techniques. open reading frames were identified and analyzed as described in Blattner et al. Science 277:1453-1474 (1997). All the sequences presented in this specification are unique to strain 0157:H7 as compared to strain K12. This sequence data, when combined with the sequence of K12, resolves all of the genetic sequence of 0157:H7. The information on the K12 sequence, contained in Science, 277:1453-62 (1997) is hereby incorporated by reference as if set forth in full herein.
An important analysis which has been begun on this sequence data is the identification of genetic sequences associated with the pathogenesis of infection, which sequences provide information essential to the diagnosis, treatment, and prevention of infection by that organism. In order to facilitate the identification of genes involved in the pathogenesis of infection by enterohemorrhagic E. coli (EHEC) for use in detection of the pathogen, and in the diagnosis, treatment, and prevention of enterohemorrhagic infections, the entire genomic DNA sequence of E. coli O157:H7 serovar EDL933 (ATCC 43895) was determined and compared with that of E. coli K-12, a nonpathogenic laboratory strain, as described in detail in the examples below.
Surprisingly, the genome of O157:H7 was found to be more than one million base pairs larger than that of K-12 and to have up to 1000 genes not found on K-12. These additional gene sequences are distributed throughout more than 250 sites in islands, with each island containing from zero to sixty genes. An unexpected finding is that many of the new genes resemble virulence determinants from a wide variety of pathogens, ranging from Helicobacter pylori to Clostridium difficile. Numerous sequences of interest were identified in the genome of E. coli O157:H7, including chromosomal, plasmid, and phage sequences.
Attached to this patent application is a sequence listing containing essentially all of the DNA sequence of the regions in the O157 genome that are not present in the K12 genome. This sequence is present in the sequence listing as SEQ ID:NO 1 through SEQ ID:NO 255. These sequences correspond to the 255 islands of O157 DNA that did are not found in K12 DNA. Each of those islands has been assigned an identification (an OZ identification, meaning in the O157 zone of the genome, as opposed to a K12 region). In the description of each of the sequences is a base pair listing of where that particular sequence is found in the underlying backbone of the entire O157 sequence.
Also included in this patent application are two tables intended to make available some of the genetic analysis which has been done on these sequences. Table 1 simply itemizes the 0157 islands by OZ number and lists some of the presently known noteworthy features in the sequenced islands. Table 2 is a listing of the open reading frames (ORFs) identified in each of the OZ sequences. Where the open reading frames have been matched to putative function, such an indication is found matched to the open reading frame in Table 2. The protein encoding by each such ORF can be determined by appropriate conversion of the open reading frame DNA sequence to protein amino acid sequence using the genetic code.
By definition, the genetic material in the OZ sequences described here are sufficient for pathogenocity in humans, since strain O157 is highly pathogenic while K12 is not. In addition, analysis of the open reading frames and computer comparisons to sequences from other pathogens had allowed identification of several of the open reading frames which code for proteins specifically associated with pathogenicity.
A gene encoding an unusually large ORF, designated o3169, which putatively encodes a 3169 amino acid protein, was identified on plasmid pO157, a 92 kb plasmid resident in E. coli O157:H7 in an autonomously replicating form. Data base searches revealed that the deduced amino acid sequence of this putative ORF is similar to the large clostridial cytotoxins, ToxA and ToxB of C. difficile (Dove et al., Infect. Immun 58:480-488 (1990); von Eichel-Streiber et al., Mol. Gen. Genet. 233:260-268 (1992)) and cytotoxin L of C. sordelli (Green et al. Gene 161:57-61, 1995). ToxA, ToxB, and cytotoxin L are 2710, 2366, and 2338 amino acid residues in length, respectively. The sequences of o3169 and its putative translation product are shown in SEQ ID NO:256 and SEQ ID NO:257, respectively.
The clostridial cytotoxins are homologous proteins with three domains (von Eichel-Streiber et al., Trends in Microbiology 4: 375-382 (1996)). The N-terminal region contains a catalytic domain, a glucosyltransferase that acts on small GTP-binding proteins to interfere with their function in the organization of cytoskeletal actin filaments (Just et al., Nature 375: 500-503 (1995)). The central region contains a translocation domain that directs the secretion of the toxin, and the C-terminal region contains a target binding site.
The amino acid identity between the translation product of o3169 and the known cytotoxins is relatively weak (20%) over 444 amino acids, to ToxB. However, the alignment of these sequences is striking. The region having the highest level of amino acid identity is the first (N-terminal) 700 amino acids, which corresponds to the catalytic site of the clostridial toxins.
ToxA damages intestinal mucosal cells, and when ToxA is present, ToxB gains access to the cells underlying the mucosa, causing further damage. By analogy, the putative cytotoxin encoded by o3169 may contribute to the damage to mucosal cells observed in enterohemorrhagic E. coli infections by acting alone or in concert with some other factor to destroy submucosal tissue, thereby causing or exacerbating the acute symptoms of infection. Therefore, the putative toxin is a promising target for treatment of persons infected by enterohemorrhagic E. coli. The administration of an antibody raised against the newly discovered toxin, or a portion of the toxin, could provide an effective treatment of severe symptoms of infection. The administration of the antitoxin could be used in conjunction with antibiotic therapy. Treatment with antibiotics is effective in controlling the infection itself. However, antibiotic therapy alone is ineffective in preventing or alleviating symptoms of the disease if the antibiotic is not administered in time to prevent the production of the toxin.
A cluster of seven genes very similar to the urease genes of numerous other bacterial pathogens has been identified on the chromosome of E. coli O157:H7 and its sequence determined (SEQ ID NO:258). Urease, or urea amidohydrolase, catalyzes the hydrolysis of urea to yield ammonia and carbamate. Expression of the urease genes in urogenital and gastroenteric bacteria is important in pathogenesis. For example, formation of ammonia by cell-surface bound urease in Heliobacter pylori is thought to cause a localized increase in pH allowing survival of the bacteria in the harshly acidic environment of the host's gastric system. In the gastrointestinal pathogens Yersinia enterocolitica and Morganella morganii, urease was found to be activated by low-pH conditions (Young et al., J. Bacteriology 178: 6487-6495 (1996)). The urease isolated from Vibrio parahaemolyticus, which causes gastroenteritis and traveler's diarrhea, has been found to cause intestinal fluid accumulation in suckling mice (Cai and Ni, J. Clin. Lab. Analysis 10(2): 70-73 (1996)). The presence of urea has been found to enhance intracellular survival of urease-positive Bordatella bronchiseptica, a mammalian respiratory pathogen (McMillan et al., Microbial Pathogenesis 21(5): 379-394 (1996)).
Gene order is conserved among most known bacterial urease clusters (Neyrolles et al., J. Bacteriol. 178(9): 2725 (1996)) and the urease gene cluster of E. coli O157:H7. The urease gene cluster begins with ureD, an accessory gene involved with regulation, followed by three structural genes, ureA, ureB, and ureC, and three accessory genes, ureE, ureF, and ureG. The latter three genes are believed to be involved in nickel metallocenter biosynthesis (Moncrief and Hausinger, J. Bacteriol. 178(18): 5417-5421 (1996)). In-frame stop codons prematurely terminate ureD (24 amino acids) and ureE (four amino acids) relative to the C-termini shared by most protein database entries. All 7 ORFs have from 70-96% identity to genes from Klebsiella aerogenes (Mulrooney and Hausinger, J. Bacteriol. 172(10): 5837-5843 (1990)). It is of interest that the sequence of strain EDL933 is more similar to the urease cluster of Klebsiella than that of E. coli strain 1440, the only other E. coli urease sequence presently available (D'Orazio and Collins, J. Bacteriol. 175(6): 1860-1864 (1993)). For example, ureD of EDL 933 is 71% identical to the corresponding gene from Klebsiella aerogenes, but only 47% identical to the plasmid borne ureD gene of E. coli 1440.
Some strains of E. coli, particularly the uropathogens, test positive for urease activity, but EDL933 does not. A urease-positive mutant strain of O157:H7 observed among U.S. clinical isolates (Hayes et al., J. Clin. Microbiol. 33(12): 3347-3348 (1995)) may reflect the activation of a cryptic operon. Alternatively, the urease-positive mutant strain of O157:H7 may reflect a regulatory change for an already functional operon. Analogously, urease-negative Y. pestis exhibits a urease gene complex very similar to those of urease-positive members of the Yersinia genus. (de Koning-Ward and Robins-Browne, Gene 182(1-2): 225-228 (1996)).
The urease gene cluster has potential utility in vaccine development. For example, the whole gene cluster could be genetically engineered into an attenuated strain to be used as a vaccine. The urease gene cluster would enhance the ability of the vaccine strain to survive the acid environment of the stomach.
An O157:H7 chromosomal gene cluster related to the RTX family of cytotoxins was identified as described in the examples below. The RTX cytotoxins are a group of exotoxins produced by Gram-negative bacteria that share the properties of secretion by a leader-independent pathway and a tandemly repeated sequence nine amino acids in length that is responsible for calcium binding (Welch et al., FEMS Microbiol. Immunol. 5: 29-36 (1992)). RTX toxins recognize a beta2 integrin on the surface of host cells (Lally et al., J. Biol. Chem. 272: 30463-30469 (1997)). Known members of the family include apxIA, apxIIA, and apxIIIA from Actinobacillus pleuropneumoniae, cyaA from Bordetella pertussis, frpA from Neisseria meningitidis, prtC from Erwinia chrysanthemi, hlyA and elyA from Escherichia coli, aaltA from Actinobacillus actinomycetemcomitans, and lktA from Pasteurella haemolytica. Hybridization studies using probes designed from sequences of these known toxins identified potential RTX toxin genes in several pathogenic bacterial species for which no RTX toxins were previously known, indicating that RTX or RTX-like toxins are widely distributed among pathogenic gram-negative bacteria (Kuhnert et al., Appl. Environ. Microbiol. 63: 2258-2265, (1997)). The novel O157:H7 toxin locus (SEQ ID NO:259 and SEQ ID NO:260) comprises three genes, including the putative toxin and two proteins involved in transport. The gene order and sizes are consistent with other RTX loci. The putative toxin gene shows only marginal similarity to other RTX toxins, and the match is limited to the glycine-rich calcium binding repeat region. The more highly conserved transport genes are approximately 40% identical to related genes found in other RTX clusters.
The Locus of Enterocyte Effacement (LEE) is a 45 kb cluster of genes involved in intimate adherence of pathogens to intestinal epithelial cells, initiation of host signal, transduction pathways, and formation of attaching and effacing lesions (McDaniel et al., Proc. Natl. Acad. Sci. 92: 1664-1668, (1995); McDaniel and Kaper, Molecular Microbiology 23: 399-407 (1997)). Colony hybridization studies indicate that sequences homologous to the entire element are found in numerous enteropathogenic E. coli (EPEC), enterohemorrhagic E. coli (EHEC), and other related bacteria (McDaniel et al., Proc. Natl. Acad. Sci. (1995)). The O157:H7 LEE sequence is shown in SEQ ID NO:261. Sequence data is currently available for the entire LEE from another EPEC strain E2348/69. Comparisons of the O157:H7 LEE to that of E2348/69 revealed that although many genes were nearly identical between the two strains, other genes are markedly variable. This variability is nonrandom with respect to gene function, in that all proteins known to be exported to the extracellular environment are variable, whereas those proteins known to constitute the secretion machinery are invariant. A similar observation has been made based on comparisons of the inv-spa complex of Salmonella enterica (Boyd et al. J. Bacteriol. 179: 1895-1991 (1997)).
Four contiguous LEE genes, L0027, L0028, L0029, and L0030, have been selected for their diagnostic potential. A comparison of these genes from EDL933 and the corresponding genes in E2348/9 revealed significant differences between the strains: L0027 (33.52% difference); L0028 (17.48%); L0029 (21.94%); and L0030 (25.30%). In E2348/69, the homolog of known L0027 is known as tir (B. Kenny et al., Cell 91: 511-520). The tir gene encodes a product that is translocated from the bacterium to the host cell where it serves as the receptor for intimin, another LEE encoded gene product. Little is known about the function and role in pathogenesis of the other three hypervariable virulence LEE genes. The L0028 gene product shows 27% identity with a hypothetical protein encoded in a Shigella virulence-associated cluster (Elliot et al, Mol. Mircro., in press). The deduced amino acid sequence of the L0027 gene shows slight similarity to a secreted protein in the plant pathogen Erwinia amylovora, and the L0028 translational product has 27% identity with a hypothetical protein encoded in a Shigella virulence-associated cluster (Elliot et al. Mol. Micro., in press).
The entire toxin-converting phage 933W was sequenced as described in the examples. Two novel gene sequences with potential diagnostic and therapeutic value were identified. The first is an ORF (SEQ ID NO:262) that encodes a protein (SEQ ID NO:263) that resembles members of the eukaryotic family of serine/threonine kinase (stk). The amino acid sequence similarities span the conserved regions in the catalytic domain of the eukaryotic protein kinases, including both the ATP binding and active site patterns as described in the PROSITE database. BLASTP, FASTA, and DeCypher II searches with the stk sequences all yield much higher scoring matches to the eukaryotic serine/threonine protein kinases than do searches with the YpkA protein of Yersinia pseudotuberculosis and Y. enterocolitica. There is some suggestion that the Yersinia protein kinase is involved in virulence, by interfering with the signal transduction pathway of the mammalian host, and bacteriophage 933W may interfere with the host systems in the same manner.
Shiga-like toxins, which are encoded by lysogenic bacteriophages, are considered to be one of the major pathogenic features of enterohaemorrhagic E. coli strains. Toxin genes have been previously sequenced in 933W. Based on the arrangement of the 933W and our knowledge of phage organization, we postulated that shiga-like toxin genes are “late genes” the expression of which is controlled by a homologue of the Q gene of bacteriophage lambda. If in fact the shiga-like toxin genes are late genes, the toxins would be expressed only during a lytic infection. Bacterial cells already carrying the prophage would be immune to super-infection by the phage released during a lytic phase of growth. However, non-lysogens in the vicinity could be infected and produce additional phage and toxin in what can be envisioned as an amplification by recruitment. Thus any late gene product could be an indicator of a condition under which toxin production would be increased. We have identified a putative tail fiber gene in the bacteriophage sequence. The coding region and the deduced amino acid sequence of the gene are shown in SEQ ID NO:264 and SEQ ID NO:265, respectively. The phage tail fibers, expressed by late genes, are required for infection of new bacterial hosts during the lytic phase of growth. Therefore, antibodies to this protein could serve as a diagnostic, as well as a therapeutic to prevent the proposed recruitment and infection of other bacterial cells.
Several other putative pathogenocity genes have been identified as well. The following is a list of additional pathogenic genes by reference to the segment (OZ number) and to the open reading frame (F0 number) in which the sequence for that pathogen gene is presented below.
Toxins


    OZID—175 (F1037) homolog of Shigella SHeT
    OZID—175 (F1041, F1042) putative Clostridium difficile ToxAB-like cytotoxin
    OZID—11 (F0027) Legionella pneumophila IcmF-like homolog

Fimbriae

    Attachment to the host:
    OZID—197 (F1133-F1139)
    OZID—215 (F1231-F1237)
    Both encode six proteins most similar to those of the lpfABCDE locus of Salmonella.

Iron Utilization

    Iron is complexed in hemoglobin in the host so that infecting bacteria need efficient systems to actively acquire iron.
    OZID—196 (F1124-F1132) chu locus homologous to the shu locus of Shigella dysenteriae 
    OZID—29 (F1132-F1134) homologous to the Actinobacillus pleuropneumoniae afuABC locus
    OZID—176 (F1054-1059) a putative siderophore receptor and associated proteins plus one hypothetical protein, similar to FecD, FecC (both permeases) and FecE (ATP-binding protein) of Synechocystis.
    OZID—78 (F0527 F0528), tonB-dependent outer membrane receptor, and ABC transporter
    OZID—59 (F0294) putative exogenous ferric siderophore receptor similar to R4
    OZID—62 (F0360) Salmonella IroE-like protein,

Phage Encoded

    OZID—98 (F0630) and OZID—139 (F0825), putative superoxide dismutases, potentially giving protection from oxidative stress

Metabolic Capabilities

    These may contribute to the ability to grow in the intestinal environment.
    OZID—26 (F0125-F0131) high affinity ribose transport system
    OZID—29 (F0135-F0137) hexose-phosphate transport
    OZID—49 (F0167-F0179) includes glutamate fermentation, fumarase, ATP-transferase
    OZID—59 (F0256-F0262) urease
    OZID—62 (F0394-F0409) fatty acid/polyketide biosynthesis, interspersed unknowns
    OZID—151 (F0921-F0925) sucrose utilization, D-serine permease part of 12 kb island
    OZID—156 (F0932-F0934) DMSO reductase-anaerobic
    OZID—193 (F1097-F1113) fatty acid biosynthesis
    OZID—194 (F1115-F1123) PTS and sugar modification enzymes, substrate unknown
    OZID—232 (F1266-F1272) PTS sorbose
    OZID—233 (F1274-F1282) sugar (ribose) transport, modification


One wishing to practice the present invention using one of the disclosed sequences could do so by isolating the sequence from ATCC 43895 using knowledge of the nucleotide sequence and standard methods known to one of skill in the art.
It is expected that minor sequence variations in E. coli O157:H7-specific nucleotide sequences associated with nucleotide additions, deletions, and mutations, whether naturally occurring or introduced in vitro, would not interfere with the usefulness of these sequences in the detection of enterohemorrhagic E. coli, in methods for preventing EHEC infection, and in methods for treating EHEC infection. Therefore, the scope of the present invention is intended to encompass minor variations in the claimed sequences.
By an E. coli O157:H7-specific nucleotide probe it is meant a sequence that is able to hybridize to E. coli O157:H7 target DNA present in a sample containing E. coli O157:H7 under suitable hybridization conditions and which does not hybridize with DNA from other E. coli strains or from other bacterial species. It is well within the ability of one skilled in the art to determine suitable hybridization conditions based on probe length, G+C content, and the degree of stringency required for a particular application.
The probe may be RNA or DNA. Depending on the detection means employed, the probe may be unlabeled, radiolabeled, or labeled with a dye. The probe may be hybridized with a sample that has been immobilized on a solid support such as nitrocellulose or a nylon membrane, or the probe may be immobilized on a solid support, such as a silicon chip.
The sample to be tested may include blood, urine, feces, or other materials from a human or a livestock animal. Alternatively, the sample may include food intended for human consumption. The sample may be tested directly, or may be treated in some manner prior to testing. For example, the sample may be subjected to PCR amplification using appropriate oligonucleotide primers.
Any means of detecting DNA-RNA or DNA-DNA hybridization known to the art may be used in the present invention.
Also presented in this specification is a series of sequence listings constituting the entire sequence of all portions of the genome of E. coli O157:H7 that do not appear in strain K12. These sequences are presented as SEQ:ID:NO:1 to SEQ:ID:NO:255 below. Since all of these sequences are diagnostic of 0157:H7, as compared to K12, sequence information from any of these sequences can be used to design diagnostic probes useful to distinguish strain 0157:H7 from strain K12 using molecular techniques. To have reasonable assurance of success under conditions of variable stringency, it is preferred that such diagnostic probes use sequences which are at least 25 nucleotides or longer in length. Any 25-mer selected from amongst any of the sequences in any of SEQ:ID:NO:1 through SEQ:ID:NO:255 may be used for such a probe.
EXAMPLES
Isolation and Cloning of DNA
A 45-Kb LEE was isolated from EDL933, an EHEC 0157:H7 serovar, using a homologous recombination driven targeting vector (Posfai et al. J. Bacteriol. 179: 4426-4428 (1997)). Briefly, a targeting vector, loaded with known chromosomal sequence flanking LEE, was used to introduce novel flp recombinase target sites by homologous recombination. Expression of flp from a helper plasmid promotes excision of the target as a small plasmid. The excised plasmid DNA was shotgun cloned into the Janus M13 vector (Burland et al., Nucleic Acids Res. 21:3385-3390 (1993)). The urease gene cluster and the RTX toxin locus were isolated and cloned in the same manner as LEE (Posfai et al. J. Bacteriol. 179:4426-4428 (1997)).
Phage 933W obtained from the supernatant of a liquid culture of E. coli O157:H7 serovar EDL933 was used to infect E. coli K-12 strain LE392 in liquid culture. Phage were propagated in E. coli K-12 strain LE392 and isolated using standard methods. Purifying the phage by standard methods including a CsCl-EtBr density gradient centrifugation step, and isolating the viral DNA. The viral DNA was sheared by nebulization and shotgun cloned into the Janus M13 vector.
The plasmid p0157 was isolated from E. coli O157:H7 EDL933W using standard methods known to the art. The plasmid was shotgun cloned into the Janus M13 vector.
Total genomic DNA from E. coli O157:H7 EDL933 was shotgun cloned into the Janus M13 vector.
DNA Sequence Determination and Analysis
Random shotgun cloning of total genomic DNA into the Janus M13 vector (Burland et al., Nucleic Acids Res. 21: 3385-3390 (1993)) provided template for automated sequencing using dye-terminator chemistry. A sufficient number of random clones was sequenced to provide 6× coverage of each element with a minimum quality of 2× coverage, including both strands, for all regions. The sequences were assembled using SeqManII (DNASTAR) and edited manually.
Open reading frames were located with GeneQuest (DNASTAR) using both E. coli and phage trained matrices and annotated based on protein sequence searches (DeCypherII Hardware/software System, TimeLogic, Inc.). All sequence alignments were performed using MegAlign or Align (DNASTAR) and levels of divergence were assessed with the Molecular Evolutionary Genetic Analysis (MEGA) software package (Kumar et al., MEGA: Molecular evolutionary genetics analysis. The Pennsylvania State University, University Park (1993)). The Codon Adaptation Index (CAI) was calculated by the method of Sharp and Li (Nucleic Acids Res. 15(3): 1281-1295 (1987)).









TABLE 1






Length 



Sequence_ID
(bp)
Description

















OZID_1
6506
putative outer membrane protein, usher and




chaperone, possibly fimbrial


OZID_2
41
small (41 bp) no features


OZID_3
635
topoisomerase toxin-antitoxin system


OZID_4
1010
unknown


OZID_5
35
small (35 bp) no features


OZID_6
30
small (30 bp) no features


OZID_7
9381
putative fimbrial biosynthesis cluster homologous




to K-12 but highly divergent


OZID_8
32
small (32 bp), no features


OZID_9
124
unknown, no ORFs


OZID_10
221
yafE, putative enzyme


OZID_11
31960
many unknowns, putative macrophage toxin, clpB




paralog, and rhsG


OZID_12
3660
rhs element


OZID_13
10523
lambdoid prophage integrated downstream of tRNA-




thrW


OZID_14
12886
P4-like prophage integrated downstream of tRNA-




thrW


OZID_15
6133
unknowns including 3 orfs similar to cluster 




(orf2, orf3, opdE) implicated in regulation




of a Pseudomonas aeruginosa porin for




imipenem/basic amino acid uptake,




begins within B0282-yagP, putative regulator


OZID_16
2450
ISEc8 plus 8bp duplicated target site


OZID_17
4716
several oxidoreductases, unknowns and a




transcriptional regulator


OZID_18
3695
extends C-terminus of eaeH creating a much longer putative adhesin




similar to intimin of the LEE of this




organism and invasins of Yersinia, extends C-




terminus of ykgA, putative regulator


OZID_19
589
putative dehydrogenase (partial)


OZID_20
100
putative dehydrogenase (partial)


OZID_21
4998
unknowns including putative broken recombinase




and possible invertible region


OZID_22
4643
putative secreted protein similar to AIDA-l




(diffuse adherence in DAEC 2787) and




transport protein


OZID_23
94
REP region


OZID_24
93
no features


OZID_25
598
unknowns


OZID_26
4588
putative sugar (possibly ribose) transport system


OZID_27
565
spanned by REP region


OZID_28
1834
putative regulator and unknown


OZID_29
8114
ferric iron uptake system similar to afuABC of




Actinobacillus and two component regulatory




system similar to uhpABC which is involved




with hexose phosphate transport


OZID_30
1394
putative structural protein created by merging 5′




end of B0371-yaiT and B0374-yaiU


OZID_31
45
small (45 bp)


OZID_32
1939
creates alternate N-ter (much longer reading




frame) for K-12 orf B0392, unknown


OZID_33
372
unknown


OZID_34
1650
unknown


OZID_35
687
unknowns similar to unknowns found in Yersinia




and Mycobacterium


OZID_36
1983
unknown


OZID_37
39
small (39 bp) no features


OZID_38
53
small (53 bp), no annotated features


OZID_39
25165
putative novel RTX-like exoprotein and transport




system


OZID_40
2643
unknowns, REP region


OZID_42
29
REP region


OZID_43
11613
novel Rhs element


OZID_44
491
largely a tandem repeat of preceding 468 bp (one




copy in K-12 and it is disrupted by IS186)


OZID_45
30
small (30 bp) no features


OZID_46
520
IRU with 69 bp deletion in center


OZID_47
1403
small unknowns


OZID_48
70
small (70 bp), no annotated features


OZID_49
13965
putative glutamate uptake and fermentation system




plus several unknowns


OZID_50
49
small (49 bp) no features


OZID_52
38577
lambdoid prophage


OZID_53
2807
unknowns


OZID_54
103
internal segment of unknown, REP region


OZID_55
996
2 unknowns


OZID_56
3515
unknowns and putative sulfatase


OZID_57
2561
2 unknowns


OZID_58
349
unknown


OZID_59
87563
3′ end of serW; integrase, urease, tellurite




resistance, complement resistance,




diacylglycerol kinase, colicin immunity,




secreted proteins, outer membrane receptor,




DNA repair, CP4-like prophage ORFs,




unknowns; IS cluster, partials, ISEc8,




IS629, IS1A


OZID_60
40
39 bp insertion in ftsK leading to 13 aa insertion in a




glutamine and proline rich repetitive region


OZID_61
40
small (40 bp), no annotated features


OZID_62
49795
putative lambdoid phage beginning in 3′ end of serT




tRNA includes some genes similar to database




entries: integrase, unknowns, division




inhibition protein, lambdoid phage lysis




genes, regulator. Partial IS elements,




enterotoxin EAST1, IS629 with deletion


OZID_63
2512
continued from the end of previous contig


OZID_64
61658
933W, fully described in Plunkett et al.,




J. Bacteriol. 181:1767-1778 (1999)


OZID_65
2499
unknown


OZID_66
31728
large cluster including many unknowns, a pilin-




like structural subunit and chaperone, putative




secreted protein, HecB-like protein and




several genes encoding components




of a fatty acid or polyketide biosynthesis system


OZID_67
988
no annotated features


OZID_68
9827
no annotated features


OZID_69
1411
2 genes similar to elements of the 933L, the




cryptic P4-family prophage in the LEE


OZID_70
104
REP region


OZID_71
26173
lambdoid prophage with a broken integrase similar




to e14 and P21, also sporadic matches to




other E. coli phage, including 933W


OZID_72
3191
IS2 and IS285 partials, unknown orfs


OZID_73
15472
lambdoid prophage with Salmonella-like integrase,




sporadic matches to other coli phage,




Streptomyces phi-C31 and Bacillus




phi-105, REP region


OZID_74
46819
lambdoid prophage with P21-like integrase and




excisionase, and very lambda-like structural genes;




IS629 with deletion


OZID_75
33
small (33 bp), no annotated features


OZID_76
92
no annotated features


OZID_77
1313
IS629 is entire segment


OZID_78
6737
TonB dependent outer membrane receptor,




molybdenum and/or iron transport proteins,




and several unknowns


OZID_79
75
no annotated features


OZID_80
41
no features


OZID_81
38276
lambdoid prophage with P21-like integrase,




sporadic matches to various E. coli and B.




subtilis phage, lambda-like tail components,




a partial tonB paralog, and many unknowns


OZID_82
354
no annotated features


OZID_83
205
unknown


OZID_84
1494
unknowns


OZID_85
498
extends N-terminus of K-12 hypothetical B1522


OZID_86
124
unknown


OZID_87
3281
putative fimbrial genes including an usher,




chaperone and structural subunit


OZID_88
1548
1 unknown and 2 orfs similar to bacteriophage




PA-2


OZID_89
653
within a K-12 putative glycoprotein (B1471)


OZID_90
33
rhs element


OZID_91
1206
rhs element, partial IS1N


OZID_92
4447
rhs element


OZID_93
1813
unknowns


OZID_94
32
small (32 bp) no features


OZID_95
4268
unknowns most similar to a broken K-12 gene




(ydbA=rtoA) in the replaced region, possibly




hypervariable with a duplication, but lacking




an IS2-IS30 hybrid; REP region


OZID_96
3404
unknowns


OZID_97
101
no features


OZID_98
34063
lambdoid phage with many unknowns, mixed




matches to E. coli phage including 933W, H-19B,




N15, P21, and very lamda-like tail




components, IS629


OZID_99
494
unknown


OZID_100
873
two orfs similar to cl and cro of bacteriophage




HK022


OZID_101
1313
IS629 is whole segment


OZID_102
883
unknowns


OZID_103
665
unknown


OZID_104
7886
putative drug resistance efflux pump


OZID_105
3983
chaperone protein, IS630 partial


OZID_106
6232
putative phage components and unknown orfs


OZID_107
1711
unknown orfs


OZID_108
44
no annotated features; 44 bp


OZID_109
841
unknown orf


OZID_110
1314
IS629


OZID_111
225
225 bp; no features


OZID_112
102
102 bp; no features


OZID_113
21119
HP1/S2 integrase; phage regulator and replication




proteins, partition genes, P2 tail fiber components,




IS30 and IS629 partials


OZID_114
931
part of flagellin


OZID_115
1958
orf similar to YopM of Y. enterocolitica


OZID_116
62
small (62 bp) no features


OZID_117
38
small (38 bp) no features


OZID_118
45175
lambdoid phage components lom, tail fiber,




regulators, and integrase. Contains ClpP




peptidase, cell division regulator, unknown orfs,




IS629, 4 REP regions


OZID_119
906
part of K-12 largest ORF


OZID_120
2448
ISEc8


OZID_121
3275
unknowns, IS629


OZID_122
210
unknowns


OZID_123
14187
complete O157 O-antigen biosynthesis cluster


OZID_124
1376
putative UDP-galactose 4-epimerase


OZID_125
88
88 bp; no annotated features


OZID_126
745
bacteriophage N15 gp49; putative regulator


OZID_127
328
328 bp; no annotated features


OZID_128
2272
unknowns


OZID_129
30
small (30 bp) no features


OZID_130
958
putative fimbrial component; hypervariable homolog




of yehA


OZID_131
69
no features


OZID_132
26
small (26 bp) no features


OZID_133
30
small (30 bp) no features


OZID_134
3823
putative regulator of molybdate metabolism


OZID_135
1304
putative regulator of molybdate metabolism


OZID_136
935
unknowns


OZID_137
1313
IS629


OZID_138
25
small (25 bp) no features


OZID_139
48907
Lambdoid phage components lom, putative




prophage components; phage contains Shiga toxin




SLTla and b subunits, Q regulator and putative




superoxide dimutase; putative CTX putative




proteases, ISEc8, unknowns, integrase,




REP region


OZID_140
41
40 bp; no annotated features


OZID_141
377
unknown


OZID_142
6185
aromatic degradation cluster; LYS-R-type




regulator, partial BoxC repeat


OZID_143
150
150 bp; no annotated features


OZID_144
1879
putative antibiotic efflux protein


OZID_145
1713
unknown


OZID_146
36
small (36 bp) no features


OZID_147
207
partial RSA repeat


OZID_148
182
unknown, spanned by REP region


OZID_149
7198
unknowns; begin hypervariable fimbrial subunits,




chaperone and ushers


OZID_150
186
part of unknown ORF


OZID_151
12804
bacteriophage P22 gp7 and 14; unknowns; putative




resolvase; sucrose permease, hydrolase and




regulator, fructokinase.


OZID_152
1748
ISEco1253 is entire segment


OZID_153
396
unknowns


OZID_154
35
small (35 bp) no features


OZID_155
48
small (48 bp) no features


OZID_156
4859
DMSO reductase subunits


OZID_157
42
part of unknown ORF


OZID_158
132
putative ATP synthase beta subunit


OZID_159
4190
unknowns; putative chaperone


OZID_160
17136
unknowns; lambdoid bacteriophage components




Rz, R, antirepressor, Q, nin, lambdoid




unknowns, IS30 and IS911 partials, integrase,




REP region


OZID_161
2077
putative regulator; unknown


OZID_162
40
small (40 bp) no features


OZID_163
2936
unknowns; putative decarboxylase, putative




regulator


OZID_164
9179
Beginning of series of unknowns similar to K-12




counterparts: hypervariable; 3 iap repeats


OZID_165
32
small (32 bp) no features


OZID_166
3487
unknowns


OZID_167
236
unknown


OZID_168
16950
large cluster encoding a putative type III




secretion system, response regulator for 2




component system, InvF-like and putative




secreted proteins, and a putative lipoprotein


OZID_169
78
part of a putative lipoprotein


OZID_170
80
no features


OZID_171
395
part of a putative D-3 phosphoglycerate




dehydrogenase


OZID_172
3267
unknowns; putative ATP-binding components of




ABC transport system; part of a putative kinase


OZID_173
935
unknown


OZID_174
87
87 bp; REP region


OZID_175
23451
putative P4-type integrase; putative enterotoxin,




cytotoxin and PagC-like virulence factors; ISEc8




complex cluster; IS2, IS1N, ISEc8, IS630 partials;




IS629; ISEc8, IS3 and 1S911 partials


OZID_176
7304
putative iron compound transport system, REP




region


OZID_177
62
62 bp; no annotated features


OZID_178
375
not annotated


OZID_179
100
REP region


OZID_180
28
small (28 bp) no features


OZID_181
2326
PTS subunits


OZID_182
1307
unknowns; IS629; N-terminus of a putative




fimbrial protein


OZID_183
54
no features


OZID_184
53
small (53 bp) no features


OZID_185
674
not annotated


OZID_186
73
no features


OZID_187
889
unknowns


OZID_188
2906
unknowns


OZID_189
3511
unknowns; helicase (3 ORFs)


OZID_190
1819
unknowns


OZID_191
1041
unknowns


OZID_192
943
unknowns


OZID_193
15393
unknowns; putative enzymes of fatty acid




biosynthesis (acyl carriers, synthases and




reductase); unclassified putative enzymes


OZID_194
6563
unknowns; putative PTS subunits; putative




xylulose kinase, putative phosphocarrier;




putative aldolase


OZID_195
25
small (25 bp) no features


OZID_196
9057
heme/hemoglobin uptake system homologous to




the Shu system of Shigella dysenteriae


OZID_197
5903
putative long polar fimbrial subunits, usher




and chaperone


OZID_198
39
small (39 bp) no features


OZID_199
4021
putative regulator, putative permease, unknown


OZID_200
217
C-termini of an unknown and a putative




outer membrane protein


OZID_201
1368
unknown


OZID_202
6091
unknown; putative adhesin


OZID_203
5407
putative LPS biosynthesis enzymes


OZID_204
39
small (39 bp) no features


OZID_205
62
small (62 bp) no features


OZID_206
140
hypervariable


OZID_207
857
unknown


OZID_208
43418
LEE element; fully described in Perna et al.,




Infection and Immunity 66: 3810-3817 (1998)


OZID_209
840
unknowns


OZID_210
3357
unknowns


OZID_211
508
part of putative 6-phospho-beta-glucosidase


OZID_212
2625
unknowns


OZID_213
27
small (27 bp) no features


OZID_214
7425
unknowns, REP region


OZID_215
6943
putative lpf-like fimbrial subunits, usher and




chaperones


OZID_216
1003
unknowns, REP region overlaps left end


OZID_217
2692
unknowns


OZID_218
48
small (48 bp) no features


OZID_219
38
small (38 bp) no features


OZID_220
34
34 bp; REP region


OZID_221
48
48 bp, no features


OZID_222
989
unknown


OZID_223
46
46 bp; no features


OZID_224
2047
unknowns


OZID_225
1751
putative glycoporin


OZID_226
136
REP region


OZID_227
1522
unknowns


OZID_228
5519
RHS core; unknowns; partial ISN1


OZID_229
2691
putative hippuricase, putative citrate permease


OZID_230
131
hypervariable


OZID_231
107
REP region


OZID_232
6318
putative PTS for sorbose


OZID_233
9306
putative response regulator, putative aldolase,




putative ABC transport system for ribose,




putative histidine kinase


OZID_234
164
no features


OZID_235
1748
ISEco1253, no other features


OZID_236
26
small (26 bp) no features


OZID_237
46
no features


OZID_238
32
small (32 bp) no features


OZID_239
29
small (29 bp) no features


OZID_240
194
unknown, spanned by REP region


OZID_241
90
no features


OZID_242
10236
IS629; unknowns; putative resolvase; partial




IS1351


OZID_243
1089
no features


OZID_244
31880
unknowns; putative helicases


OZID_245
5629
putative invasin


OZID_246
2797
unknowns


OZID_247
25
small (25 bp) no features


OZID_248
2235
conserved unknowns


OZID_249
7808
putative restriction/modification system;




conserved unknowns


OZID_250
822
unknown


OZID_251
53
small (53 bp) no features


OZID_252
287
unknown


OZID_253
22306
unplaced contig; putative phage components


OZID_254
12848
unplaced contig; putative phage components




and unknown orfs


OZID_255
5836
unplaced contig; phage components


OZID_256
11481
unplaced contig; phage components


OZID_257
4229
unplaced contig, putative phage components




and unknown orfs




















TABLE 2







Orf—
Orf—



Sequence_ID
Orf_ID
Start
End
Description



















OZID_1
F0003
823
497



OZID_1
F0004
3286
836
putative usher protein


OZID_1
F0005
3982
3299
putative chaperone protein


OZID_1
F0006
4526
4032
putative fimbrial subunit-like






structural protein


OZID_1
F0007
6288
4867


OZID_100
F0579
289
744


OZID_101
F0578
55
381
unknown in IS


OZID_101
F0577
378
1268
putative transposase


OZID_102
F0575
346
873


OZID_104
F0573
1208
45
putative transmembrane protein


OZID_104
F0572
2590
1217
putative outer membrane






channel protein


OZID_104
F0571
5696
2613
putative efflux pump


OZID_104
F0570
6850
5696
putative efflux pump


OZID_104
F0569
7631
6966
putative transcriptional






repressor


OZID_105
F0568
3882
3292
putative chaperone


OZID_106
F1382
1086
442


OZID_106
F1381
1478
1083


OZID_106
F1380
2162
1494


OZID_106
F1379
2263
2084


OZID_106
F1378
3029
2289


OZID_106
F1377
4013
3036


OZID_106
F1376
4446
4021


OZID_106
F1375
4780
5214


OZID_106
F1374
5181
5426


OZID_107
F0664
153
1232


OZID_107
F0665
1305
1556


OZID_11
F0021
620
324


OZID_11
F0022
1066
617


OZID_11
F0023
1665
1069


OZID_11
F0024
2007
1744


OZID_11
F0025
2465
1986


OZID_11
F0026
3930
2431


OZID_11
F0027
7147
3851


OZID_11
F0028
8216
7422


OZID_11
F0029
8833
8213


OZID_11
F0030
9581
8838


OZID_11
F0031
12349
9578
putative protease


OZID_11
F0032
13119
12358


OZID_11
F0034
14455
13124


OZID_11
F0035
14955
14458


OZID_11
F0036
16259
14979


OZID_11
F0037
17372
16284


OZID_11
F0038
19180
17330


OZID_11
F0039
19597
19184


OZID_11
F0040
21079
19688


OZID_11
F0041
21354
21130


OZID_11
F0042
21889
21389


OZID_11
F0043
22586
23104


OZID_11
F0044
23314
25455


OZID_11
F0045
25531
29745


OZID_11
F0046
29748
30359


OZID_11
F0047
30698
30997


OZID_110
F0667
53
379
orf; conserved hypothetical






protein in IS


OZID_113
F0670
381
106
integrase (partial, C-terminus)


OZID_113
F0671
1106
282
integrase (partial, N-terminus)


OZID_113
F0672
1459
1112


OZID_113
F0673
2139
1489


OZID_113
F0674
2559
2155
putative phage-related repressor


OZID_113
F0675
2635
2841


OZID_113
F0676
2858
3061
putative phage related regulator


OZID_113
F0677
3083
3433
peptidase


OZID_113
F0678
3444
3722


OZID_113
F0679
3734
3976


OZID_113
F0680
4179
4595


OZID_113
F0681
4619
4822


OZID_113
F0682
4819
5085


OZID_113
F0683
5082
5381


OZID_113
F0684
5393
6010


OZID_113
F0685
5704
5934


OZID_113
F0686
6007
6372


OZID_113
F0687
6379
9201
putative phage replication protein


OZID_113
F0688
9278
10237
putative partition protein


OZID_113
F0689
10242
10556
putative partition protein


OZID_113
F0690
11265
10576
IS629 transposase


OZID_113
F0691
11591
11265
on; hypothetical protein






conserved in several IS elements


OZID_113
F0692
11762
12178
phage morphogenesis protein


OZID_113
F0694
12157
12477


OZID_113
F0693
12173
11889


OZID_113
F0695
12827
12222
acetlytransferase


OZID_113
F0696
13445
12951
putative phage tail fiber protein


OZID_113
F0697
14288
13452


OZID_113
F0698
16291
14165
putative tail fiber component


OZID_113
F0699
16397
16242
putative tail fiber protein






component


OZID_113
F0700
16771
16406
putative tail fiber component


OZID_113
F0701
17338
16826
putative tail fiber component


OZID_113
F0702
18522
17338
putative tail fiber component


OZID_113
F0703
18548
19003


OZID_113
F0704
20144
18954
IS30 transposase


OZID_113
F0705
20636
20244


OZID_113
F0706
20866
21117


OZID_118
F0709
505
1158


OZID_118
F0710
1483
2637


OZID_118
F0711
4353
3034


OZID_118
F0712
5011
4412
membrane protein


OZID_118
F0713
7505
5079
phage tail protein


OZID_118
F0714
8557
7382
phage tail protein


OZID_118
F0715
9475
8798
phage tail protein


OZID_118
F0717
10116
9373
phage tail protein


OZID_118
F1425
10304
10284


OZID_118
F0718
10825
10127
phage tail protein


OZID_118
F0719
11154
10825
phage tail protein


OZID_118
F0720
11825
11151
phage tail protein


OZID_118
F0721
13806
11758
phage tail protein


OZID_118
F0722
14149
13841
phage tail protein


OZID_118
F0723
14472
14176
phage tail protein


OZID_118
F0724
15366
14614
phage tail protein


OZID_118
F0725
15772
15374
phage tail protein


OZID_118
F0726
16414
15785
phage tail protein


OZID_118
F0727
16692
16411


OZID_118
F0728
17011
16685


OZID_118
F0729
18139
17099


OZID_118
F0730
18261
18587
on; hypothetical protein in






IS


OZID_118
F0804
18584
19474
IS629 transposase


OZID_118
F0732
19440
19631


OZID_118
F0733
20583
19477
putative peptidase


OZID_118
F0734
21883
20381


OZID_118
F0735
22044
21883


OZID_118
F0736
24215
22092


OZID_118
F0737
24688
24212


OZID_118
F0738
25610
25143
cell lysis protein


OZID_118
F0739
26333
25764
antirepressor


OZID_118
F0740
27137
26604
cell lysis protein


OZID_118
F0741
27535
27188


OZID_118
F0742
27857
27537
cell lysis protein


OZID_118
F0743
29755
27902


OZID_118
F0744
30586
30233


OZID_118
F0745
31984
31295
phage late gene regulator






Q


OZID_118
F0746
32340
31981
putative endonuclease


OZID_118
F0747
33402
32353


OZID_118
F0748
33811
33404


OZID_118
F0749
34398
34249


OZID_118
F0750
35026
34463


OZID_118
F0751
35446
35153


OZID_118
F0752
35649
35461


OZID_118
F0753
36002
35646


OZID_118
F0754
36223
35999


OZID_118
F0755
37009
36245


OZID_118
F0756
37640
36978


OZID_118
F0757
38475
37432


OZID_118
F0758
38963
38538


OZID_118
F0759
39187
38960
putative regulator, cell division


OZID_118
F0760
39282
39872


OZID_118
F0761
40204
40356


OZID_118
F0762
40837
41025
putative inhibitor of cell division


OZID_118
F0763
41022
41210


OZID_118
F0764
41068
41166


OZID_118
F0765
41306
43777


OZID_118
F0766
43836
44039


OZID_118
F0767
44039
45061
integrase


OZID_12
F0050
571
1749


OZID_12
F0051
1951
2214


OZID_12
F0052
2395
3567


OZID_120
F0769
71
472


OZID_120
F0770
469
816


OZID_121
F0773
2019
2345
unknown in IS


OZID_121
F0774
2342
3232
IS629 transposase


OZID_123
F0777
845
180
acetyl transferase; 0-antigen






biosynthesis


OZID_123
F0778
3478
2108
phosphomannomutase


OZID_123
F0779
4930
3482
mannose-1-P guanosyltransferase


OZID_123
F0780
5421
4912
GDP-mannose mannosylhydrolase


OZID_123
F0781
6395
5424
fucose synthetase


OZID_123
F0782
7510
6392
GDP-mannose dehydratase


OZID_123
F0783
8744
7530
glycosyl transferase


OZID_123
F0784
9869
8769
perosamine synthetase


OZID_123
F0785
11257
9866
O antigen flippase


OZID_123
F0786
11990
11244
glycosyl transferase


OZID_123
F0787
12942
11959
O antigen polymerase


OZID_123
F0788
13922
13140
glycosyl transferase


OZID_124
F0789
1232
237
putative UDP-galactose






4-epimerase


OZID_126
F0790
73
411


OZID_126
F0791
401
691
putative regulator


OZID_128
F0793
199
438


OZID_128
F0794
1489
1836


OZID_128
F0795
1846
2160


OZID_13
F0054
1107
862
early gene regulator


OZID_13
F0055
1737
1348


OZID_13
F0056
2458
1865
repressor


OZID_13
F0058
2679
2879
antirepressor


OZID_13
F0057
2783
2538


OZID_13
F0059
2938
3291
antiterminator


OZID_13
F0060
3324
3932
phage DNA replication


OZID_13
F0061
3872
4246
phage DNA replication


OZID_13
F0062
4243
4554
phage DNA replication


OZID_13
F0063
4536
5264


OZID_13
F0064
5276
5728
phage tail protein


OZID_13
F0065
6293
5700
phage tail protein


OZID_13
F0067
6781
7371
DNA invertase


OZID_13
F0066
6790
6293
phage tail protein


OZID_13
F0068
8202
7429


OZID_13
F0070
9871
10089


OZID_13
F0069
10176
9811


OZID_13
F0071
10306
10458


OZID_134
F0798
765
3656
putative regulator


OZID_136
F0800
167
370


OZID_136
F0801
377
195


OZID_136
F0802
560
408


OZID_139
F0518
246
494


OZID_139
F0517
1251
862


OZID_139
F0822
3110
2511
membrane protein


OZID_139
F0825
6305
7339
putative superoxide






dismutase


OZID_139
F0823
6678
3181
phage tail protein


OZID_139
F0826
8210
7530
phage tail protein


OZID_139
F0827
9085
8108
phage tail protein


OZID_139
F0828
9560
8862
phage tail protein


OZID_139
F0829
9901
9560
phage tail protein


OZID_139
F0830
12974
9894
phage tail protein


OZID_139
F0831
13308
13027


OZID_139
F0832
13706
13332


OZID_139
F0833
14557
13712


OZID_139
F0835
14831
14487


OZID_139
F0836
15274
14828


OZID_139
F0837
15957
15631


OZID_139
F0838
18538
16037


OZID_139
F0839
18705
18484


OZID_139
F0842
22412
20751


OZID_139
F0843
22972
22409
phage DNA packaging protein


OZID_139
F0844
23545
23156


OZID_139
F0845
24148
24513


OZID_139
F0846
24726
24259
cell lysis protein


OZID_139
F0847
25449
24880


OZID_139
F0848
26253
25720
cell lysis protein


OZID_139
F0849
26970
26551


OZID_139
F0850
29100
27154


OZID_139
F0851
29227
29550


OZID_139
F0852
29880
29611
shiga-like toxin 1 subunit B


OZID_139
F0853
30837
29890
shiga-like toxin 1 subunit A


OZID_139
F0854
31817
31344
phage late gene regulator Q


OZID_139
F0855
32567
31962


OZID_139
F0856
33172
32729


OZID_139
F0857
33833
33306


OZID_139
F0858
34375
33830


OZID_139
F0859
34658
34233


OZID_139
F0860
35106
34828


OZID_139
F0861
35467
35177


OZID_139
F0862
36165
35464


OZID_139
F0863
37100
36162
phage replication protein


OZID_139
F0864
37429
37133
phage regulatory protein


OZID_139
F0865
37801
37544
phage repressor


OZID_139
F0866
37871
38518
phage repressor


OZID_139
F0867
38930
39481


OZID_139
F0868
39964
40266


OZID_139
F0869
40864
40403


OZID_139
F0870
41125
41493
ssDNA-binding protein


OZID_139
F0871
41494
41730
phage regulatory protein


OZID_139
F0872
41918
42214
recombination protein


OZID_139
F0873
42220
43005
recombination protein


OZID_139
F0874
43002
43679
exonuclease


OZID_139
F0875
44036
44317


OZID_139
F0877
44634
45581


OZID_139
F0878
45729
46016


OZID_139
F0879
46093
46449


OZID_139
F0880
46446
46808


OZID_139
F0881
46896
47138


OZID_139
F0882
47295
47549


OZID_139
F0883
47583
48869
putative integrase


OZID_14
F0072
162
1007
integrase


OZID_14
F0073
1031
1342
integrase


OZID_14
F0074
1346
1762


OZID_14
F0075
1735
2352


OZID_14
F0076
2352
2810


OZID_14
F0077
3045
3401


OZID_14
F0078
3466
4056


OZID_14
F0079
4056
4490


OZID_14
F0080
5303
5031
regulatory protein


OZID_14
F0081
5860
5309


OZID_14
F0082
6609
5857
phage morphogenesis


OZID_14
F0083
7543
7803
DNA-binding protein; possible






regulator


OZID_14
F0084
7800
8357
regulatory protein


OZID_14
F0085
8354
8575


OZID_14
F0086
8575
8898


OZID_14
F0087
8912
11245
replication protein (primase)


OZID_14
F0088
12334
11378


OZID_141
F0884
342
13


OZID_142
F0885
1312
119
putative hydroxylase


OZID_142
F0886
1881
1327
putative glutathione-S-






transferase


OZID_142
F0887
2681
1980
putative isomerase-






decarboxylase


OZID_142
F0888
3724
2696
putative 1,2-dioxygenase


OZID_142
F0889
4830
3736
putative transporter


OZID_142
F0890
5173
6129
putative regulator


OZID_145
F0895
455
1525


OZID_149
F0901
1012
170


OZID_149
F0902
1562
1014
putative minor fimbrial subunit


OZID_149
F0903
2002
1532
putative minor fimbrial subunit


OZID_149
F0904
2601
1999
putative minor fimbrial subunit


OZID_149
F0905
3268
2510
putative fimbrial chaperone


OZID_149
F0908
5942
3291
putative fimbrial usher


OZID_149
F0909
6575
6012
putative major fimbrial subunit


OZID_15
F0090
645
1382
putative oxidoreductase


OZID_15
F0091
1549
1827


OZID_15
F0092
3432
2530
putative LysR-like






transcriptional regulator


OZID_15
F0093
3579
4736


OZID_15
F0095
4812
6005


OZID_150
F1490
1541
408


OZID_151
F0911
1312
176


OZID_151
F0913
2002
1322


OZID_151
F0914
2459
1989


OZID_151
F0916
3008
3703


OZID_151
F0915
3025
2456


OZID_151
F0917
3880
3635


OZID_151
F0918
5785
4373


OZID_151
F0919
6148
5972


OZID_151
F0920
6451
7077
putative resolvase


OZID_151
F0921
8922
7675
sucrose permease


OZID_151
F0922
9908
8994
D-fructokinase


OZID_151
F0923
10115
11557
sucrose hydrolase


OZID_151
F0924
12653
11565
sucrose specific






transcriptional regulator


OZID_152
F0926
1251
43


OZID_156
F0931
862
8


OZID_156
F0932
1683
862
putative DMSO reductase






subunit C


OZID_156
F0933
2305
1676
putative DMSO reductase






subunit B


OZID_156
F0934
4683
2302
putative DMSO reductase






subunit A


OZID_159
F0937
98
289


OZID_159
F0938
268
516


OZID_159
F0939
670
840


OZID_159
F0940
1608
1018
putative chaperone


OZID_159
F0941
1791
2441


OZID_159
F0942
2520
3578


OZID_16
F0096
72
473


OZID_16
F0097
470
817


OZID_16
F0098
867
2405


OZID_160
F1390
507
277


OZID_160
F1391
905
558


OZID_160
F1345
1227
907


OZID_160
F1346
3125
1272


OZID_160
F1347
3366
3695


OZID_160
F0956
4544
3786


OZID_160
F0957
5405
4782
phage late gene regulator Q


OZID_160
F0958
6067
5402


OZID_160
F0959
6705
6064


OZID_160
F0960
7297
6650


OZID_160
F0961
7552
8307
transposase for IS30


OZID_160
F0962
8367
8645


OZID_160
F0963
9092
8721


OZID_160
F0964
9942
9004


OZID_160
F0965
10808
10338


OZID_160
F0966
11247
10849


OZID_160
F0967
11838
11248


OZID_160
F0968
12878
11871


OZID_160
F0969
13366
12875
integrase


OZID_160
F0970
15403
14465
integrase


OZID_160
F0971
15926
15720
phage regulatory protein


OZID_160
F0972
16877
16026


OZID_161
F0973
1469
135
putative regulator


OZID_161
F0974
1557
1988


OZID_163
F0976
277
41


OZID_163
F0977
1715
288


OZID_163
F0978
2308
1715
putative decarboxylase


OZID_163
F0979
2422
2862
putative regulator


OZID_164
F0981
572
279


OZID_164
F0982
669
472


OZID_164
F0983
1492
569


OZID_164
F0984
2271
1489


OZID_164
F0985
2867
2121


OZID_164
F0986
3933
2878


OZID_164
F0987
4481
3945


OZID_164
F0988
6040
4478


OZID_164
F0989
8837
6138


OZID_166
F0991
268
567


OZID_166
F0992
551
1255


OZID_166
F0993
1489
2637


OZID_168
F0998
932
198
putative lipoprotein


OZID_168
F0999
1261
929
putative Type III secretion






apparatus protein


OZID_168
F1000
2979
3479
putative response regulator of two






component tranport system


OZID_168
F1001
4957
3836
putative integral membrane






protein-component of type III






secretion apparatus


OZID_168
F1002
5202
4966
putative integral membrane






protein-component of type III






secretion apparatus


OZID_168
F1003
5733
5281
putative integral membrane






protein-component of type III






secretion apparatus


OZID_168
F1004
6671
6006
putative integral membrane






protein-component of type III






secretion apparatus


OZID_168
F1005
7692
6661
type III secretion apparatus






protein


OZID_168
F1006
8176
7607
type III secretion apparatus






protein


OZID_168
F1007
8482
8249


OZID_168
F1009
10227
8908
type III secretion apparatus






protein


OZID_168
F1010
12292
10232
type III secretion apparatus






protein


OZID_168
F1012
13454
12285
secreted protein


OZID_168
F1013
15138
13435
putative InvG-like protein


OZID_168
F1014
15884
15135
putative InvF-like protein


OZID_168
F1015
16409
16230


OZID_17
F0100
2207
1287


OZID_17
F0101
2301
3290
putative LysR-like






transcriptional regulator


OZID_17
F0102
3934
3578


OZID_17
F0104
4702
4127


OZID_172
F1019
150
581


OZID_172
F1020
604
1182


OZID_172
F1021
1183
1890


OZID_172
F1022
1872
2555
putative ATP-binding protein of






ABC transport system


OZID_172
F1023
2516
3226
putative ATP-binding protein of






ABC transport system


OZID_173
F1025
789
58


OZID_175
F1027
197
1462
putative P4 integrase


OZID_175
F1028
2364
1579


OZID_175
F1029
2396
3127


OZID_175
F1030
3124
3471


OZID_175
F1031
3491
4939


OZID_175
F1032
5696
4740


OZID_175
F1033
6341
5793
putative PagC-like membrane






protein


OZID_175
F1034
7114
6914


OZID_175
F1035
7643
8533
putative transposase


OZID_175
F1036
8886
9113


OZID_175
F1037
9321
10970
putative enterotoxin


OZID_175
F1038
11578
12567


OZID_175
F1039
12832
13290


OZID_175
F1040
13668
14513


OZID_175
F1041
15165
16466
putative cytotoxin


OZID_175
F1042
16751
17299
putative cytotoxin


OZID_175
F1043
18229
17339
putative transposase


OZID_175
F1044
18552
18226
orf; hypothetical protein






in IS


OZID_175
F1045
18743
19090


OZID_175
F1046
19140
20678


OZID_175
F1050
20746
20904


OZID_175
F1051
20901
21251


OZID_175
F1052
21734
22864


OZID_175
F1053
22914
23126
putative transposase for IS3,






partial


OZID_176
F1054
931
44


OZID_176
F1055
1935
928
putative iron compound-binding






protein of ABC transporter family


OZID_176
F1056
2935
1886
putative iron compound permease






protein of ABC transporter family


OZID_176
F1057
3915
2932
putative iron compound permease






protein of ABC transporter family


OZID_176
F1058
4721
3912
putative ATP-binding protein






of ABC transporter family


OZID_176
F1059
5095
7236
putative iron compound receptor


OZID_178
F1061
356
159


OZID_181
F1064
393
1271
putative phosphotransferase






system enzyme subunit


OZID_181
F1065
1289
1723
putative phosphotransferase






system enzyme subunit


OZID—182
F1068
54
380
orf; hypothetical protein in IS


OZID_182
F1069
377
1267
putative IS629 transposase


OZID_185
F1072
194
661
putative leader peptidase


OZID_187
F1076
56
340


OZID_187
F1077
331
816


OZID_188
F1080
1529
537


OZID_189
F1082
1340
45


OZID_189
F1084
1471
1247
ATP-dependent DNA helicase






(together with next 3 orfs)


OZID_189
F1085
2373
1399
ATP-dependent DNA helicase






(together with adjacent 3 orfs)


OZID_189
F1086
2766
2377
ATP-dependent DNA helicase






(together with adjacent 3 orfs)


OZID_189
F1087
3371
2763
ATP-dependent DNA helicase






(together with adjacent 3 orfs)


OZID_190
F1088
210
1121


OZID_190
F1089
1486
1070


OZID_191
F1091
179
27


OZID_191
F1092
922
176


OZID_192
F1094
793
527


OZID_193
F1096
383
772


OZID_193
F1097
832
1899


OZID_193
F1098
1940
2662


OZID_193
F1099
2641
3480


OZID_193
F1100
3455
3712
putative acyl carrier protein


OZID_193
F1101
3724
3975
putative acyl carrier protein


OZID_193
F1102
3980
4561


OZID_193
F1103
4519
5919
putative enzyme


OZID_193
F1104
5876
6259
putative enzyme


OZID_193
F1105
6250
7926
putative enzyme


OZID_193
F1106
7930
8352


OZID_193
F1107
8349
8954


OZID_193
F1108
8923
11241


OZID_193
F1109
11238
11822


OZID_193
F1110
11824
12993
putative 3-oxoacyl-[ACP]






synthase


OZID_193
F1111
12990
13454


OZID_193
F1112
13454
14185
putative beta-ketoacyl-ACP






reductase


OZID_194
F1115
191
946
putative regulator


OZID_194
F1116
971
1444
putative phosphotransferase






system enzyme subunit


OZID_194
F1117
1441
1722
putative phosphotransferase






system enzyme subunit


OZID_194
F1118
1769
3157
putative phosphotransferase






system enzyme subunit


OZID_194
F1119
3150
4658
putative xylulose kinase


OZID_194
F1120
4648
4917
putative phosphocarrier protein


OZID_194
F1121
4949
5809
putative aldolase


OZID_194
F1122
6218
5859


OZID_194
F1123
6490
6215


OZID_196
F1124
1087
59
putative heme/hemoglobin






transport protein


OZID_196
F1125
3118
1136
outer membrane heme/hemoglobin






receptor


OZID_196
F1127
3801
4715
putative periplasmic binding






protein


OZID_196
F1128
4735
6072
putative oxygen independent






coproporphyrinogen III oxidase


OZID_196
F1129
6085
6579


OZID_196
F1130
6579
7202


OZID_196
F1131
7251
8243
putative permease of iron






compound ABC transport system


OZID_196
F1132
8210
9010
putative ATP-binding component of






iron compound transport system


OZID_197
F1133
601
71
putative fimbrial subunit


OZID_197
F1134
1661
606
putative fimbrial protein


OZID_197
F1135
3133
1676
putative fimbrial usher


OZID_197
F1136
4249
3146
putative fimbrial usher


OZID_197
F1138
4976
4278
putative fimbrial chaperone


OZID_197
F1139
5565
5029
putative major fimbrial






subunit


OZID_199
F1141
937
2337
putative permease


OZID_202
F1146
868
1224


OZID_202
F1147
1268
6034
putative adhesin


OZID_203
F1148
87
1295
putative LPS biosynthesis






enzyme


OZID_203
F1149
2473
1331
putative LPS biosynthesis






enzyme


OZID_203
F1150
3036
2482
putative LPS biosynthesis






enzyme


OZID_203
F1151
4227
3520
putative LPS biosynthesis






enzyme


OZID_203
F1152
5260
4253
putative LPS biosynthesis






enzyme


OZID_208
L0003
181
1362
putative P4-family integrase


OZID_208
L0004
1461
1811
unknown in IS


OZID_208
L0005
1824
2006


OZID_208
L0006
2024
2677
unknown in IS


OZID_208
L0007
2928
3302


OZID_208
L0008
3299
3790


OZID_208
L0009
3802
3999


OZID_208
L0010
4084
4425


OZID_208
L0012
4626
4811


OZID_208
L0011
4652
4422


OZID_208
L0013
5181
5582
unknown in ISEc8


OZID_208
L0014
5579
5926
unknown in ISEc8


OZID_208
L0015
5976
7514
unknown in ISEc8


OZID_208
L0016
9125
8379
putative secreted protein


OZID_208
L0017
9488
9210


OZID_208
L0018
9715
9494
type III secretion apparatus






protein


OZID_208
L0019
10158
9751


OZID_208
L0020
11103
10165
secreted protein


OZID_208
L0021
12248
11124
secreted protein


OZID_208
L0022
12839
12261
secreted protein


OZID_208
L0023
13953
12898
putative type III






secretion apparatus protein


OZID_208
L0024
14096
15316
type III secretion apparatus






protein


OZID_208
L0025
18384
15580
intimin protein


OZID_208
L0026
18914
18444
putative chaperone


OZID_208
L0027
20728
19052
translocated intimin receptor


OZID_208
L0028
21763
21152


OZID_208
L0029
22029
22412


OZID_208
L0030
23116
22610


OZID_208
L0031
24064
23147
putative type III secretion






apparatus protein


OZID_208
L0032
24302
24027


OZID_208
L0033
24813
24436


OZID_208
L0034
26156
24816
type III secretion apparatus






protein


OZID_208
L0035
28167
26140
type III secretion apparatus






protein


OZID_208
L0036
28517
28164


OZID_208
L0037
28702
29001
putative type III






secretion apparatus protein


OZID_208
L0038
29034
29462


OZID_208
L0039
29465
30037
type III secretion apparatus






protein


OZID_208
L0040
30043
30498


OZID_208
L0041
30498
32036
type III secretion apparatus






protein


OZID_208
L0042
32050
32505
chaperone of espD


OZID_208
L0043
33302
32889


OZID_208
L0044
33728
33357


OZID_208
L0045
33924
34382


OZID_208
L0046
35416
34379
type III secretion apparatus






protein


OZID_208
L0047
36185
35409
type III secretion apparatus






protein


OZID_208
L0048
36454
36185
type III secretion apparatus






protein


OZID_208
L0049
37107
36454
type III secretion apparatus






protein


OZID_208
L0050
37807
37112


OZID_208
L0051
38351
37752


OZID_208
L0052
38671
38348


OZID_208
L0053
38893
38675


OZID_208
L0054
39297
38908


OZID_208
L0055
40542
41738


OZID_208
L0056
41866
42684


OZID_209
F1212
139
492


OZID_209
F1213
476
799


OZID_21
F0108
322
74


OZID_21
F0109
1349
240


OZID_21
F0110
2137
1376


OZID_21
F0112
2875
2291


OZID_21
F0114
3122
2967


OZID_21
F0116
3573
3415


OZID_21
F0117
3977
3594


OZID_21
F0118
4400
4242


OZID_210
F1215
1203
100


OZID_210
F1216
1596
1219


OZID_210
F1217
2293
1811


OZID_210
F1218
3106
2441


OZID_212
F1222
377
147


OZID_212
F1223
2331
328


OZID_214
F1224
2545
137


OZID_214
F1227
6763
4502


OZID_214
F1229
7083
7268


OZID_214
F1228
7174
6968


OZID_215
F1231
1188
106
putative fimbrial protein


OZID_215
F1232
2286
1216
putative fimbrial protein


OZID_215
F1233
4832
2298
putative fimbrial usher


OZID_215
F1234
5015
4854
putative fimbrial chaperone


OZID_215
F1236
5539
5156
putative fimbrial chaperone


OZID_215
F1237
6245
5643
putative major fimbrial subuit


OZID_216
F1239
920
18
orf; conserved hypothetical






protein


OZID_217
F1240
532
41


OZID_217
F1241
1377
529


OZID_217
F1242
2121
1735


OZID_217
F1243
2326
2637


OZID_22
F0120
468
4517
putative beta-barrel outer






membrane protein


OZID_222
F1245
918
43


OZID_224
F1249
835
1749


OZID_224
F1250
1857
1675


OZID_225
F1252
317
1711
putative glycoporin


OZID_227
F1255
753
37


OZID_227
F1256
1472
786


OZID_228
F1257
105
4289
Rhs core protein


OZID_228
F1258
4580
4858


OZID_228
F1259
4897
4583
orf; hypothetical protein






in IS


OZID_228
F1260
5076
4891
orf; hypothetical protein






in IS


OZID_228
F1261
5375
5103
putative transposase


OZID_229
F1262
200
1366
putative hippuricase


OZID_232
F1266
1533
292
putative L-sorbose-1-P-






reductase


OZID_232
F1267
2397
1573
putative sorbose PTS






component


OZID_232
F1268
3205
2408
putative sorbose PTS






component


OZID_232
F1269
3765
3271
putative sorbose PTS






component


OZID_232
F1270
4172
3765
putative sorbose PTS






component


OZID_232
F1271
4988
4182
putative D-glucitol-6-P-






dehydrogenase


OZID_232 
F1272
6050
5058
putative transcriptional






regulator of sorbose uptake






and utilizatio genes


OZID_233
F1274
51
776
putative response regulator


OZID_233
F1275
1774
773


OZID_233
F1276
2631
1771
putative aldolase


OZID_233
F1277
3329
2646


OZID_233
F1278
4325
3384
putative ribose binding protein






of ABC transport system


OZID_233
F1279
5318
4344
putative permease of ribose






ABC transport system


OZID_233
F1281
6772
9045
putative histidine kinase


OZID_233
F1280
6868
5315
putative ATP-binding protein






of ribose ABC transport system


OZID_233
F1282
9042
9218


OZID_235
F1285
487
56
putative transposase


OZID_235
F1286
495
1703


OZID_242
F1291
89
2038
putative transposase or integrase


OZID_242
F1487
2238
2564


OZID_242
F1293
2561
3451
IS629 transposase


OZID_242
F1294
4011
3634


OZID_242
F1295
4399
4133


OZID_242
F1296
5936
5469


OZID_242
F1297
6123
6698
putative resolvase


OZID_242
F1298
8213
6897


OZID_242
F1299
9138
8365


OZID_242
F1300
9255
9719


OZID_243
F1302
105
272
putative transposase


OZID_244
F1304
1663
560


OZID_244
F1305
2374
1667


OZID_244
F1307
4090
2381


OZID_244
F1308
4251
7604


OZID_244
F1310
7595
13918


OZID_244
F1311
14142
17000
putative ATP-dependent






helicase


OZID_244
F1312
17003
21937


OZID_244
F1313
21937
28278
putative helicase


OZID_244
F1314
28275
30389
putative helicase


OZID_244
F1315
31336
31154


OZID_244
F1316
31587
31342


OZID_244
F1317
31829
31518


OZID_245
F1318
5257
155
putative invasin


OZID_246
F1320
2459
264


OZID_248
F1322
92
973
orf; conserved hypothetical protein


OZID_248
F1323
1021
2184
orf; conserved hypothetical protein


OZID_249
F1325
1843
89
putative restriction modification






enzyme S subunit


OZID_249
F1326
3348
1843
putative restriction modification






enzyme M subunit (methylase)


OZID_249
F1327
5811
3379
putative restriction modification






enzyme R subunit (endonucleas


OZID_249
F1328
6089
6373
orf; conserved hypothetical






protein


OZID_249
F1329
6643
7740
orf; conserved hypothetical






protein


OZID_250
F1330
651
109


OZID_253
F1468
1291
692
membrane protein


OZID_253
F1467
4126
1358
phage tail protein


OZID_253
F1466
4755
4060
phage tail protein


OZID_253
F1465
5487
4816
phage tail protein


OZID_253
F1464
6128
5385
phage tail protein


OZID_253
F1463
6832
6134
phage tail protein


OZID_253
F1462
7161
6832
phage tail protein


OZID_253
F1461
9707
7158
phage tail protein


OZID_253
F1460
10134
9700
phage tail protein


OZID_253
F1459
10538
10116
phage tail protein


OZID_253
F1458
11324
10554
phage tail protein


OZID_253
F1457
11484
11302
phage tail protein


OZID_253
F1456
11675
11433
phage tail protein


OZID_253
F1454
12269
11691
phage tail protein


OZID_253
F1453
12634
12281
phage morphogenesis protein


OZID_253
F1450
14505
14167
phage morphogenesis protein


OZID_253
F1449
15057
14509
phage capsid protein


OZID_253
F1448
15791
14901
phage capsid protein


OZID_253
F1447
17412
15811
phage capsid protein


OZID_253
F1446
17615
17409
phage morphogenesis protein


OZID_253
F1444
19537
17612
phage DNA packaging protein


OZID_253
F1443
20057
19512
phage DNA packaging protein


OZID_253
F1441
21837
21529
cell lysis protein


OZID_254
F1362
2117
1836


OZID_254
F1361
2515
2141


OZID_254
F1360
3309
2521


OZID_254
F1359
3650
3306


OZID_254
F1358
4093
3647


OZID_254
F1357
4440
4090


OZID_254
F1356
4776
4450


OZID_254
F1355
5834
4773


OZID_254
F1354
7195
5831


OZID_254
F1351
11059
9461


OZID_254
F0948
12283
11918


OZID_255
F1366
2147
1467


OZID_255
F1365
2959
2045


OZID_255
F1363
3838
3497


OZID_256
F1421
718
1593
putative lambdoid phage tail






fiber component


OZID_256
F1422
1590
1886
putative lambdoid phage tail






fiber component


OZID_256
F1423
1981
2346
putative lambdoid phage tail






fiber component, partial


OZID_256
1424
2356
2619
putative lambdoid phage tail






fiber component, partial


OZID_256
F1427
3271
3780
putative lambdoid phage tail






fiber component, partial


OZID_256
F1428
3659
3949
putative lambdoid phage tail






fiber component, partial


OZID_256
F1429
4190
5365
putative lambdoid phage tail






fiber component, partial


OZID_256
F1430
5242
5991
putative lambdoid phage tail






fiber component, partial


OZID_256
F1431
5840
7450
putative lambdoid phage tail






fiber component, partial


OZID_256
F1432
7453
7668
putative lambdoid phage tail






fiber component, partial


OZID_256
F1433
7736
8335
membrane protein


OZID_257
F1437
1353
1057


OZID_26
F0125
229
1215
putative periplasmic binding






protein, probable substrate ribose


OZID_26
F0126
1264
1524
putative ATP-binding component






of transport system


OZID_26
F0127
1570
2748
putative ATP-binding component






of transport system,






probably ribose specific


OZID_26
F0128
2741
3712
putative permease component of






transport system, probably






ribose specific


OZID_28
F0131
1728
940


OZID_29
F0132
1116
58
putative ATP-binding component






of transport system






for ferric iro


OZID_29
F0133
3194
1116
putative permease component of






transport system for ferric iron


OZID_29
F0134
4294
3263
periplasmic ferric






iron-binding protein


OZID_29
F0135
5607
4291
putative permease;






hexosephosphate transport


OZID_29
F0136
7221
5680
putative sensor kinase;






hexosephosphate transport


OZID_29
F0137
7850
7221
putative response regulator;






hexosephosphate transport


OZID_3
F0009
77
310
putative antitoxin of gyrase






inhibiting toxin-antitoxin






system


OZID_3
F0008
171
1


OZID_3
F0010
313
627
putative toxin of gyrase






inhibiting toxin-antitoxin






system


OZID_34
F0141
70
237


OZID_34
F0142
188
1633


OZID_35
F0143
150
392


OZID_35
F0144
352
666


OZID_36
F0145
1753
182


OZID_39
F0146
310
1665
putative outer membrane






export protein for






RTX-like exoprotein


OZID_39
F0147
1768
6153


OZID_39
F0148
6361
21927


OZID_39
F0149
21931
24093
putative cytoplasmic membrane






export protein for






RTX-like exoprotein


OZID_40
F0011
207
776


OZID_40
F0151
207
4


OZID_40
F0152
626
204


OZID_40
F0153
1727
711


OZID_40
F0154
2094
2456


OZID_43
F0156
1260
124


OZID_43
F0157
3057
1723


OZID_43
F0158
8588
3651


OZID_43
F0159
9069
8608


OZID_43
F0160
10998
9097


OZID_44
F0161
230
481


OZID_47
F0162
232
432


OZID_47
F0163
544
374


OZID_47
F0164
917
702


OZID_47
F0165
1136
1288


OZID_49
F0167
564
1469
putative LysR-like transcriptional






regulator


OZID_49
F0168
2105
1503
putative corrinoid: ATP






adenosyltransferase


OZID_49
F0169
3767
2115
putative fumarate hydratase


OZID_49
F0170
4450
3875


OZID_49
F0171
5175
4393


OZID_49
F0172
5632
5315


OZID_49
F0173
6999
5629


OZID_49
F01 74
8244
7003
putative methylaspartate






ammonia-lyase


OZID_49
F0175
11096
9708
putative glutamate






mutase


OZID_49
F0176
11608
11096
putative methylaspartate mutase


OZID_49
F0177
11899
11732


OZID_49
F0178
12515
12093


OZID_49
F0179
13541
12597


OZID_52
F0180
855
85
integrase


OZID_52
F0181
1825
2400


OZID_52
F0183
3159
3344


OZID_52
F0182
3212
2931


OZID_52
F0184
4246
3566
exonuclease


OZID_52
F0185
4803
4243


OZID_52
F0186
5283
5906


OZID_52
F0187
6134
6565


OZID_52
F0188
7736
6777


OZID_52
F0189
8127
8900
phage late gene regulator Q


OZID_52
F0190
9069
9827


OZID_52
F0191
10648
10908
cell lysis protein


OZID_52
F0192
10908
11405
cell lysis protein


OZID_52
F0193
11402
11869
cell lysis protein


OZID_52
F0194
11866
12009


OZID_52
F0195
12305
12694


OZID_52
F0196
12684
13175


OZID_52
F0197
13175
15277
DNA packaging protein


OZID_52
F0198
15274
15486


OZID_52
F0199
15414
16019


OZID_52
F0200
16016
16537


OZID_52
F0201
16789
18966
peptidase


OZID_52
F0202
19053
19376


OZID_52
F0203
19369
19644


OZID_52
F0204
19656
20234
phage morphogenesis protein


OZID_52
F0205
20231
20632
phage morphogenesis protein


OZID_52
F0206
20568
21386
phage morphogenesis protein


OZID_52
F0207
21435
21833
phage morphogenesis protein


OZID_52
F0208
21842
22171
phage morphogenesis protein


OZID_52
F0209
22134
25208
phage morphogenesis protein


OZID_52
F0210
25208
25537
phage morphogenesis protein


OZID_52
F0211
25547
26245
phage morphogenesis protein


OZID_52
F0212
26251
26994
phage morphogenesis protein


OZID_52
F0213
26892
27539
phage morphogenesis protein


OZID_52
F0214
27600
28307
phage morphogenesis protein


OZID_52
F0215
28222
31017
phage morphogenesis protein


OZID_52
F0216
31088
31687


OZID_52
F0217
31747
33063
phage tail protein


OZID_52
F0218
33511
34491


OZID_52
F0220
34525
35544


OZID_52
F0221
36646
37254


OZID_52
F0222
37485
38183


OZID_53
F0223
607
2619


OZID_53
F0225
2546
2749


OZID_55
F0231
400
71


OZID_55
F0232
776
390


OZID_56
F0233
287
1630


OZID_56
F0234
1652
1972


OZID_56
F0235
1984
3465
putative sulfatase


OZID_57
F0236
606
1847


OZID_57
F0237
1957
2412


OZID_59
F0239
161
1363
putative P4-family integrase


OZID_59
F0240
3367
1550


OZID_59
F1480
3564
3659
transposase


OZID_59
F1481
3660
3836
transposase


OZID_59
F0242
3855
4025


OZID_59
F0243
3863
4300
transposase


OZID_59
F0241
4159
3821


OZID_59
F0244
4467
4775
putative prophage regulatory






protein


OZID_59
F0245
5400
6803


OZID_59
F0246
7624
8187


OZID_59
F0247
8318
10702


OZID_59
F0248
12997
11459
unknown in ISEc8


OZID_59
F0249
13394
13047
unknown in ISEc8


OZID_59
F0250
13792
13391
unknown in ISEc8


OZID_59
F0251
14158
13847
putative transposase


OZID_59
F0252
14298
15116
unknown in IS600


OZID_59
F0253
15229
15768
putative complement resistance






protein


OZID_59
F0254
17067
17426
putative diacylglycerol kinase


OZID_59
F0255
19138
17519


OZID_59
F0256
20019
20717
putative urease accessory






protein D


OZID_59
F0257
20808
21110
putative urease structural






subunit A (gamma)


OZID_59
F0258
21119
21439
putative urease structural






subunit B (beta)


OZID_59
F0259
21414
23135
putative urease structural






subunit C (alpha)


OZID_59
F0260
23145
23609
putative urease accessory






protein E


OZID_59
F0261
23610
24284
putative urease accessory






protein


OZID_59
F0262
24296
24913
putative urease accessory






protein


OZID_59
F0263
24900
24514


0710_59
F0264
25510
25169
unknown in IS


OZID_59
F0265
26125
26388
putative ribosomal protein


OZID_59
F0266
27139
26762


OZID_59
F0267
27657
27262
putative colicin immunity






protein


OZID_59
F0268
28440
27703


OZID_59
F0269
29449
30210


OZID_59
F0271
30391
30660


OZID_59
F0270
30524
29907
unknown in ISEc8


OZID_59
F0272
30712
31137
unknown in ISEc8


OZID_59
F0273
31134
31484
unknown in ISEc8


OZID_59
F0274
31515
33128
unknown in ISEc8


OZID_59
F0276
33378
33674


OZID_59
F0277
33747
34490


OZID_59
F0275
33989
33132
unknown in ISEc8


OZID_59
F0278
34412
34071
unknown in ISEc8


OZID_59
F0279
34728
34399
unknown in ISEc8


OZID_59
F0280
35456
34989
unknown associated with






putative tellurite






resistance


OZID_59
F0281
36682
35474


OZID_59
F0282
37649
36693


OZID_59
F0283
38728
37649


OZID_59
F0284
39503
38730


OZID_59
F0285
40638
39496


OZID_59
F0286
41706
40648


OZID_59
F0287
42029
42610
putative phage inhibition,






colicin resistance and






tellurite resistance protein


OZID_59
F0288
42610
43767
putative phage inhibition,






colicin resistance and






tellurite resistance protein


OZID_59
F0289
43790
44245
putative phage inhibition,






colicin resistance and






tellurite resistance protein


OZID_59
F0290
44268
45308
putative phage inhibition,






colicin resistance and






tellurite resistance protein


OZID_59
F0292
45357
45935
putative phage inhibition,






colicin resistance and






tellurite resistance protein


OZID_59
F0293
46004
46579
putative phage inhibition,






colicin resistance and






tellurite resistance protein


OZID_59
F0294
49991
47901
putative receptor


OZID_59
F0295
51424
51663


OZID_59
F0296
52296
52631


OZID_59
F0297
52742
52933


OZID_59
F0299
53542
53910


OZID_59
F0298
53606
53412


OZID_59
F0300
53837
53658


OZID_59
F0301
53926
54198


OZID_59
F0302
54131
53934


OZID_59
F0303
54482
54697


OZID_59
F0305
54763
54960


OZID_59
F0304
54824
54603


OZID_59
F0306
55202
54867


OZID_59
F0307
55690
56814
putative glucosyltransferase


OZID_59
F1483
57658
57233
transposase


OZID_59
F1484
57930
57655
transposase


OZID_59
F0308
59084
59593


OZID_59
F0309
59682
60305


OZID_59
F0311
60401
60634


OZID_59
F0312
61243
61497


OZID_59
F0313
62359
61472
putative transposase


OZID_59
F0314
62685
62359
unknown in IS


OZID_59
F0315
62866
63912


OZID_59
F0316
64153
64668


OZID_59
F0317
64818
66833


OZID_59
F0318
67334
68566


OZID_59
F0319
68551
69189


OZID_59
F0320
69558
70202


OZID_59
F0321
70518
71018


OZID_59
F1485
71151
70900
transposase


OZID_59
F0323
71202
71627
unknown in putative ISEc8


OZID_59
F0324
72399
73310


OZID_59
F0325
73514
76531
putative adhesin


OZID_59
F0326
76639
79026


OZID_59
F0327
79023
79928


OZID_59
F0328
79925
80995


OZID_59
F0329
81335
82153


OZID_59
F0330
82244
82729


OZID_59
F0331
82730
83221
putative DNA repair protein


OZID_59
F0332
83284
83505


OZID_59
F0333
83668
84042
putative structural protein


OZID_59
F0334
84089
84370


OZID_59
F0335
85232
84345
putative transposase


OZID_59
F0336
85558
85232
unknown in IS


OZID_59
F0339
86558
87400


OZID_59
F0340
87457
86912


OZID_62
F0342
1161
142
integrase


OZID_62
F0343
1381
1139


OZID_62
F0344
3920
1449


OZID_62
F0345
4142
4014


OZID_62
F0346
4390
4202
cell division inhibition






protein


OZID_62
F0347
5726
5337


OZID_62
F0348
5866
5738


OZID_62
F0349
6023
5868


OZID_62
F0350
6779
6588


OZID_62
F0351
7208
6807


OZID_62
F0352
7573
7998


OZID_62
F0353
7961
8521


OZID_62
F0354
8582
8205


OZID_62
F0355
8628
9830


OZID_62
F0356
8855
8700


OZID_62
F0357
9837
10583
DNA replication factor


OZID_62
F0358
10605
11375


OZID_62
F0359
11391
11804


OZID_62
F0360
12929
12156


OZID_62
F0362
13888
14061


OZID_62
F0363
14137
15186


OZID_62
F0364
15199
15570
endodeoxyribonuclease


OZID_62
F0365
15551
15931


OZID_62
F0366
16077
16901


OZID_62
F0367
17188
17427


OZID_62
F0368
17522
18235
regulatory protein


OZID_62
F0369
19003
20853


OZID_62
F0370
21029
21355
unknown in IS


OZID_62
F0371
21352
22005
transposase


OZID_62
F0372
22524
22210
regulatory protein


OZID_62
F0373
23457
22990
cell lysis protein


OZID_62
F0374
24274
23777
cell lysis protein


OZID_62
F0375
24326
24144
cell lysis protein


OZID_62
F0377
24444
24758


OZID_62
F0376
24553
24359


OZID_62
F0378
25220
25014
cell lysis protein


OZID_62
F1393
27518
25668


OZID_62
F1394
28000
27833


OZID_62
F1440
28127
27840


OZID_62
F1396
29436
29065


OZID_62
F1397
29759
29376


OZID_62
F1398
30109
29750


OZID_62
F1399
31225
30122


OZID_62
F1400
31445
31173


OZID_62
F1401
31779
31567


OZID_62
F1403
32229
32459


OZID_62
F1402
32241
32029


OZID_62
F1404
33032
32475


OZID_62
F1405
33660
33355


OZID_62
F1406
33691
33380


OZID_62
F1407
34313
33909


OZID_62
F1408
34939
34223


OZID_62
F1409
35635
34973


OZID_62
F1410
36476
35427


OZID_62
F1411
37036
36539


OZID_62
F1412
37282
37920


OZID_62
F1413
38132
38365


OZID_62
F1414
38365
39015


OZID_62
F1415
39688
39981


OZID_62
F1416
40259
41503


OZID_62
F1417
41500
42036
putative transposase


OZID_62
F1418
42109
42456


OZID_62
F1491
42883
43007
heat stable enterotoxin


OZID_62
F1419
43387
42506
putative transposase


OZID_62
F1420
43398
43799
unknown in ISEc8


OZID_62
F1048B
43796
44143
unknown in ISEc8


OZID_62
F1388
46165
45743
putative transposase


OZID_62
F1387
46965
46315


OZID_62
F1386
47297
46950


OZID_62
F1385
48206
47676


OZID_62
F1384A
48540
48866
unknown in IS


OZID_62
F1383
48863
49753
putative IS629 transposase


OZID_63
F1472
212
613


OZID_63
F1473
1491
739


OZID_64
L0061
1363
29
integrase


OZID_64
L0062
1691
1392
putative excisionase


OZID_64
L0063
2073
1762


OZID_64
L0064
2498
2133


OZID_64
L0065
3033
2410


OZID_64
L0066
3324
3037


OZID_64
L0067
3544
3326


OZID_64
L0068
3833
3546


OZID_64
L0069
4876
4103


OZID_64
L0070
5474
5193


OZID_64
L0071
5676
5485


OZID_64
L0072
5837
5649


OZID_64
L0073
6508
5831
exonuclease


OZID_64
L0074
7290
6505
recombination protein


OZID_64
L0075
7592
7296
host-nuclease inhibitor protein


OZID_64
L0076
7937
7668
kil protein


OZID_64
L0077
7944
7780
regulatory protein CIII


OZID_64
L0078
8385
8017
putative single-stranded DNA






binding protein


OZID_64
L0079
9006
8536


OZID_64
L0080
9448
9065
early gene regulator N


OZID_64
L0081
10101
9937


OZID_64
L0082
11150
10104
serine/threonine kinase


OZID_64
L0083
11605
11144


OZID_64
L0084
12014
11673


OZID_64
L0085
12782
12075
repressor protein CI


OZID_64
L0086
12861
13088
regulatory protein Cro


OZID_64
L0087
13227
13523
regulatory protein CII


OZID_64
L0088
13556
14494
replication protein O


OZID_64
L0089
14491
15192
replication protein P


OZID_64
L0090
15189
15479
Ren protein


OZID_64
L0091
15550
15828


OZID_64
L0092
15997
16356


OZID_64
L0093
16380
16826


OZID_64
L0094
16823
17350
putative DNA N-6-adenine-






methyltransferase


OZID_64
L0095
17532
18581


OZID_64
L0096
18727
19455
DNA-binding protein Roi


OZID_64
L0097
19455
20060


OZID_64
L0098
20057
20251


OZID_64
L0099
20205
20678
late gene regulator Q


OZID_64
L0103
21462
22421
Shiga toxin 2 subunit A


OZID_64
L0104
22433
22702
Shiga toxin 2 subunit B


OZID_64
L0105
23189
25126


OZID_64
L0106
25307
25753


OZID_64
L0107
25830
26045
lysis protein S; holin


OZID_64
L0108
26050
26583
endolysin


OZID_64
L0109
26854
27423
putative regulatory protein


OZID_64
L0110
27577
28041
endopeptidase


OZID_64
L0143
27797
27982
Rz1 protein precursor;






prolipoprotein; outer






membrane lipoprote


OZID_64
L0111
28366
28073
Bor protein precursor


OZID_64
L0112
28775
29581
putative terminase, small






subunit


OZID_64
L0113
29562
31268
putative terminase, large






subunit


OZID_64
L0114
31268
33412
putative portal protein


OZID_64
L0115
33570
34577


OZID_64
L0116
34601
35815


OZID_64
L0117
35871
36260


OZID_64
L0118
36283
36771


OZID_64
L0119
36647
37318


OZID_64
L0120
37318
37968


OZID_64
L0121
37965
39902
putative tail fiber protein


OZID_64
L0122
39784
40173


OZID_64
L0123
40220
40501


OZID_64
L0124
40718
42421


OZID_64
L0125
42418
43686


OZID_64
L0126
43752
43979


OZID_64
L0127
43985
44602


OZID_64
L0128
44693
45427
outer membrane protein Lom






precursor


OZID_64
L0129
45857
46258


OZID_64
L0130
46352
47008


OZID_64
L0131
47011
47457


OZID_64
L0132
47467
47718


OZID_64
L0133
47729
48994


OZID_64
L0134
49025
57445


OZID_64
L0135
57728
57916


OZID_64
L0136
58340
57996


OZID_64
L0137
58615
58460
host killer protein


OZID_64
L0144
58672
58460
modulation of host killing; part






of toxin/antitoxin system;






prophage maintenance


OZID_64
L0139
59376
58906


OZID_64
L0141
60418
60197


OZID_64
L0142
61095
60466


OZID_65
F0379
1491
148


OZID_66
F0380
87
1697


OZID_66
F0381
2291
1764


OZID_66
F0382
2692
2853


OZID_66
F0383
3787
4578
putative oxidoreductase


OZID_66
F0384
5368
4724
putative chaperone


OZID_66
F0385
6744
5410


OZID_66
F0386
9282
6760
putative usher protein


OZID_66
F0387
10057
9335
putative chaperone


OZID_66
F0389
10682
10122
putative pilin subunit


OZID_66
F0390
11348
10725


OZID_66
F0391
12739
16551
putative member of ShlA/HecA/






FhaA exoprotein family


OZID_66
F0393
16640
18259
putative outer membrane






transporter of ShlA/HecA/






FhaA exoprotein family


OZID_66
F0394
18275
18643
putative acyl-carrier protein






synthase


OZID_66
F0395
18654
19418
putative fatty acyl chain






reductase


OZID_66
F0396
19422
19970
putative fatty acyl chain






dehydrase


OZID_66
F0397
19992
20273
putative acyl-carrier protein


OZID_66
F0398
20309
21469
putative aminomethyltransferase


OZID_66
F0399
21543
24101
putative beta-ketoacyl-acyl






carrier protein synthase


OZID_66
F0401
24040
25329


OZID_66
F0402
25326
26279


OZID_66
F0403
26203
26997


OZID_66
F0404
26990
27637


OZID_66
F0405
27638
28948


OZID_66
F0406
28957
29745


OZID_66
F0407
29742
31130


OZID_68
F1338
5046
6371


OZID_68
F0634
8543
8271


OZID_69
F0410
102
344


OZID_69
F0411
429
1271


OZID_7
F0013
3203
2094
putative fimbrial protein


OZID_7
F0014
3805
3215
putative fimbrial protein


OZID_7
F0015
4431
3826
putative fimbrial protein


OZID_7
F0016
5006
4446
putative fimbrial protein


OZID_7
F0017
7506
5008
putative fimbrial usher protein


OZID_7
F0018
8381
7650
putative fimbrial chaperone






protein


OZID_7
F0019
9067
8462
putative fimbrial protein


OZID_71
F0412
375
145
integrase


OZID_71
F0413
1063
476
integrase


OZID_71
F0414
1510
1232
excisionase


OZID_71
F0416
1968
2381


OZID_71
F0415
2000
1563


OZID_71
F0417
2488
2261


OZID_71
F0419
3658
3182


OZID_71
F0420
4090
4515


OZID_71
F0421
4578
5621


OZID_71
F0422
5413
6075


OZID_71
F0423
6109
6825


OZID_71
F0424
6735
7139


OZID_71
F0425
7136
7438


OZID_71
F0426
7428
7745


OZID_71
F0427
7687
8016


OZID_71
F0428
8003
8440


OZID_71
F0429
8636
9223


OZID_71
F0430
10292
11341


OZID_71
F0431
11354
11728
endonuclease


OZID_71
F0432
11725
12546
phage late gene regulator Q


OZID_71
F0433
13143
13310


OZID_71
F0434
13625
15562


OZID_71
F0435
15710
15892


OZID_71
F0436
15819
16199


OZID_71
F0437
16275
16490


OZID_71
F0952
16890
17423
cell lysis protein


OZID_71
F0951
17694
18263
antirepressor


OZID_71
F1348
19516
19881


OZID_71
F1349
19598
19987


OZID_71
F1350
20171
20734


OZID_71
F0945
20731
22392


OZID_71
F1352
22456
24393


OZID_71
F1353
24438
24659


OZID_72
F0439
234
1
unknown in IS


OZID_72
F0441
514
867
putative transposase


OZID_72
F0440
602
396
unknown in IS


OZID_72
F0442
1009
1242


OZID_72
F0443
1370
1095


OZID_72
F0444
2792
1431


OZID_73
F0447
146
1396
integrase


OZID_73
F0448
1761
1949


OZID_73
F0449
2007
2750


OZID_73
F0450
2776
2973


OZID_73
F0451
2924
3151


OZID_73
F0452
3151
3342


OZID_73
F0453
3332
3574


OZID_73
F0454
3580
3879


OZID_73
F0455
3876
6008


OZID_73
F0456
6379
6630


OZID_73
F0457
6627
7037
ssDNA-binding protein


OZID_73
F0458
7006
7320


OZID_73
F0459
7367
7669


OZID_73
F0460
7962
9119


OZID_73
F0461
9159
9731


OZID_73
F0462
9733
10944


OZID_73
F0463
10941
11279


OZID_73
F0464
11276
11572


OZID_73
F0465
11572
12012


OZID_73
F0466
12302
12658


OZID_73
F0467
12774
14066


OZID_73
F0468
13894
14304


OZID_73
F0469
14318
14599


OZID_74
F0470
1203
61
integrase


OZID_74
F0471
1429
1193
excisionase


OZID_74
F0472
1460
1618


OZID_74
F0473
1533
2135
phage replication protein


OZID_74
F0474
2135
2356
phage replication protein


OZID_74
F0475
2353
3054
phage replication protein


OZID_74
F0476
3051
3353


OZID_74
F0477
3421
3753


OZID_74
F0478
3998
5524


OZID_74
F0479
5644
5835


OZID_74
F0480
6026
6481


OZID_74
F0481
6481
6651


OZID_74
F0482
6644
6934


OZID_74
F0483
6931
7293
endonuclease


OZID_74
F0484
7427
8116
phage late gene regulator Q


OZID_74
F0485
8438
8743


OZID_74
F0486
8730
9206
cell lysis protein


OZID_74
F0487
9203
9664
cell lysis protein


OZID_74
F0488
9989
9696
membrane protein


OZID_74
F0489
10733
10281


OZID_74
F0490
10977
11183


OZID_74
F0491
11542
11348


OZID_74
F0492
11931
12476
phage DNA packaging protein


OZID_74
F0493
12451
14376
phage DNA packaging protein


OZID_74
F0494
14373
14579
phage morphogenesis protein


OZID_74
F0495
14576
16177
phage capsid protein


OZID_74
F0496
16023
16394
phage capsid protein


OZID_74
F0497
16391
17476
phage capsid protein


OZID_74
F0498
17480
17818
phage morphogenesis protein


OZID_74
F0499
17847
18899
phage capsid protein


OZID_74
F0500
18902
19339
phage DNA packaging protein


OZID_74
F0501
19351
19704
phage morphogenesis protein


OZID_74
F0502
19719
20252
phage tail protein


OZID_74
F0503
20249
20644
phage tail protein


OZID_74
F0504
20652
21404
phage tail protein


OZID_74
F0505
21418
21840
phage tail protein


OZID_74
F0506
21867
22226
phage tail protein


OZID_74
F0508
22263
24875
phage tail protein


OZID_74
F0509
24872
25201
phage tail protein


OZID_74
F0510
25201
25899
phage tail protein


OZID_74
F1426
25739
26653
phage tail protein


OZID_74
F0512
26551
27228
phage tail protein


OZID_74
F0513
27469
28644
phage tail protein


OZID_74
F0514
28521
30941
phage tail protein


OZID_74
F0515
31009
31608
membrane protein


OZID_74
F0820
31667
34588
putative tail fiber protein


OZID_74
F0821
32919
32170


OZID_74
F0819
34588
35169
putative tail fiber protein


OZID_74
F0818
36179
35289


OZID_74
F0817
36704
36198


OZID_74
F0816
37247
36741


OZID_74
F0815
37502
37320


OZID_74
F0814
38668
38000


OZID_74
F0813
38725
38973


OZID_74
F0811
39426
39773


OZID_74
F0771
39823
41361


OZID_74
F0808
43148
41664
possible protease (ompP-like)


OZID_74
F0807
44288
43335
putative OmpT-like protease


OZID_74
F0806
44770
45105


OZID_77
F0522
933
43
transposase


OZID_77
F0523
1256
930
unknown in IS


OZID_78
F0525
2827
1973
putative molybdenum transport






protein


OZID_78
F0526
3636
2992


OZID_78
F0527
4404
3646
putative iron compound ABC transporter,






ATP-binding






protein


OZID_78
F0528
5381
4401
putative iron compound ABC






transporter, permease protein


OZID_78
F0529
6403
5381


OZID_81
F0530
1174
44
integrase


OZID_81
F0531
3936
1465


OZID_81
F0533
6911
7066


OZID_81
F0534
7593
8480


OZID_81
F0535
8420
9085


OZID_81
F0536
9272
9853


OZID_81
F0537
10713
11471


OZID_81
F0538
12790
13836


OZID_81
F0539
13849
14208
endonuclease


OZID_81
F0540
14217
14747


OZID_81
F0541
14866
15186


OZID_81
F0542
15337
16395


OZID_81
F0543
17296
19041


OZID_81
F0544
19490
19696


OZID_81
F0545
19698
20045


OZID_81
F0546
20096
20629
cell lysis protein


OZID_81
F0547
20903
21598
antirepressor


OZID_81
F0548
21821
22294
cell lysis protein


OZID_81
F0550
22618
22959
membrane protein


OZID_81
F0551
23333
23698


OZID_81
F0552
23987
24550
phage DNA packaging protein


OZID_81
F0553
24528
26207


OZID_81
F0555
26271
27884


OZID_81
F0556
28419
30998


OZID_81
F0557
31001
31327


OZID_81
F0558
31337
31687


OZID_81
F0559
31684
32130


OZID_81
F0560
32127
32471


OZID_81
F0561
32468
33271


OZID_81
F0565
33996
37076
phage tail protein


OZID_81
F0566
37111
37410
phage tail protein


OZID_81
F0567
37410
37847
phage tail protein


OZID_84
F0661
1059
1454


OZID_87
F0659
179
742
putative type 1 pilin protein


OZID_87
F0658
1014
1814
putative fimbrial protein






chaperone


OZID_88
F0655
823
602


OZID_88
F0654
983
1492


OZID_91
F0651
574
365


OZID_91
F0650
795
574


OZID_92
F0646
4422
2278


OZID_93
F0645
420
43


OZID_93
F0644
976
545


OZID_93
F0643
1331
963


OZID_93
F0642
1731
1306


OZID_95
F0640
3892
818


OZID_96
F0639
836
195


OZID_96
F0638
1547
918


OZID_96
F0637
2195
1620


OZID_96
F0636
2577
2308


OZID_96
F0635
3148
2579


OZID_98
F0631
3745
272
phage tail protein


OZID_98
F0630
3879
4406
superoxide dismutase


OZID_98
F0629
5274
4597
phage tail protein


OZID_98
F0628
6086
5172
phage tail protein


OZID_98
F0627
6624
5926
phage tail protein


OZID_98
F0626
6953
6624
phage tail protein


OZID_98
F0625
7714
6950
phage tail protein


OZID_98
F0624
9528
7666
phage tail protein


OZID_98
F0623
9922
9509
phage tail protein


OZID_98
F0622
10452
9949
phage tail protein


OZID_98
F0621
11023
10394
phage tail protein


OZID_98
F0620
11382
11116
phage capsid protein


OZID_98
F0619
11787
11440
phage capsid protein


OZID_98
F0618
13329
11824
phage morphogenesis protein


OZID_98
F0617
14911
13319
phage morphogenesis protein


OZID_98
F0616
15114
14908
phage morphogenesis protein


OZID_98
F0615
17062
15098
phage DNA packaging protein


OZID_98
F0614
17507
16998


OZID_98
F0613
17902
18126


OZID_98
F0612
18522
18208


OZID_98
F0611
18904
18764


OZID_98
F0610
19454
18987
cell lysis protein


OZID_98
F0609
19866
19606


OZID_98
F0608
20095
19859


OZID_98
F0607
20477
19944
cell lysis protein


OZID_98
F0606
20872
20564


OZID_98
F0605
21083
20877
cell lysis protein


OZID_98
F1486
21403
21729
transposase


OZID_98
F0604
21726
22616
transposase


OZID_98
F0603
22582
22917


OZID_98
F0602
24548
22698


OZID_98
F0601
25126
24959


OZID_98
F0600
25253
24966


OZID_98
F0599
25626
25123


OZID_98
F0598
25843
25505


OZID_98
F1373
26030
26296


OZID_98
F0597
26790
26116


OZID_98
F0596
26957
26667


OZID_98
F0595
27555
27046


OZID_98
F0594
27709
27458


OZID_98
F0593
28055
28963


OZID_98
F0592
29077
29445


OZID_98
F0591
29442
30434


OZID_98
F0590
31553
30402
cytosine methylase


OZID_98
F0589
32242
31985


OZID_98
F0588
32403
32242


OZID_98
F0587
32470
32309


OZID_98
F0586
32744
32481


OZID_98
F0585
33208
32996


OZID_98
F0584
33736
33314

## Claims

1. An isolated DNA molecule comprising the nucleotide sequence of SEQ ID NO:256.

2. A recombinant DNA construction comprising the isolated DNA molecule of claim 1.

3. A method for detecting Escherichia coli O157:H7 (ATCC 43895) in a sample comprising the steps of:
a) providing an E. coli O157:H7-specific nucleotide probe, the probe comprising a sequence as set forth in SEQ ID NO:256; 
b) contacting the probe with a sample of test material under suitable hybridization conditions; and 
c) detecting hybridization of the probe to a complementary nucleotide sequence in the sample.

4. A method for distinguishing E. coli bacteria of strain 0157:H7 from strain K12 comprising analyzing the genome of the bacteria for the presence
of a sequence comprising SEQ ID NO: 256 by the method of claim 3.