# Patent

## Title
Selective enrichment media and uses thereof

## Abstract

Selective enrichment media and methods for selectively growing and detecting Salmonella spp. The media comprise a carbon and nitrogen source, an inorganic salt, a fermentable sugar, one or more selective agents, and an efflux pump inhibitor. Various selective agents include sulfa drugs, surfactants, aminocoumarins, cycloheximide, supravital stains, ascorbic acid, bromobenzoic acid, myricetin, rifamycins, polyketides, and oxazolidinones. Various efflux pump inhibitors include arylpiperazines, such as 1-(1-naphthylmethyl)piperazine, and quinoline derivatives, such as 4-chloroquinoline. The selective agents and efflux pump inhibitors are provided in the media in combinations and amounts that inhibit growth of non-Salmonella microorganisms without substantially affecting growth and metabolism of Salmonella species. Methods of selectively growing and detecting Salmonella species are provided.

## Background
CROSS-REFERENCE TO RELATED APPLICATIONS
This application claims priority under 35 USC §119(e) to U.S. Provisional Patent Application 61/603,738, filed Feb. 27, 2012, the entirety of which is incorporated herein by reference.


FIELD OF THE INVENTION
The invention is directed to selective enrichment and indicator media. The invention is more specifically directed to the use of bacterial efflux pump inhibitors to enhance the selectivity of selective enrichment media for the isolation and detection of certain microorganisms, such as Salmonella species.
BACKGROUND
Foodborne salmonellosis is a major public health problem. Salmonella is the second leading cause of annual foodborne illness cases, with an estimated 1,340,000 cases compared with nearly 2,000,000 for Campylobacter. A survey conducted in the United States estimated that in 1999 non-typhoidal salmonellosis of foodborne origin caused approximately 15,600 hospitalizations and 550 deaths (Mead, P. S., L. Slutsker, V. Dietz, et al. Food-related illness and death in the United States. Emerg. Infect. Dis. 5:607-625. 1999). Although the genus Salmonella has more than 2300 serovars, only a relatively restricted number belonging mainly to the enterica subspecies of the Salmonella enterica species are responsible for the great majority of human infections. The most common sources of Salmonella infections in humans are contaminated foods, including eggs, poultry, produce, meat, and meat products. Eggs and poultry meat are recognized as the major vehicles of human infections because of epizootics in fowl.
Early detection of foodborne Salmonella is vital for food safety assurance. However, conventional methods for detecting foodborne Salmonella are laborious and time consuming. These methods typically involve identifying presumptively positive samples by sequentially processing samples in a pre-enrichment phase, a selective-enrichment phase, and then an analysis phase. The analysis phase may involve culturing the enriched sample on selective differential agar, analyzing with polymerase chain reaction (PCR), and/or analyzing via immunoassay. After identifying the presumptively positive samples, confirmation of the presumptively positive samples typically requires biochemical characterization of isolates obtained from selective, differential agar media. See, e.g., U.S. Food and Drug Administration (2011) Bacteriological Analytical Manual, Chapter 5. It is estimated that millions of such Salmonella analyses are run routinely in the United States each year.
Early detection of Salmonella is needed if foodborne illnesses caused by Salmonella are to be reduced. While determinative microbiology requires confirmation of presumptively positive samples, this is not the case in many applications such as environmental monitoring and food safety-HACCP testing. In such applications, only a reasonable presumption that a sample is contaminated is required to take such corrective actions as modifying a sanitation procedure or quarantining a product lot pending subsequent confirmation. Raid screening tests which have comparable diagnostic performance to culture methods or other rapid molecular methods can suffice.
An example of a rapid screening test for Listeria is described in U.S. Pat. No. 7,960,164. The Listeria screening test employs a selective Listeria indicator broth, which both enriches and indicates the presence of any Listeria within the sample. This test permits identification of presumptively positive samples within 24 to 48 hours while simultaneously identifying negative samples. The presumptively positive samples can be confirmed by submitting them to a reference or central laboratory. The system saves time and money by not requiring any further processing of the negative samples. Further, the early detection of presumptively positive samples can provide useful information about the status of critical control points, particularly sanitized working surfaces.
Several Salmonella-selective enrichment media and systems are known in the art. See, e.g., U.S. Pat. No. 4,279,995 to Woods et al.; U.S. Pat. No. 5,208,150 to Tate et al.; U.S. Food and Drug Administration (2011) Bacteriological Analytical Manual, Chapter 5; U.S. Pat. No. 7,704,706 to Druggan; U.S. Pat. No. 7,150,977 to Restaino; U.S. Pat. No. 6,368,817 to Perry et al.; U.S. Pat. No. 5,434,056 to Monget et al.; and U.S. Pat. No. 5,194,374 to Rambach. The media and systems described in these references do not provide sufficient selectivity of Salmonella spp.
There exists a need for a simple, rapid screening test that identifies presumptively positive Salmonella samples at an early stage of the sample analysis, preferably in a selective enrichment stage of the analysis. Simultaneous enrichment and detection of Salmonella using a single testing method would reduce not only time but also the cost of labor and media. Streamlining procedures and reducing labor and test costs should permit more frequent monitoring for Salmonella, thereby reducing contamination hazard.
SUMMARY OF THE INVENTION
The present invention provides selective enrichment media for Salmonella species, including Salmonella enterica. The present invention also provides a selective indicator broth that simultaneously enriches and detects Salmonella within a sample. The selective indicator broth incorporates a relatively selective metabolic indicator that produces a visually detectable signal, such as a color change, as Salmonella species grow in the medium and ferment the substrate. The media of the invention incorporate selectively targeted inhibitors to prevent growth by background micro-flora and, hence, metabolism of the indicator substrate, thereby preventing undesirable false positive responses.
One aspect of the present invention is the preferable incorporation of 2-deoxy-D-ribose as a fermentable substrate within the selective enrichment media. It was previously thought that, with the exception of a few Citrobacter species, most non-Salmonella species within Enterobacteriacae are incapable of fermenting 2-deoxy-D-ribose (Tourneux, L. et al. Genetic and Biochemical Characterization of Salmonella enterica Serovar Typhi Deoxyribokinase. J. Bact. 182(4):869-873. 2000; and Christensen, M. et al. Regulation of Expression of the 2-Deoxy-D-Ribose Utilization Regulon, deoQKPX, from Salmonella enterica Serovar Typhimurium. J. Bact. 185(20):6042-6050. 2003). However, more recent publications have provided evidence that some Klebsiella and Enterobacter species can also ferment 2-Deoxy-D-ribose (Hansen et al. Recommended Test Panel for Differentiation of Klebsiella Species on the Basis of a Trilateral Interlaboratory Evaluation of 18 Biochemical Tests. J. Clin. Microbiol. 42(8):3665-3669. 2004). Therefore, agents that provide a higher degree of selectivity are included in the media of the present invention.
The present invention provides a selective enrichment media capable of suppressing the growth of Klebsiella, Enterobacter, and Citrobacter species without compromising the growth of Salmonella enterica by further incorporating efflux pump inhibitors (EPIs) in the media. One of the principal mechanisms by which bacteria have evolved to defeat toxic compounds in the environment is the presence of proteins in bacterial membranes capable of pumping these compounds out of the intracellular space. These proteins, known as efflux pumps, reside in both cytoplasmic and outer membrane structures of certain bacteria (Piddock, L. J. Clinically Relevant Chromosomally Encoded Multidrug Resistance Efflux Pumps in Bacteria. Clin. Microbiol. Rev. 19(2): 382-402. 2006). Various classes of both natural and synthetic compounds can inhibit these efflux pumps. Some inhibitors are highly active across the Enterobacteriacae family in preventing the ejection of numerous antibiotics. For example, the peptidomimetic compound Phe-Arg-β-naphthylamide has been demonstrated to be effective in many gram-negative bacteria, including E. coli and Salmonella enterica (Piddock, L. J. Clinically Relevant Chromosomally Encoded Multidrug Resistance Efflux Pumps in Bacteria. Clin. Microbiol. Rev. 19(2): 382-402. 2006). Some of the arylpiperazines and alkylquinolines appear to be more limited in their spectrum of action (Bohnert, J. et al. Selected Arylpiperazines Are Capable of Reversing Multidrug Resistance in Escherichia coli Overexpressing RND Efflux Pumps. Antimicrob. Agents & Chemoth. 49(2):849-852. 2005; Schumacher, A. et al. Effect of 1-(1-naphthylmethyl)-piperazine, a novel putative efflux pump inhibitor, on antimicrobial drug susceptibility in clinical isolates of Enterobacteriacae other than E. coli. J. Antimicrob. Chemoth. 57: 344-348. 2005; and Mahamoud, A. et al. Antibiotic efflux pumps in Gram-negative bacteria: the inhibitor response strategy. J. Antimicrob. Chemoth. 59(6):1223-1229. 2007).
The present invention employs antibiotics and EPIs that enable selective enrichment for Salmonella. We have found that neither arylpiperazines nor alkylquinolines increase the susceptibility of Salmonella enterica to the several antibiotics known to be rendered effective against other gram negative bacteria such as Enterobacter spp. and E. coli. The resistance of Salmonella enterica to the antibiotic-sensitizing effects of arylpiperazines and alkylquinolines forms the basis of at least some versions of the selective enrichment media of the present invention. These media are more selective for Salmonella than those currently in use, such as Rapaport-Vasiliadis medium and tetrathionate broth (U.S. Food and Drug Administration (2011) Bacteriological Analytical Manual, Chapter 5).
An exemplary selective enrichment medium provided by the invention comprises a carbon and nitrogen source, an inorganic salt, a fermentable sugar, a selective agent, and an efflux pump inhibitor. The selective agent preferably comprises one or more of a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin, a rifamycin, a polyketide, and an oxazolidinone.
The efflux pump inhibitor may comprise one or more of a phenothiazine, a phenylpiperidine, a tetracycline analog, an aminoglycoside analog, a fluoroquinolone analog, a quinoline derivative, a peptidomimetic, a pyridopyrimidine, an arylpiperidine, and an arylpiperazine. The efflux pump inhibitor preferably comprises one or more of an arylpiperazine and a quinoline derivative. In some versions, the efflux pump inhibitor may comprise 1-(1-naphthylmethyl)piperazine. In some versions, the efflux pump inhibitor may comprise 4-chloroquinoline.
Some media include 2-deoxy-D-Ribose as a fermentable sugar.
Some media may comprise one or more of sulfanilamide and sulfathiazole as a sulfa drug. Sulfanilamide and sulfathiazole may be included in the media in a ratio of about 9:1.
Some media may include 7-ethyl-2-methyl-4-undecyl sulfate or a salt thereof as a selective agent.
Some media may include novobiocin as an aminocoumarin.
Some media may include brilliant green as a supravital stain.
Some media may include rifampicin as a rifamycin.
Some media may include one or more of tetracycline and doxycycline as a polyketide.
Some media may include linezolid as an oxazolidinone.
Some media include one or more of a rifamycin, a polyketide, and an oxazolidinone as a selective agent, and one or more of an arylpiperazine and a quinoline derivative as an efflux pump inhibitor.
Some media include one or more of rifampicin, tetracycline, doxycycline, and linezolid as a selective agent, and one or more of 1-(1-naphthylmethyl)piperazine and 4-chloroquinoline an efflux pump inhibitor.
Some media include a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, and myricetin as a selective agent, and include one or more of an arylpiperazine and a quinoline derivative as an efflux pump inhibitor.
Some media include a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin, and one or more of a rifamycin, a polyketide, and an oxazolidinone as a selective agent, and include one or more of an arylpiperazine and a quinoline derivative as an efflux pump inhibitor.
Some media include a pH indicator sensitive to acidification. Such media may serve as Salmonella-selective indicator media that select for Salmonella species and transition in color as the Salmonella grows and ferments in the media.
The selective agent and the efflux pump inhibitor are preferably present in amounts effective to inhibit growth of at least one non-Salmonella species to a greater extent than Salmonella species. The selective agent and the efflux pump inhibitor are also preferably present in amounts effective to inhibit growth of at least one non-Salmonella species while not substantially affecting growth of Salmonella species.
The media of the invention may be in a liquid form, i.e., a broth, or may be in solid or semi-solid form, e.g., agar-based.
The invention also provides for methods of selectively enriching for Salmonella species. The methods comprise culturing a sample suspected of containing Salmonella species in selective enrichment medium as described herein. The culturing preferably grows and ferments a Salmonella species. Further, the culturing preferably inhibits growth of a microorganism selected from the group consisting of Citrobacter freundii and Citrobacter koseri. 
The objects and advantages of the invention will appear more fully from the following detailed description of the preferred embodiment of the invention.


DETAILED DESCRIPTION OF THE INVENTION
The various components of the media of the present invention are described as follows.
The media of the invention preferably include a carbon and nitrogen source. Preferred carbon and nitrogen sources include protein hydrolysates and/or extracts. Suitable carbon and nitrogen sources include peptone, neopeptone, tryptone beef extract paste, desiccated powder of beef heart, desiccated powder of beef liver, brain heart infusion, digests of casein, and yeast extract. Examples include the following products from BD (Franklin Lakes N.J.): ACIDICASETM Peptone (hydrochloric acid hydrolysis of casein; Cat. No. 211843); Beef Extract Paste (Cat. No. 212610); Beef Heart for Infusion (Desiccated powder of beef heart, Cat. No. 213210); BIOSATETM Peptone (Cat No. 211862); BIOSATETM Peptone (Cat. No. 294312); Brain Heart Infusion (Cat. No. 237300); Casamino acids (acid hydrolyzed casein; Cat. Nos. 223050, 223020, 223120, 223030, 223110, 228820, 228830, and 228830); Casein Digest (Enzymatic digest of casein for molecular genetics, Cat. No. 211610); Casitone (Pancreatic digest of casein; Cat. Nos. 225930 and 225910); Gelatin (Cat. Nos. 214340 and 214320); GELYSATETM Peptone (Pancreatic digest of gelatin; Cat. No. 211870); Liver (Desiccated powder of beef liver; Cat. No. 213320); Neopeptone (Enzymatic digest of protein; Cat. Nos. 211680 and 211681); Peptone (An enzymatic digest of protein; Cat Nos. 211830, 211677, 254820, 211820); PHYTONETM Peptone (An enzymatic digest of soybean meal, Non-animal origin; Cat. Nos. 211906 and 298147); PHYTONETM Peptone UF (Ultra-filtered enzymatic digest of soybean meal, designed specifically for cell culture applications, non-animal origin; Cat. Nos. 210931 and 210936); Polypeptone Peptone (Pancreatic digest of casein and peptic digest of animal tissue combined in equal parts; Cat. Nos. 211910 and 297108); Proteose Peptone (Enzymatic digest of protein, high in proteoses; Cat. Nos. 212010, 253310, and 211684); Proteose Peptone No. 2 (Enzymatic digest of protein; Cat. Nos. 212120 and 212110); Proteose Peptone No. 3 (Enzymatic digest of protein; Cat. Nos. 211693, 211692, 212220, and 212230) Proteose Peptone No. 4 (Enzymatic digest of protein; Cat. No. 211715); Select Soytone (Enzymatic digest of soybean meal, non-animal origin; Cat. Nos. 212489 and 212488); Soytone, BACTOTM (Enzymatic hydrolysate of soybean meal; Cat. Nos. 243620 and 243610); TC Yeastolate (Water soluble portion of autolyzed yeast, source of Vitamin B complex, tested for tissue culture; Cat. Nos. 255772 and 255771); TRYPTICASETM Peptone (Enzymatic digest of casein; Cat. No. 211921); TRYPTICASETM Peptone (Enzymatic digest of casein; Cat. Nos. 211922 and 211923); Tryptone (Enzymatic digest of casein; Cat. Nos. 211705, 211701, and 211699); Tryptone, BITEKTM (Enzymatic digest of casein; Cat. No. 251420); Tryptose (Enzymatic hydrolysate of protein; Cat. Nos. 211709 and 211713); Yeast Extract (Water-soluble extract of autolyzed yeast cells suitable for use in culture media; Cat. Nos. 212720, 211931, 211929, 212710, 212730, 211930, and 212750); Yeast Extract, LD (Water-soluble extract of autolyzed yeast cells that has been agglomerated to minimize dusting; Cat. Nos. 210933 and 210941); Yeast Extract, UF (Water-soluble extract of autolyzed yeast cells, ultra-filtration enhances solubility and lowers the endotoxin, suitable for use in cell culture and microbial fermentation; Cat. Nos. 210934 and 210929); and equivalents thereof. Peptone or tryptone supplemented with beef or yeast extract are preferred carbon and nitrogen sources. Suitable concentration ranges of the carbon and nitrogen source are from about 1 g/L to about 300 g/L, preferably about 2 g/L to about 150, and most preferably from about 10 g/L to about 30 g/L.
The media of the invention may include an inorganic salt. Suitable inorganic salts include calcium salts, copper salts, iron salts, selenium salts, potassium salts, magnesium salts, sodium salts, ammonium salts, nickel salts, tin salts, and zinc salts, among others. Suitable examples of such salts include CaCl2, CuSO4, FeSO4, H2SeO3, KCl, K1, KH2PO4, MgCl2, MgCO3, MgSO4, MnSO4, Na2HPO4, Na2SiO3, NaCl, NaH2PO4, NaHCO3, NH4VO3, (NH4)6Mo7O24, NiCl2, SnCl2, ZnSO4, and hydrates thereof. Magnesium, potassium, calcium, iron and/or zinc salts are preferred. Magnesium salts, such as magnesium chloride (MgCl2), magnesium carbonate (MgCO3), magnesium sulfate (MgSO4), and hydrates thereof are particularly preferred. A particularly suitable magnesium salt is magnesium chloride. The inorganic salt is preferably included at a concentration sufficient to create high osmotic pressure in the medium. Suitable concentration ranges of the inorganic salt are from about 0.1 g/L to about 50 g/L, preferably about 2 g/L to about 40 g/L, more preferably from about 4 g/L to about 35 g/L, and most preferably from about 6 g/L to about 15 g/L.
The media of the invention may include a pH indicator. The pH indicator is preferably sensitive to acidification. The pH indicator is preferably an indicator that transitions color in a range of about pH 7 to about pH 5. Examples of suitable pH indicators are bromocresol purple, phenol red, and neutral red. Bromocresol purple is preferred. The pH indicator may be included in any concentration suitable for detecting the pH change. Exemplary ranges include about 0.004 g/L to about 0.25 g/L, such as about 0.02 g/L to about 0.05 g/L.
The media of the invention may include a fermentable sugar. Examples of suitable sugars include adonitol, arabinose, arabitol, ascorbic acid, chitin, D-cellubiose, 2-deoxy-D-ribose, dulcitol, (S)-(+)-erythrulose, fructose, fucose, galactose, glucose, inositol, lactose, lactulose, lyxose, maltitol, maltose, maltotriose, mannitol, mannose, melezitose, melibiose, microcrystalline cellulose, palatinose, pentaerythritol, raffinose, rhamnose, ribose, sorbitol, sorbose, starch, sucrose, trehalose, xylitol, xylose, and hydrates thereof. For selection of Salmonella spp., it is preferred to use a sugar that can be efficiently metabolized by Salmonella spp. but not by other bacteria. 2-Deoxy-D-Ribose, xylose, mannitol, dulcitol, sorbitol, L-rhamnose and D-arabitol are suitable for this purpose. 2-Deoxy-D-Ribose is particularly preferred because of its relative selectivity toward Salmonella enterica. The fermentable sugar may be included in the media at a concentration of from about 0.5 g/L to about 120 g/L, preferably of from about 1.0 g/L to about 60 g/L, and more preferably of from about 5.0 to about 12.0 g/L.
The media of the invention may include one or more selective agents described below, or otherwise known in the art. Each selective agent may be included in an amount effective to inhibit growth of at least one non-Salmonella species to a greater extent than Salmonella species, or at least Salmonella enterica. It is preferred that the one or more selective agents are present in amounts that do not substantially affect the growth or metabolism of Salmonella species, or at least Salmonella enterica. 
The media of the invention may include one or more sulfa drugs as a selective agent. The sulfa drug serves as an anti-metabolite selective agent. Sulfa drugs, also called sulfonamides or sulphonamides, are antimicrobial agents that contain the sulfonamide group. Examples of suitable sulfa drugs include aldesulfone sodium, elixir sulfanilamide, mafenide, phthalylsulfathiazole, prontosil, silver sulfadiazine, succinylsulfathiazole, sulfabenzamide, sulfacetamide, sulfacytine, sulfadiazine, sulfadicramide, sulfadimethoxine, sulfadimidine, sulfadoxine, sulfafurazole, sulfaguanidine, sulfalene, sulfamazone, sulfamerazine, sulfamethizole, sulfamethoxazole, sulfamethoxypyridazine, sulfametomidine, sulfametoxydiazine, sulfametrole, sulfamoxole, sulfanilamide, sulfaperin, sulfaphenazole, sulfapyridine, sulfaquinoxaline, sulfathiazole, sulfathiourea, sulfatolamide, and sulfisomidine, among others. Sulfathiazole is preferably included because of its toxicity to some Citrobacter spp. A preferred combination of sulfa drugs includes sulfanilamide and sulfathiazole in a ratio of about 9:1, such as in concentrations of about 0.9 g/L and 0.1 g/L, respectively. The one or more sulfa drugs may be included in the media at a concentration of from about 0.05 g/L to about 20 g/L, more preferably of from about 0.1 g/L to about 10 g/L, and most preferably from about 0.5 g/L to about 2.0 g/L. Such concentrations refer to the total concentration of all sulfa drugs in the composition.
The media of the invention may contain one or more surfactants as a selective agent. The surfactant may be a non-ionic surfactant, an ionic surfactant, or an amphoteric surfactant. If an ionic surfactant, the surfactant may be a cationic surfactant or an anionic surfactant. Preferred surfactants are anionic surfactants, such as aliphatic sulfates. The aliphatic sulfate may have a branched aliphatic chain or a linear aliphatic chain. Preferred aliphatic sulfates include 7-ethyl-2-methyl-4-undecanol hydrogen sulfate or sodium salt thereof (Tergitol 4; CAS No. 139-88-8) and 7-ethyl-2-methyl-4-undecyl sulfate or sodium salt thereof (NIAPROOF® 4, SIGMA-ALDRICH® Cat. No. N1404). The 7-ethyl-2-methyl-4-undecyl sulfate or a sodium salt thereof is particularly preferred. These aliphatic sulfates inhibit growth of Proteus spp. The one or more surfactants may be included in the media at a concentration of from about 0.1 g/L to about 45 g/L, preferably of from about 0.2 g/L to about 22.5 g/L, and more preferably of from about 1.0 g/L to about 4.5 g/L.
The media of the invention may contain one or more aminocoumarins as a selective agent. Aminocoumarins include clorobiocin, coumermycin A1, and novobiocin. Novobiocin is a preferred aminocoumarin for inclusion in the media of the invention. Novobiocin is a Gram-positive antibacterial. Novobiocin appears to facilitate Salmonella spp. recovery in selective enrichment media, probably by inhibiting the growth of competitive microorganisms. The one or more aminocoumarins may be included in the media at a concentration of from about 0.002 g/L to about 1 g/L, preferably about 0.004 g/L to about 0.5 g/L, and more preferably about 0.02 g/L to about 0.10 g/L.
The media of the invention may contain cycloheximide as a selective agent. Cycloheximide is an inhibitor of protein biosynthesis in eukaryotic organisms and thereby inhibits the growth of mold and yeast. Addition of cycloheximide is useful, as some yeasts can ferment 2-deoxy-D-ribose. The cycloheximide may be included in the media at a concentration of from about 0.001 g/L to about 1.0 g/L, preferably of from about 0.002 g/L to about 0.5 g/L, and more preferably of from about 0.01 g/L to about 0.10 g/L.
The media of the invention may contain a supravital stain as a selective agent. As used herein, “supravital stain” refers to a stain that enters and stains living cells, such as bacteria. Such stains are toxic to certain organisms over time, some more so than others. Examples of supravital stains include gentian violet, crystal violet, brilliant green, bismark brown, safranin, methylene blue, malachite blue, and brilliant green, among others. Preferred supravital stains include those that are more highly toxic to non-Salmonella microorganisms than Salmonella microogranisms. Brilliant green is a preferred supravital stain for including the media. Brilliant green is a trimethylaryl dye that inhibits certain non-Salmonella Gram-negative and Gram-positive bacteria. Brilliant green bleaches at low pH and therefore does not interfere with the pH indicator reaction. Other supravital stains, such as malachite blue, do not bleach effectively at low pH and would therefore preclude the use of a chromogenic pH indicator. Such supravital stains, however, may be used when an indication of a change in pH is not desired or needed. The supravital stain may be included in the media at a concentration of from about 0.0001 g/L to about 0.5 g/L, preferably of from about 0.0002 g/L to about 0.25 g/L, and more preferably of from about 0.001 g/L to about 0.05 g/L.
The media of the invention may contain ascorbic acid as a selective agent. Ascorbic acid has inhibitory activity against some species of Citrobacter spp. See U.S. Pat. No. 4,279,995 to Woods et al. Ascorbic acid may be included in the media at a concentration of from about 0.05 g/L to about 20 g/L, preferably of from about 0.1 g/L to about 10 g/L, and more preferably of from about 0.5 g/L to about 2.0 g/L.
The media of the invention may contain bromobenzoic acid as a selective agent. Bromobenzoic acid has inhibitory activity against some species of Citrobacter spp. See U.S. Pat. No. 4,279,995 to Woods et al. Bromobenzoic acid may be included in the media at a concentration of from about 0.001 g/L to about 1.0 g/L, preferably of from about 0.002 g/L to about 0.50 g/L, and more preferably of from about 0.01 g/L to about 0.10 g/L.
The media of the invention may contain myricetin as a selective agent. Myricetin inhibits Enterobacter and Klebsiella spp. Myricetin may be included in the media at a concentration of from about 0.001 g/L to about 1.0 g/L, preferably of from about 0.002 g/L to about 0.50 g/L, and more preferably of from about 0.01 g/L to about 0.10 g/L.
The media of the invention may contain one or more rifamycins as a selective agent. Suitable rifamycins include rifamycins A, B, C, D, E, S, and SV as well as the rifamycin derivatives rifampicin (or rifampin), rifabutin, rifapentine, and rifalazil. Rifampicin is preferred. The rifamycin may be included in the media at a concentration of from about 0.0001 g/L to about 0.2 g/L, preferably of from 0.0002 g/L to about 0.1 g/L, and more preferably of from 0.001 g/L to about 0.02 g/L.
The media of the invention may contain one or more polyketides as a selective agent. Suitable polyketides include macrolide antibiotics such as pikromycin, erythromycin A, clarithromycin, and azithromycin; polyene antibiotics such as amphotericin; tetracycline; and doxacycline. Tetracycline and/or doxycycline are preferred. The polyketide may be included in the media at a concentration of from about 0.0001 g/L to about 0.2 g/L, preferably of from 0.0002 g/L to about 0.1 g/L, and more preferably of from 0.001 g/L to about 0.02 g/L.
The media of the invention may contain one or more oxazolidinones as a selective agent. Suitable oxazolidinones include linezolid (ZYVOX®, Pfizer, Inc., New York, N.Y.), posizolid, torezolid, radezolid (RX-1741), and cycloserine. Linezolid is preferred. The oxazolidinone may be included in the media at a concentration of from about 0.0001 g/L to about 0.2 g/L, preferably of from 0.0002 g/L to about 0.1 g/L, and more preferably of from 0.001 g/L to about 0.02 g/L.
Some media of the invention comprise only one of a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin, a rifamycin, a polyketide, or an oxazolidinone as a selective agent. Some media of the invention comprise a sulfa drug in combination with any one, all, or subcombinations of a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin, a rifamycin, a polyketide, and an oxazolidinone as a selective agent. Some media of the invention comprise a surfactant in combination with any one, all, or subcombinations of a sulfa drug, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin, a rifamycin, a polyketide, and an oxazolidinone as a selective agent. Some media of the invention comprise an aminocoumarin in combination with any one, all, or subcombinations of a sulfa drug, a surfactant, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin, a rifamycin, a polyketide, and an oxazolidinone as a selective agent. Some media of the invention comprise cycloheximide in combination with any one, all, or subcombinations of a sulfa drug, a surfactant, an aminocoumarin, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin, a rifamycin, a polyketide, and an oxazolidinone as a selective agent. Some media of the invention comprise a supravital stain in combination with any one, all, or subcombinations of a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, ascorbic acid, bromobenzoic acid, myricetin, a rifamycin, a polyketide, and an oxazolidinone as a selective agent. Some media of the invention comprise ascorbic acid in combination with any one, all, or subcombinations of a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, bromobenzoic acid, myricetin, a rifamycin, a polyketide, and an oxazolidinone as a selective agent. Some media of the invention comprise bromobenzoic acid in combination with any one, all, or subcombinations of a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, myricetin, a rifamycin, a polyketide, and an oxazolidinone as a selective agent. Some media of the invention comprise myricetin in combination with any one, all, or subcombinations of a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, a rifamycin, a polyketide, and an oxazolidinone as a selective agent. Some media of the invention comprise a rifamycin in combination with any one, all, or subcombinations of a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin, a polyketide, and an oxazolidinone as a selective agent. Some media of the invention comprise a polyketide in combination with any one, all, or subcombinations of a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin, a rifamycin, and an oxazolidinone as a selective agent. Some media of the invention comprise an oxazolidinone in combination with any one, all, or subcombinations of a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin, a rifamycin, and a polyketide as a selective agent.
The media of the invention may also contain one or more efflux pump inhibitors (EPIs). As used herein, “efflux pump inhibitor” refers to any agent capable of inhibiting a bacterial efflux pump. The EPI preferably increases the toxicity of selective agents in non-Salmonella Gram-negative bacteria and/or Gram-positive bacteria.
Phylogenetically, bacterial antibiotic efflux pumps belong to five superfamilies (see reviews (Li X Z, Nikaido H. Efflux-mediated drug resistance in bacteria. Drugs 2004; 64:159-204) (Paulsen I T. Multidrug efflux pumps and resistance: regulation and evolution. Curr Opin Microbiol 2003; 6:446-51) (Saier M H Jr. Tracing pathways of transport protein evolution. Mol Microbiol 2003; 48:1145-56), namely: (i) ABC (ATP-binding cassette), which are primary active transporters energized by ATP hydrolysis; (ii) SMR [small multidrug resistance subfamily of the DMT (drug/metabolite transporters) superfamily]; (iii) MATE [multi-antimicrobial extrusion subfamily of the MOP (multidrug/oligosaccharidyl-lipid/polysaccharide flippases) superfamily]; (iv) MFS (major facilitator superfamily); and (v) RND (resistance/nodulation/division superfamily), which are all secondary active transporters driven by ion gradients. The MFS and RND pumps are the most abundant. The MFS pumps are found in both Gram-positive and Gram-negative bacteria, and are characterized by a relative narrow spectrum, recognizing usually one or sometimes a few antibiotic classes; the RND pumps are found exclusively in Gram-negative bacteria and display an extremely wide spectrum of substrates (poly-selectivity), including not only several classes of antibiotics, but also antiseptic compounds, dyes, or detergents. See: (1) Levy S B. Active efflux, a common mechanism for biocide and antibiotic resistance. J Appl Microbiol 2002; 92 Suppl:65-71; (2) Li X Z, Nikaido H. Efflux-mediated drug resistance in bacteria. Drugs 2004; 64:159-204; (3) Lomovskaya O, Totrov M. Vacuuming the periplasm. J. Bacteriol 2005; 187:1879-83; (4) Poole K. Efflux-mediated antimicrobial resistance. J Antimicrob Chemother 2005; 56:20-51; (5) Van Bambeke F, Glupczynski Y, Plesiat P, et al. Antibiotic efflux pumps in prokaryotic cells: occurrence, impact on resistance and strategies for the future of antimicrobial therapy. J Antimicrob Chemother 2003; 51:1055-65; (6) Koronakis V. TolC—the bacterial exit duct for proteins and drugs. FEBS Lett 2003; 555:66-71; and (7) Piddock L J. Clinically relevant chromosomally encoded multidrug resistance efflux pumps in bacteria. Clin Microbiol Rev 2006; 19:382-402.
Suitable EPIs that may be included in the media of the invention include phenothiazines (see Molnar J, Hever A, Fakla I, et al. Inhibition of the transport function of membrane proteins by some substituted phenothiazines in E. coli and multidrug resistant tumor cells. Anticancer Res 1997; 17:481-6), phenylpiperidines (see Kaatz G W, Moudgal V V, Seo S M, et al. Phenylpiperidine selective serotonin reuptake inhibitors interfere with multidrug efflux pump activity in Staphylococcus aureus. Int J Antimicrob Agents 2003; 22:254-61), tetracycline analogs (Nelson M L, Park B H, Andrews J S, et al. Inhibition of the tetracycline efflux antiport protein by 13-thio-substituted 5-hydroxy-6-deoxytetracyclines. J Med Chem 1993; 36:370-7; and Nelson M L, Park B H, Levy S B. Molecular requirements for the inhibition of the tetracycline antiport protein and the effect of potent inhibitors on the growth of tetracycline-resistant bacteria. J Med Chem 1994; 37:1355-61.), aminoglycoside analogs (Françoise Van Bambeke, Jean-Marie Pages and Ving J. Lee. Inhibitors of Bacterial Efflux Pumps as Adjuvants in Antibiotic Treatments and Diagnostic Tools for Detection of Resistance by Efflux. Recent Patents on Anti-Infective Drug Discovery, 2006, 1, 157-175), fluoroquinolone analogs (Françoise Van Bambeke, Jean-Marie Pagès and Ving J. Lee. Inhibitors of Bacterial Efflux Pumps as Adjuvants in Antibiotic Treatments and Diagnostic Tools for Detection of Resistance by Efflux. Recent Patents on Anti-Infective Drug Discovery, 2006, 1, 157-175), quinoline derivatives (Mahamoud A, Chevalier J, Davin-Regli A, et al. Quinolone derivatives as promising inhibitors of antibiotic efflux pump in multidrug resistant Enterobacter aerogenes. Curr Drug Targets 2006; 7:843-7), peptidomimetics (Lomovskaya O, Bostian K A. Practical applications and feasibility of efflux pump inhibitors in the clinic—a vision for applied use. Biochem Pharmacol 2006; 71:910-18), pyridopyrimidines (Nakayama K, Ishida Y, Ohtsuka M, et al. MexAB-OprM-specific efflux pump inhibitors in Pseudomonas aeruginosa. Part 1: discovery and early strategies for lead optimization. Bioorg Med Chem Lett 2003; 13:4201-4; Nakayama K, Ishida Y, Ohtsuka M, et al. MexAB-OprM specific efflux pump inhibitors in Pseudomonas aeruginosa. Part 2: achieving activity in vivo through the use of alternative scaffolds. Bioorg Med Chem Lett 2003; 13:4205-8; Nakayama K, Kawato H, Watanabe J, et al. MexAB-OprM specific efflux pump inhibitors in Pseudomonas aeruginosa. Part 3: Optimization of potency in the pyridopyrimidine series through the application of a pharmacophore model. Bioorg Med Chem Lett 2004; 14:475-9; Nakayama K, Kuru N, Ohtsuka M, et al. MexAB-OprM specific efflux pump inhibitors in Pseudomonas aeruginosa. Part 4: Addressing the problem of poor stability due to photoisomerization of an acrylic acid moiety. Bioorg Med Chem Lett 2004; 14:2493-7; and Yoshida K, Nakayama K, Kuru N, et al. MexAB-OprM specific efflux pump inhibitors in Pseudomonas aeruginosa. Part 5: Carbon-substituted analogues at the C-2 position. Bioorg Med Chem 2006; 14:1993-2004), arylpiperidines (Thorarensen A, Presley-Bodnar A L, Marotti K R, et al. 3-Arylpiperidines as potentiators of existing antibacterial agents. Bioorg Med Chem Lett 2001; 11:1903-6), and arylpiperazines (Bohnert J A, Kern W V. Selected arylpiperazines are capable of reversing multidrug resistance in Escherichia coli overexpressing RND efflux pumps. Antimicrob Agents Chemother 2005; 49:849-52; Schumacher A, Steinke P, Bohnert J A, et al. Effect of 1-(1-naphthylmethyl)-piperazine, a novel putative efflux pump inhibitor, on antimicrobial drug susceptibility in clinical isolates of Enterobacteriaceae other than Escherichia coli. J Antimicrob Chemother 2006; 57:344-8; Kern W V, Steinke P, Schumacher A, et al. Effect of 1-(1-naphthylmethyl)-piperazine, a novel putative efflux pump inhibitor, on antimicrobial drug susceptibility in clinical isolates of Escherichia coli. J Antimicrob Chemother 2006; 57:339-43; Pannek S, Higgins P G, Steinke P, et al. Multidrug efflux inhibition in Acinetobacter baumannii: comparison between 1-(1-naphthylmethyl)-piperazine and phenyl-arginine-beta-naphthylamide. J Antimicrob Chemother 2006; 57:970-4.). See also Mahamoud, A. et al. Antibiotic efflux pumps in Gram-negative bacteria: the inhibitor response strategy. J. Antimicrob. Chemoth. 59(6):1223-1229. 2007.
Suitable phenothiazines include promethazine and 3,7,8,-trihydroxy-, 7,8-dihydroxy, 7,8-diacetoxy-, 7,8dimetoxy-, 7-semicarbazone-, and 5-oxo-chlorpromazine derivatives, among others. Suitable phenylpiperidines include the paroxetine isomer NNC 20-7052, among others. Suitable tetracycline analogs include 13-(alkylthio) and 13-(arylthio) derivatives of 5-hydroxy-6-deoxytetracycline, among others. Suitable aminoglycoside analogs include the aminoglycosides described in U.S. Pat. No. 7,829,543, among others. Suitable fluoroquinolone analogs include those described in WO0209758A2 and WO0209758A3, among others. Suitable quinoline derivatives include alkylamino-, alkyl-alkoxy-, thioalkoxy-, and halo-quinoline derivatives (e.g., chloroquinoline derivatives) and those having piperidinoethyl chains, among others. A preferred quinoline derivative is 4-chloroquinoline. Suitable peptidomimetics include MC-207 110 or phenylalanine arginyl f3-naphthylamide (PAβN), and derivatives thereof, among others. Suitable arylpiperidines include 3-arylpiperidine derivatives, among others. Suitable arylpiperazines include arylpiperazines, including 1-(1-naphthylmethyl)piperazine and others.
The EPIs are preferably selected from the group consisting of arylpiperazines, such as 1-(1-naphthylmethyl)piperazine (NMP; CAS No. 40675-81-8; available as Cat. No. 651699, SIGMA-ALDRICH® Co., St. Louis, Mo.), and quinoline derivatives, such as 4-chloroquinoline (4-CQ; CAS No. 611-35-8; available as Cat. No. C70509, SIGMA-ALDRICH® Co., St. Louis, Mo.). The NMP and 4-CQ may be included individually or together.
As shown in the following Examples, combinations of an EPI with polyketide, rifamycin, or oxazolidinone antibiotics can increase the activity of these antibiotics against Enterobacteriacae and other microorganisms without substantially affecting growth and fermentation of Salmonella species. Accordingly, the one or more selective agents and the efflux pump inhibitor are present in the media of the invention in amounts effective to inhibit growth of at least one non-Salmonella species to a greater extent than Salmonella species, or at least Salmonella enterica. It is preferred that the combination of the one or more selective agents and the efflux pump inhibitor are present in an amount that does not substantially affect the growth or metabolism of Salmonella species, or at least Salmonella enterica. 
The media described herein can be provided in a hydrated form, such as in the form of a liquid or gel-like (e.g., agar) medium, or in a dried form. If in a dried form, the components are preferably present in a proportion such that addition of water or other solvents provides each of the components within the concentration ranges described above. In addition, the media, whether in died or hydrated form, may be provided in separate combinations, e.g., basal media and one or more supplements, as described in the following examples.
Methods of using the media of the invention are apparent from the following examples.
Kits for use of the media of the invention may include any combination of components described herein, such as in the following examples.
Concentrations other than those explicitly described herein are included in the invention.
The elements and method steps described herein can be used in any combination whether explicitly described or not.
All combinations of method steps described herein can be performed in any order, unless otherwise specified or clearly implied to the contrary by the context in which the referenced combination is made.
As used herein, the singular forms “a,” “an,” and “the” include plural referents unless the content clearly dictates otherwise.
Numerical ranges as used herein are intended to include every number and subset of numbers contained within that range, whether specifically disclosed or not. Further, these numerical ranges should be construed as providing support for a claim directed to any number or subset of numbers in that range. For example, a disclosure of from 1 to 10 should be construed as supporting a range of from 2 to 8, from 3 to 7, from 5 to 6, from 1 to 9, from 3.6 to 4.6, from 3.5 to 9.9, and so forth.
All patents, patent publications, and peer-reviewed publications (i.e., “references”) cited herein are expressly incorporated by reference to the same extent as if each individual reference were specifically and individually indicated as being incorporated by reference. In case of conflict between the present disclosure and the incorporated references, the present disclosure controls.
It is understood that the invention is not confined to the particular construction and arrangement of parts herein illustrated and described, but embraces such modified forms thereof as come within the scope of the following claims.
EXAMPLES
The following working examples are intended to illustrate the features of the present invention without limiting the particular components or potential use of the media.
Example 1
Salmonella Indicator Broth-1 (SIB-1)
Several experiments were conducted with an EPI-supplemented medium, referred to herein as “SIB-1.”
Example 1.1
Summary
The Salmonella Indicator Broth-1, (SIB-1), is a single step selective enrichment indicator broth to be used as simple screening test for the presence of Salmonella spp. in environmental samples. This test permits the end user to avoid the multi-step process of sample processing to identify presumptively positive samples as exemplified by standard U.S. reference methods. SIB-1 permits the outgrowth of Salmonella while inhibiting the growth of competitive gram-negative and gram-positive micro-flora. Growth of Salmonella-positive cultures results in a visual color change of the medium from purple to yellow when the sample is grown at 37±1° C.
Performance of SIB-1 was evaluated in five different categories: inclusivity-exclusivity, methods comparison, ruggedness, lot-to-lot variability, and shelf stability.
The inclusivity panel included 100 different Salmonella serovars of which 98 were positive for SIB-1 during the 30 to 48 hour incubation period.
The exclusivity panel included 33 different non-Salmonella microorganisms of which 31 were SIB-1 negative during the incubation period.
Methods comparison studies included four different surfaces, S. Newport on plastic, S. Anatum on sealed concrete, S. Abaetetuba on ceramic tile and S. Typhimurium in the presence of one log excess of C. freundii. Results of the methods comparison studies demonstrated no statistical difference between the SIB-1 method and the FDA-BAM reference method, as measured by the Mantel-Haenszel chi-square test. The overall sensitivity relative to the reference method across all four surfaces was >100% (it is possible bacterial growth occurred during the study period). There were no significant differences between SIB-1 and the reference method on any of the surfaces tested.
Ruggedness studies demonstrated little variation in test results when SIB-1 incubation temperatures were varied over a six degree centigrade range, 34° C. to 40° C. Lot to lot consistency results suggests no detectable differences in manufactured goods using two reference Salmonella serovars and one non-Salmonella microorganism.
Example 1.2
Definitions
Relative Sensitivity: Defined as the number of samples testing positive by the SIB-1 method divided by the number of samples testing positive by the reference culture procedure.
Statistical Data Analysis: The Mantel-Haenszel chi-square formula for unmatched test portions was used for the statistical analysis (1). A Chi-square value <3.84 indicates that the proportions positive for the alternative and the reference method are not statistically different at the 5% level of significance. This criterion must be satisfied for each level of each surface type. However, a significant difference between the proportions positive for the two methods is acceptable provided that the alternative method demonstrates superior recovery to the reference method.
Example 1.3
Principle
The principle of SIB-1 utilizes two operating conditions, the first selective enrichment of the Salmonella population from the background microflora and secondly the simultaneous metabolism of a very specific Salmonella substrate. SIB-1 is a balanced blend of proprietary selective agents highly restrictive to non-Salmonella bacteria and combining a highly specific metabolic substrate for Salmonella. As the selected population grows out the media becomes acidified and an incorporated pH indicator detects the pH change by a color shift from purple to yellow.
Example 1.4
Preparation of Basal SIB Medium
Peptone 10 g/L, MgCl2 13 g/L, bromocresol purple 0.02 g/L, and sulfanilamide 0.9 g/L were dissolved in 950 mL de-ionized, distilled water; autoclaved under standard sterilization cycle conditions, 121° C. at 3 atm for 15 minutes; and cooled to about 30° C. The following components were then added as filter-sterilized supplements: sulfathiazole 0.1 g/L; NIAPROOF® 4 1.5 g/L; 2-deoxy-D-ribose 5 g/L; cycloheximide 0.05 g/L; ascorbic acid 1 g/L; p-bromobenzoic acid 0.04 g/L; novobiocin 0.04 g/L; brilliant green 0.001 g/L; and myricetin 0.03 g/L.
Example 1.5
Preparation of SIB-1
Basal SIB was supplemented with 1-(1-naphthylmethyl)piperazine (NMP) at a final concentration of 0.2 mM (0.044 g/L) to generate SIB-1.
Example 1.6
SIB-1 Kit Components
Kits for methods employing Salmonella selection and detection include 15-mL screw cap vials containing SIB-1. The kits may also include 3MTM ENVIRO SWAB environmental sample collecting swabs, available through 3M Company (St. Paul, Minn.) or Paradigm Diagnostics, Inc. (St. Paul, Minn.), or equivalent. Alternatives include WHIRL-PAK® sampling bags (Nasco Industries, Inc., Fort Atkinson, Wis.) with pre-moistened carcass sponges, or equivalent.
Example 1.7
Incubations
Incubations were conducted in a temperature-thermostated incubator (preferred) or heating block (32° C. to 40° C.).
Example 1.8
Standard Reference Materials
Reference strains were obtained through the following sources, Microbiologics, Inc., St. Cloud, Minn., National Collection of Type Cultures (NCTC) Health Protection Agency Culture Collection, Porton Down, UK., Prof. Francisco Diez-Gonzalez, Department of Food Science, University of Minnesota, St. Paul, Minn., and the American type Culture Collection (ATCC), Bethesda, Md. Sero-groups were identified through reference to the handbook of Salmonella antigenic structures (Grimont, Patrick A. D. & Weill, Francois-Xavier. ANTIGENIC FORMULAE OF THE SALMONELLA SEROVARS. 2007, 9th edition).
Example 1.9
General Sample Preparation
Pure cultures were obtained from Health Protection Agency, NCTC, Porton Down, UK and Microbiologics, Inc., St. Cloud, Minn., the University of Pennsylvania School of Veterinary Medicine, Center for Reference Salmonella and Microbiology Labs of Dr. Diez and Dr. Feirtag at the University of Minnesota, St. Paul, Minn. Original pure cultures were grown overnight in sterile Tryptic Soy Broth (TSB) or Brain Heart Infusion broth (BHI) at 32-37° C. In order to have reproducible cultures, 50% glycerol stock solutions of cultures were prepared and stored in a freezer. Fifty percent glycerol stock cultures were prepared by diluting 500 μL of pure culture grown overnight with 500 μL sterile glycerol. Then 200 μL portions were filled into sterile 2 mL centrifuge tubes, capped and kept in a freezer at −15° C. until the day before use. On the day before use, a loop-full of freezer-stored stock cultures were inoculated into 5 mL of sterile TSB, the same loop was streaked onto tryptic soy agar (TSA). The plates were incubated overnight at 37±1° C. TSA plates were checked for visible contamination, based on colony morphology. If the TSA plates suggested there was no visible contamination, logarithmic level dilutions were made into sterile peptone solutions (0.1% peptone water). Aliquots containing 100 μL of 6 and 7 log dilutions from overnight cultures were plated onto TSA for estimating the cell concentration (CFU/mL) and checked for contamination.
Dilutions of pure cultures aforementioned were used for inclusivity-exclusivity, method comparison, ruggedness and lot to-lot variability, and shelf stability studies.
Example 1.10
Environmental Sample Preparation and Analysis
Environmental samples were taken with sampling devices following U.S. FDA Bacteriological Analytical Manual (BAM) recommendations for sampling (U.S. Food and Drug Administration (2011) Bacteriological Analytical Manual, Chapter 5). The sampling devices were returned back into the original sterile container. One unit (15 mL) of SIB-1 media was aseptically added to each sterile container to fully submerge the applicator tip and was incubated in an upright position for 30 to 48 hours at 37±1° C. The color of the media was checked. The sample was called presumptive positive for Salmonella if the color of the media changed from purple color to a yellow color.
In order to confirm the negatives, purple/pale colorless-colored (presumptive negative) tubes were incubated for a total of 48 hours. At least one negative control was run in each set of analysis. A negative control was an unused sampling device containing one unit of SIB-1, incubated alongside the samples.
Example 1.11
Inclusivity-Exclusivity Studies
Serial dilutions from overnight grown pure cultures of 100 different Salmonella and 33 different non-Salmonella cultures were made into sterile 0.1% peptone water. One hundred microliters from log−8 dilution ( ̃1.0E+3 CFU/mL) were plated onto TSA plates for estimating the number of cells tested. For the inclusivity studies 0.1 mL (estimated cell concentration ranging from 10 to 100 CFU of Salmonella) of a dilution aliquot was aseptically transferred onto the top of the sampling sponge. For the exclusivity studies 0.2 mL (estimated cell concentration >1,000,000 CFU of non-Salmonella) of a dilution aliquot was aseptically transferred onto the top of the sampling sponge. The sampling device was placed back into the sterile tube and submerged in 15 mL of SIB-1 media. The results are given in Tables 1a and 1b respectively.







TABLE 1a







Results of Inclusivity Test for SIB-1















SIB-1







Medium
Presumptive



Serovar
Source
Origin
Color
Result
Sero-group





S. Adelaide
U of MN 94679420
Meat meal
Yellow
+
O


S. Agona
U of MN inv 95650951
Soybean
Yellow
+
B




meal





S. Albany
U of MN 2009595
Frozen fish
Yellow
+
C3




paste





S. Anatum
U of MN 95645854
Chicken
Yellow
+
E1




feed





S. Bovismorbificans
U of MN 3064124
Vietnam
Yellow
+
C2


S. Carrau
U of MN 2003413
Frozen
Yellow
+
H




shrimp





S. Cerro
U of MN 94713965
Poultry
Yellow
+
K




feed





S. Cubana
U of MN 94679421
Swine feed
Blue
−
G2


S. Chester
U of MN 3063650
Frozen
Yellow
+
B




tilapia fish





S. Emek
U of MN 3063892
Frozen
Yellow
+
C3




catfish





S. Enteritidis 
U of MN 95657613
Ice cream
Yellow
+
D1


S. Give
U of MN 1829352
Lobster tail
Yellow
+
E1


S. Gloucester
U of MN 1676771
Sesame
Yellow
+
B




seeds





S. Hvittingfoss
U of MN 200373
Frozen frog
Yellow
+
I




legs





S. Infantis
U of MN 2015422
Frozen
Yellow
+
C1




lobster tail





S. Javiana
U of MN 1842147
Frozen
Yellow
+
D1




shrimp





S. Kentucky
U of MN 95-690-012
Cottonseed
Yellow
+
C3




meal





S. Lille
U of MN 95-713-959
Chicken
Yellow
+
C1




feed





S. Mbandaka
U of MN 95690014
Soybean
Yellow
+
C1




meal





S. Meleagridis 
U of MN 1949345
Frozen
Yellow
+
E1




shrimp





S. Montevideo
U of MN 95573493
Raw eggs
Yellow
+
C1


S. Muenchen
U of MN 1842204
Frozen
Yellow
+
C2




shrimp





S. Newbrunswick
U of MN 1842304
Frozen
Yellow
+
E1




shrimp





S. Nashua
U of MN 2006036
Poultry
Yellow
+
M




feed





S. Newport
U of MN 2006038
Frozen
Yellow
+
C2




lobster tail





S. Penilla
U of MN 1949289
Frozen
Yellow
+
M




shrimp





S. Poona
U of MN 1103174
White
Yellow
+
G1




pepper





S. Sterrenbos 
U of MN 1842082
Frozen
Yellow
+
C3




shrimp





S. Thompson
U of MN 95657618
Ice cream
Yellow
+
C1


S. Weltevreden
U of MN 1950358
Dried ling
Yellow
+
E1




shrimp





S. Typhimurium
U of MN 3019907
Salted
Yellow
+
B




dune egg





S. Worthington
U of MN 95-713-958
Chicken
Yellow
+
G2




feed





S. Kumasi
U of MN 1929854
Frozen
Yellow
+
N




crab meat





S. Rubislaw
U of MN 2004976
Frozen
Yellow
+
F




shrimp





S. Goodwood
U of MN
Faeces
Yellow
+
E4


S. Senftenberg
U of MN
Sewage
Yellow
+
E4


S. Ohio
U of MN
Animal
Yellow
+
C1




feed





S. Limete
U of MN

Yellow
+
B


S. Tennessee
U of MN
Soybean
Yellow
+
C1




meal





S. Newington
U of MN
Wild
Yellow
+
B




poultry





S. Aberdeen
NCTC 5791
Infantile
Yellow
+
F




diarrhea





S. Aequatoria
NCTC 7891
African
Yellow
+
C1




zoonosis





S. Alabama
NCTC 9868
Human
Yellow
+
B




faeces





S. Altendorf
NCTC 10546

Yellow
+
B


S. Austin
NCTC 8447

Yellow
+
C1


S. Ball
NCTC 9870

Yellow
+
B


S. Berkeley
NCTC 8260
Diseased
Yellow
+
U




turkey





S. Brookfield
NCTC 10946

Yellow
+
O66


S. California 
NCTC 6018
Animal
Yellow
+
B




feed





S. Canastel
NCTC 6948
Animal
Yellow
+
D1




feed





S. Carmel
NCTC 9872
Infantile
Yellow
+
O17




diarrhea





S. Champaign
NCTC 6851
Hen liver
Yellow
+
Q


S. Chicago
NCTC 9873

Yellow
+
M


S. Colombo
NCTC 9922
Sheep
Yellow
+
P


S. Ealing
NCTC 11949
Dried baby
Yellow
+
O




milk





S. Dahlem
NCTC 9949
Cattle
Yellow
+
Y


S. Gallinarum
NCTC 10532
Poultry
Blue
−
D1


S. Houten
NCTC 10401
Reptile
Yellow
+
O43


S. Kottbus
NCTC 5753
Faeces
Yellow
+
C2


S. Illinois
NCTC 8498
Poults
Yellow
+
E3


S. Lexington
NCTC 6244
Soybean
Yellow
+
E1


S. Manchester
NCTC 7372

Yellow
+
C2


S. Minnesota
NCTC 5800
Swine
Yellow
+
L


S. Mississippi
NCTC 6487
Faeces
Yellow
+
G2


S. Napoli
NCTC 6853
Food
Yellow
+
D1




handlers





S. Pensacola
NCTC 6946

Yellow
+
D1


S. Pretoria
NCTC 6234
Meat
Yellow
+
F


S. Shanghai
NCTC 9791

Yellow
+
I


S. Sunsvall
NCTC 9787
Dried egg
Yellow
+
H


S. Waycross
NCTC 7401
Urine
Yellow
+
S


S. Alachua
U Penn STS 6
Swine
Yellow
+
O


S. Choleraesuis
ATCC 10708
Fish
Yellow
+
C


S. Arkansas
U Penn STS 11

Yellow
+
B


S. Blockley
U Penn STS 15
Environment
Yellow
+
C2


S. Brandenburg
U Penn STS 18
Swine
Yellow
+
B


S. Derby
U Penn STS 22
Polluted
Yellow
+
B




water





S. Dublin
U Penn STS 27
Cattle
Yellow
+
D1


S. Hadar
U Penn STS 45
Turkey
Yellow
+
C2


S. Heidelberg
U Penn STS 48
Poultry
Yellow
+
B


S. London
U Penn STS 64
Polluted
Yellow
+
E1




water





S. Manhattan
U Penn STS 65
Avian
Yellow
+
C2


S. Oranienburg
U Penn STS 83
Egg
Yellow
+
C1


S. Panama
U Penn STS 86
Infantile
Yellow
+
D1




diarrhea





S. Paratyphis
ATCC 13314
Sewage
Yellow
+
A


S. Saint Paul
U of MN
Milk
Yellow
+
B




powder





S. Schwarzengrund
U Penn STS 95
Chicken
Yellow
+
B


S. Stanley
U Penn STS100
Reptile
Yellow
+
B


S. Urbana
U Penn STS110
Reptile
Yellow
+
N


S. Johannesburg
U Penn STS 56
Meat meal
Yellow
+
R


S. Thomasville
U Penn STS103
Poultry
Yellow
+
E3




meal





S. Virchow
U Penn STS 112
Basil
Yellow
+
C1


S. Abaetetuba
ATCC 35640
Fresh
Yellow
+
F




water





S. Choleraesuis
ATCC 12011
Swine
Yellow
+
B


var. Kunzendorf







S. Vallore
ATCC 15611

Yellow
+
B


S. Paratyphis
U of MN 2014696
Frozen frog
Yellow
+
B




legs





S. Tallahassee
ATCC 12002

Yellow
+
C3


S. Salford
U of MN 2009532
Oregano
Yellow
+
I




turkey





S. Birmingham
U of MN D195764802
Alfalfa seed
Yellow
+
E1


S. Brunei
U of MN 1680318
Frozen
Yellow
+
C3




Shrimp





S. Ikeja
U of MN 3019543
Frozen
Yellow
+
E1




Shrimp





S. Cubana
UPenn
Swine
Yellow
+
G2
















TABLE 1b







Results of Exclusivity Test for SIB-1










Species
Source
Origin
SIB-1 Result





Klebsiella pneumoniae
NCTC 9633
Sputum
−


Proteus mirabilis
ATCC 12453
GI tract
−


Citrobacter freundii
NCTC 9750
Soil
−


Escherichia coli
ATCC 13706
GI tract
−


Escherichia coli
ATCC 14948
GI tract
−


Hafnia alvei
ATCC 700025
Brewery 
−




fermentation





samples



Serratia liquefaciens
ATCC 27592

−


Morganella morganii
ATCC 25829

−


subsp. morganii





Pseudomonas
ATCC 10145

−


aeruginosa





Providencia rettgeri
ATCC 9250

−


Enterobacter
ATCC 51816

−


amnigenus





Enterobacter
ATCC 13048

−


aerogenes





Shigeo sonnei
ATCC 25931

−


Shigeo flexneri
ATCC 9199

−


Staphylococcus
ATCC 14990

−


epidermidis





Staphylococcus aureus
ATCC 700699

−


Serratia marcescens
ATCC 13880
Polenta
−


Enterobacter cloacae
ATCC 23355

−


subsp. cloacae





Enterobacter gergoviae
ATCC 33028

−


Klebsiella oxytoca
ATCC 13182

−


Providencia
ATCC 16529

−


wickerhamii





Shigeo boydii
ATCC 9207

−


Staphylococcus aureus
NCTC 12973

−


Yersinia enterocolitica
ATCC 23715

−


subsp. enterocolitica





Yersinia ruckerii
ATCC 29473

−


Citrobacter freundii
ATCC 8090

+


Citrobacter braakii
ATCC 43162

−


Citrobacter koseri
ATCC 27156

+


Escherichia coli
NCIMB 11943

−


Escherichia coli
NCTC 10538

−


Listeria monocytogenes
ATCC 13932

−


Listeria innocua
ATCC 33090

−


Pasteurella multocida
ATCC 12945

−


subsp. multocida





Providencia stuartii
ATCC 33672

−


Edwardsiella tarda
ATCC 15947

−









Example 1.12
Methods Comparison Studies
Method comparison studies were done for four different Salmonella species paired with four different common food environmental surfaces; S. Abaetetuba on ceramic tiles, S. Anatum on sealed concrete, S. Newport on plastic surface, and S. Typhimurium in the presence of one log excess C. freundii on stainless steel.
Example 1.12.1
FDA-BAM Method
The FDA-BAM method calls for a multi-step procedure as described. Following the 2 hour holding period after sampling, 3MTM ENVIROSWAB environmental sample collecting swabs were transferred to sterile stomacher bags and enriched with 225 mL of Lactose broth. The samples were allowed to stand for 60±5 minutes at room temperature and then incubated for 24±2 hours at 35±1° C. No pH adjustment was necessary prior to incubation. After incubation, 0.1 mL of primary enrichment for each sample was transferred to 10 mL of Rappaport-Vasilliadis medium (RV) and 1.0 mL to 10 mL of Tetrathionate (TT) broth. The RV broth was incubated at 42±1° C. for 24±2 hours and the TT broth was incubated at 35±1° C. for 24±2 hours. Following incubation, a loopful (10 μL) of each secondary enrichment was streaked to bismuth sulfate (BS), xylose lysine desoxycholate (XLD), and Hektoen enteric (HE) selective agars and incubated at 35±1° C. for 24±2 hours. The BS plates that were negative at 24 hours were then re-incubated for an additional 24 hours at 35±1° C. A suspect colony from each selective agar was picked and stabbed to Triple Sugar Iron (TSI) agar and Lysine Iron Agar (LIA) plates and streaked to a tryptic soy agar (TSA) plate. The TSI, LIA, and TSA plates were incubated at 35±1° C. for 24±2 hours. Growth from each TSA plate was used to conduct the polyvalent somatic 0 serological test, MICROGENTM SALMONELLA LATEX test (Microgen Bioproducts Ltd., Surrey, UK) and biochemical tests for confirmation. Final confirmations were conducted with MICROGENTM GN-ID biochemical panels (Microgen Bioproducts Ltd., Surrey, UK).
Example 1.12.2
SIB-1 Method
Following the 2 hour holding period after sampling, excess DE neutralizing broth from the swab tubes (3MTM ENVIROSWAB) was removed and 15 mL of Salmonella Indicator Broth was added to the swab tube. The samples were then incubated at 37±1° C. for 24-48 hours. After 24 hours, each sample was examined for presumptive positive results (broth color change from blue to yellow). Presumptive positives at 24 hours were streaked to the reference agars for the specified reference method and re-incubated for an additional 24 hours. Positive and negative samples, yellow and purple respectively were streaked onto XLD, HE and BS and followed through to confirmation as described for the FDA-BAM method.
Example 1.12.3
S. Newport on Plastic Surface
Serial logarithmic dilutions of overnight culture of S. Newport in BHI were made into sterile BHI. A one-hundred μL volume of log−7 and log−8 dilutions was plated onto TSA plates for estimating the number of cells loaded onto 4′′×4′′ zones on plastic. Polypropylene plastic cutting boards were bought from a local department store. 4′′×4′′ zones were marked on the surface of the cutting boards. They were wrapped in aluminum foil and autoclaved for 15 min at 120° C. Plastic cutting boards were kept wrapped until the time of inoculation. 1 The inoculation of surfaces were done at 0.5 mL/4′′×4′′ surface from the log−7 (high) and log−8 (low) dilutions, corresponding approximately to 2.18 log CFU and 1.18 log CFU of S. Newport consecutively, twenty replicates for each level per method. Inoculations on surfaces were spread within the corresponding 4′′×4′′ zone with the help of a disposable sterile spreader. After that surfaces were left to dry min 18 hours at room temperature. After the samples were dried on the surfaces for a minimum of 18 hours, they were removed by swabbing using 3MTM ENVIROSWAB environmental sample collecting swabs saturated with ten mL of DE broth. Both test method (SIB-1) and reference method (FDA-BAM) was done in twenty replicates per level (high and low) of inoculations. In order to confirm the presence of Salmonella in all test samples, all samples were streaked onto HE, XLD and BS agar after at the end of 48th hour at 37±1° C. Dark green colonies grown on HE were selected and processed as described for GN-ID analysis and polyvalent somatic O serological tests. Five un-inoculated samples were assayed. The summary of the data for S. Newport on plastic is given in Table 2.
As seen from Table 2, SIB-1 was comparable to the reference method. The reference method gave two more positives at the low level than the test method. Although the Chi Square values indicated that the test method and the reference method were not significantly different at the low level.
Example 1.12.4
S. Anatum on Sealed Concrete
S. Anatum stock culture grown overnight in BHI. Serial logarithmic dilutions of S. Anatum were made into sterile BHI. A one-hundred μL volume of log−7 and log−8 dilutions were plated onto TSA plates for estimating the number of cells loaded onto 4′′×4′′ zones on sealed concrete blocks. Concrete blocks (15.5′′×7.5′′×3.5′′; length×width×depth) were purchased from a local HOME DEPOT® supply store. Blocks were sealed with a solvent-based concrete sealer (BW Crete Seal 25 LV, St. Paul, Minn.). After a minimum of two coats of sealant was placed on the blocks, they were dried in a chemical hood until all the solvent had evaporated (minimum of 24 hours). Zones of 4′′×4′′ were marked on the sealed side using a permanent marker. Before inoculations, sealed concrete blocks were sprayed with ethanol and allowed to air dry. The ethanol was air dried for at least minutes but no more than an hour. The inoculation of sealed concrete surfaces were done at 0.5 mL/surface from the log−7 S. Anatum (high) and log−8 S. Anatum (low) dilutions, corresponding approximately to 2.22 log CFU and 1.25 log CFU respectively, twenty replicates for each level, per method. Inoculations on surfaces were spread within the corresponding 4′′×4′′ zone. Surfaces were left to dry for at least 18 hours at room temperature.
After the samples were dried on the surfaces for a minimum of 18 hours, they were removed by swabbing using 3MTM ENVIROSWAB environmental sample collecting swabs. Both test methods SIB-1 method and reference method (FDA-BAM) were done in twenty replicates per level (high and low) of inoculations. Five un-inoculated samples were assayed.
Table 2 shows the reference method identified a single sample more than the test method at the low level. Accordingly chi square values suggested that there was no significant difference between the test method and the reference method at both of the levels tested.
Example 1.12.5
S. Abaetetuba on Ceramic Tile
Serial logarithmic dilutions of overnight culture of S. Abaetetuba in BHI were made into sterile BHI. Aliquots containing 100 μL of log−8 and log−9 dilutions were plated onto TSA plates for estimating the number of cells loaded onto 4′′×4′′ ceramic tiles. Ceramic tiles at 4×4 inches in dimensions were bought from a local HOME DEPOT® supply store. They were wrapped in aluminum foil and autoclaved for 15 min at 121° C. All tiles were kept wrapped at room temperature until the time of inoculation.
The inoculation of surfaces was done at 0.50 mL/4′′×4′′ surface from the log−8 (high) and log−9 (low) dilutions, corresponding approximately to 1.67 log CFU and 0.60 log CFU respectively, twenty replicates for each level, per method. Inoculations on surfaces were spread within the corresponding 4′′×4′′ zone with the help of sterile spreaders. Surfaces were left to dry for at least 18 hours at room temperature. After the samples were dried on the surfaces for a minimum of 18 hours, they were removed by swabbing using the 3MTM ENVIROSWAB swabs. Both the test method (SIB-1) and the reference method (FDA-BAM) were done in twenty replicates per level (high and low) of inoculations. Five un-inoculated samples were assayed.
In order to confirm the presence-absence of Salmonella in all test samples, all tubes of SIB-1 were streaked onto HE, XLD and BS plates at the end of 48th hour of incubation. Dark green colonies with grown on HE were processed as described for immunoassay and GN-ID analysis for confirmation. Summary of the data for S. Abaetetuba on tile is given in Table 2.
As seen from the Table 2 below, SIB-1 was slightly more sensitive than the reference method. The reference method resulted in fewer positives 7 versus 10, than the test method at the low level. Chi-square value also showed that the two methods were not significantly different from each other at the low level testing.
Example 1.12.6
Independent Laboratory Surface Comparison Study: S. Typhimurium: C. freundii on Stainless Steel
For the analysis of stainless steel surfaces, a total of 45 samples for both the SIB-1 and FDA/BAM were analyzed for method comparison. Within each sample set there were 20 low-level, 20 high-level, and 5 un-inoculated samples. The target levels of S. Typhimurium ATCC #14028 used for challenging the stainless steel surfaces were as follows: 1-50 CFU/4′′×4′′ (100 cm2) surface area for the low-level samples, 50-100 CFU/4′′×4′′ (100 cm2) surface area for the high-level samples, and 0 CFU/4′′×4′′ (100 cm2) surface area for the un-inoculated control samples. Additionally, the surfaces were inoculated with C. freundii ATCC #8090 at 10 times the level of the S. Typhimurium to simulate the performance of the target organism in the presence of a competing microflora. The inocula were prepared in Brain Heart Infusion Broth (BHI) incubated for 24±2 hours at 37±1° C. Following incubation, the broth inocula were serial diluted using BHI until the target inoculum level was reached. The stainless steel surfaces were inoculated with 0.25 mL from both the S. Typhimurium and C. freundii inocula and then allowed to dry at ambient temperature for 16-24 hours.
Results obtained from the stainless steel environmental surfaces assayed by the SIB-1 method were comparable to those analyzed by the FDA/BAM reference method for the detection of Salmonella. See Table 2 A Mantel-Haenszel chi-square analysis for unmatched test portions between the SIB-1 method and the reference method produced a value of 2.05 for the low-level test portions and a value of 0.61 for the high-level test portions.
The values obtained for the matrix indicate that there was no statistically significant difference between the number of confirmed positive results obtained by the two methods being compared at both levels, 5 positives for the SIB-1 method compared to 3 positives for the FDA-BAM procedure.







TABLE 2







Summary of Method Comparison Studies of SIB at 48 Hour Incubation
















SIB-1




















Presumptive
Confirmed
FDA-BAM
Chi
Relative


Matrix
Strain
Na
Pos.
Pos.
Positive
Squareb
Sensitivityc

















Plastic
S. Newport
5
0
0
0
—
—




20
11
11
13
0.406
 84.6%




Low









level









20
20
20
20
0
  100%




High









level







Sealed
S. Anatum
5
0
0
0
—
—


concrete

20
7
7
8
0.104
 87.5%




Low









level









20
20
20
20
0
  100%




High









level







Ceramic
S. Abaetetuba
5
0
0
0
—
—


tile

20
10
10
7
0.898
142.9%




Low









level









20
20
20
20
0
  100%




High









level







Stainless
S.
5
0
0
0
—
—


steeld
Typhimurium:
20
0
0
2
2.05
0



10X C. freundii
Low









level









20
5
5
3
0.609
166.7%




High









level





aN = Number of test portions


bChi Square = Mantel-Haenszel: χ2 = (n − 1)(ad − bc)2/[(a + b)(a + c)(b + d)(c + d)], where n = total number of samples tested by the two methods, a = number of samples positive by the test method, b = number of samples negative by the test method, c = number of samples positive by the reference method and d = number of samples negative by the reference method


cRelative sensitivity = a/c, where a = number of samples confirmed positive by the test method and c = number of samples positive by the reference method


dTrial performed at the independent laboratory






Example 1.12.7
Ruggedness Studies
Ruggedness parameters studied were: incubation times (28 hours, 32 hours and 46 and 50 hours) and incubation temperatures (34 and 40±1° C.). Two positive controls (S. Abaetetuba and S. Anatum) and one negative control (E. coli) were tested in 5 replicates at the 3 log CFU/mL for Salmonella serovars and at 7 log CFU/mL for E. coli. These tests were done on different days as recommended. The summary of the results is given in Tables 3a and 3b.







TABLE 3a







Temperature Variability














24 Hour
24 Hour
24 Hour
48 Hour
48 Hour
48 Hour


Strain
34° C.
37° C.
40° C.
34° C.
37° C.
40° C.
















S.








Abaetetuba








A
+
+
+
+
+
+


B
+
+
+
+
+
+


C
+
+
+
+
+
+


D
+
+
+
+
+
+


E
+
+
+
+
+
+


S. Anatum








A
+
+
−
+
+
+


B
+
+
−
+
+
+


C
+
+
−
+
+
+


D
+
+
−
+
+
+


E
+
+
−
+
+
+


E. coli








A
−
−
−
−
−
−


B
−
−
−
−
−
−


C
−
−
−
−
−
−


D
−
−
−
−
−
−


E
−
−
−
−
−
−
















TABLE 3b







Time Variability












Strain
18 Hour
24 Hour
52 Hour







S. Abaetetuba






A
+
+
+



B
+
+
+



C
+
+
+



D
+
+
+



E
+
+
+



S. Anatum






A
+
+
+



B
+
+
+



C
+
+
+



D
+
+
+



E
+
+
+



E. coli






A
−
−
−



B
−
−
−



C
−
−
−



D
−
−
−



E
−
−
−










Example 1.13
Lot-to-Lot Variability and Shelf Stability
Lot to lot variability studies were done in 5 replicates per level of each microorganism (S. Abaetetuba ATCC 35640, S. Anatum ATCC 9270 and E. coli ATCC 14948) for each of the three production lots tested (Table 4a). One hundred microliters of culture dilutions were inoculated onto the tip of a 3MTM ENVIROSWAB environmental sample collecting swab, which was then fully submerged into 15 mL of SIB-1 in its original sterile container and incubated at 37° C. for 48 hours. The summary of the results is given in Tables 4a and 4b.







TABLE 4a







Lot Variability










Strain
Lot 06007
Lot 06009
Lot 06011





S. Abaetetuba





A
+
+
+


B
+
+
+


C
+
+
+


D
+
+
+


E
+
+
+


S. Anatum





A
+
+
+


B
+
+
+


C
+
+
+


D
+
+
+


E
+
+
+


E. coli





A
−
−
−


B
−
−
−


C
−
−
−


D
−
−
−


E
−
−
−
















TABLE 4b







Shelf Stability











Lot 06007
Lot 06007
Lot 06007


Strain
30 Days
60 days
90 days





S. Abaetetuba





A
+
+
+


B
+
+
+


C
+
+
+


D
+
+
+


E
+
+
+


S. Anatum





A
+
+
+


B
+
+
+


C
+
+
+


D
+
+
+


E
+
+
+


E. coli





A
−
−
−


B
−
−
−


C
−
−
−


D
−
−
−


E
−
−
−









Example 1.14
Analysis of Additional Real Environmental Samples
Environmental samples were obtained from food and non-food contact surfaces in a coffee processing facility. Fifteen milliliters of SIB-1 was added to the samples and incubated at 37° C. for 48 hours and the SIB reaction was recorded. All samples were streaked onto two differential selective agar media: (1) xylose lysine tergitol-4 (XLT) agar medium (see SS in Table 5 below); and (2) bismuth sulfide agar medium (see BS in Table 5 below)). Salmonella-like colonies were picked for biochemical characterization using the MICROGENTM GN-ID test (Microgen Bioproducts Ltd., Surrey, UK). All SIB-negative samples were confirmed to be negative on the differential selective agar media. The presumptive positive samples in the SIB yielded confirmed Salmonella species and two false positive samples, Citrobacter freundii and E. coli inactive. The data are shown in Table 5:







TABLE 5







Growth and Fermentation of Environmental Samples in SIB-1











Sample ID
SIB Rxn
SS Agar
BS Agar
GNID(Microgen)





C1
+
Lactose
+
C. freundii


C2
−
NG
NG



C3
−
NG
NG



C4
−
NG
NG



C5
+
Lactose −, H2S
+
Salmonella spp.


C6
+
Lactose −, H2S
+
S. arizona


C7
+
Lactose −, H2S 
+
S. arizona


C8
−
NG
NG



C9
−
NG
NG



C10
+
Lactose +
+
E. coli inactive


C11
−
NG
NG



C12
−
NG
NG



C13
−
NG
NG



C14
−
NG
NG



C18
−
NG
NG



C19
−
NG
NG



C20
−
NG
NG



C21
−
NG
NG



C23
+
Lactose w
+
C. freundii





NG = No growth.


Lactose − = Lactose non-fermenter.


Lactose + = Lactose fermenter.


Lactose w = Lactose weak fermenter.


H2S = Hydrogen sulfide producer.






Example 1.15
Discussion
SIB-1 is an easy to use and interpret screening test for Salmonella species in environmental samples. Inclusivity and exclusivity studies revealed that SIB-1 is very comprehensive for the detection of Salmonella species at very low levels (10-100 CFU/sample). Two strains, S. Cubana and S. Gallinarum, were originally negative in the inclusivity study. An additional isolate of S. Cubana was obtained from a different source, the University of Pennsylvania Salmonella Reference Center. This particular isolate was positive in fermenting the indicator compound in SIB-1 in contrast to the isolate obtained from the University of Minnesota's culture collection. These data suggest that the Minnesota isolate was likely defective in a metabolic pathway for fermentation of the indicator compound. In regard to specificity, high levels of some Citrobacter species remain to be a possible source of false positive results. False positive results, although not desired by the typical end user, still tells a great deal about the overall microbial cleanliness of the areas sampled. Learning about the presence of Citrobacter species is important for another aspect, since many Citrobacter species occupy similar niches to Salmonella species and arise as contamination sources from the GI tracts of warm blooded animals. This information is potentially useful when monitoring food processing surfaces intended to be free of microflora after sanitation operations. These results demonstrate a cross reaction in two of three Citrobacter species tested underscoring the need to confirm all SIB-1-positive results by the traditional biochemical or genetic methods.
SIB-1 was found to be at least as sensitive as the reference method in all the surfaces studied. In fact SIB-1 was slightly more sensitive than the reference method in one of the method comparison studies: five positives for SIB-1 versus three positives for the FDA-BAM method in the stainless steel study.
Regarding the ruggedness studies, recommended parameters have been studied for SIB-1. Results of the ruggedness studies suggested that for the most part, selected deviations from test parameters did not interfere with the true detection of microorganisms selected with the exception of Salmonella Anatum, which was not detected at 40° C. at 24 hours incubation.
Lot-to-lot variability studies showed that there was no difference between the production lots. Shelf life studies documented in Table 4b revealed that SIB-1 is shelf-stable at 3 months of refrigerated storage.
In conclusion, SIB-1 is a unique, easy to perform rapid detection test for Salmonella species in environmental samples. The test has been demonstrated to be substantially equivalent to the FDA-BAM method for the four selected surfaces as well as both sufficiently Salmonella-inclusive and exclusive with the notable exception of some Citrobacter species. These studies detail the utility of SIB-1 as diagnostic screening test. Since SIB-1 is a self-contained test, it minimizes cross contamination. Furthermore, this study shows that SIB-1 is compatible with the FDA-BAM confirmation methods. This compatibility provides a more economical solution to Salmonella screening without any compromise in sensitivity. It is expected that SIB-1 will enable more on-site Salmonella monitoring in the environmental samples and thereby contribute to the overall goal of raising food safety standards in the processing environment.
Example 2
SIB-1 Supplemented with Doxycycline
To increase the specificity of SIB-1, SIB-1 was supplemented with 0.005 g/L doxycycline. Sponges were inoculated at 10-100 CFU/Sample. The culture response of twenty Salmonella enterica serovars was recorded after 48 hours incubation at 37° C. The results are shown in Table 6.







TABLE 6







Inclusivity of SIB-1 Supplemented with Doxycycline










Salmonella
Salmonella Indicator 



enterica serovar
Broth Reaction







S. Aberdeen
+



S. Aequatoria
+



S. Alabama
+



S. Altendorf
+



S. Austin
+



S. Ball
+



S. Berkeley
+



S. Brookfield
+



S. California
+



S. Canastal
+



S. Carmel
+



S. Carrau
+



S. Champaign
+



S. Chicago
+



S. Colombo
+



S. Ealing
+



S. Dahlem
+



S. Gallinarum
+



S. Houten
+



S. Kottbus
+










These results show that adding doxycycline to SIB-1 does not inhibit Salmonella spp. growth.

Example 3
SIB-1 Supplemented with Rifampicin
To increase the specificity of SIB-1, SIB-1 was supplemented with 0.002 g/L rifampicin. Sponges were inoculated at 10-100 CFU/Sample. The culture response of twenty Salmonella enterica serovars was recorded after 48 hours incubation at 37° C. The results are shown in Table 7:







TABLE 7







Inclusivity of SIB-1 Supplemented with Rifampicin










Salmonella
Salmonella Indicator 



enterica serovar
Broth Reaction







S. Illinois
+



S. Lexington
+



S. Manchester
+



S. Minnesota
+



S. Mississippi
+



S. Napoli
+



S. Pensacola
+



S. Pretoria
+



S. Shanghai
+



S. Sunsvall
+



S. Carmel
+



S. Carrau
+



S. Champaign
+



S. Chicago
+



S. Colombo
+



S. Ealing
+



S. Dahlem
+



S. Gallinarum
−



S. Houten
+



S. Kottbus
+



S. Johannesberg
+



S. Oranienberg
+



S. Thomasville
+



S. Brandenburg
+



S. Manhattan
+



S. Urbana
+



S. Stanley
+



S. Panama
+



S. Cerro
+



S. Hadar
+










These results show that supplementing SIB-1 with rifampicin does not inhibit Salmonella spp. growth.

Example 4
Antibiotic-Supplemented Basal SIB with and without NMP
To demonstrate the increased specificity of EPI-supplemented medium, four non-Salmonella species giving positive reactions in basal SIB or SIB-1 were tested in doxycycline-supplemented (0.005 g/L doxycycline), rifampicin-supplemented (0.002 g/L rifampicin), or linezolid-supplemented (0.005 g/L linezolid) basal SIB with and without 0.2 mM (0.044 g/L) 1-(1-naphthylmethyl)piperazine (NMP). The cultures were grown to stationary phase in BHI medium overnight at 37° C. and serially diluted out 3-log orders to obtain suspensions with approximately 105-106 CFU/mL. One tenth milliliter was pipetted onto a sterile collection sponge (3MTM ENVIROSWAB) and 15 mL of the basal SIB supplemented with either antibiotic alone or antibiotic with NMP was added. The samples were incubated for 48 hours at 37° C. and the color reactions were recorded. The results are shown in Tables 8-10:







TABLE 8







Exclusivity of Doxycyline-Supplemented Basal SIB with and without NMP










Salmonella Indicator
Salmonella Indicator



Broth Reaction
Broth Reaction



Basal Media +
Basal Media +


Species
Doxycycline
Doxycycline/NMP





Enterobacter aerogenes
+
−


Enterobacter cloacae
+
−


Citrobacter freundii
+
+


Citrobacter koseri
+
+
















TABLE 9







Exclusivity of Rifampicin-Supplemented Basal SIB with and without NMP










Salmonella Indicator
Salmonella Indicator



Broth Reaction
Broth Reaction



Basal Media + 
Basal Media +


Species
Rifampicin
Rifampicin/NMP





Enterobacter aerogenes
+
−


Enterobacter cloacae
+
−


Citrobacter freundii
+
−


Citrobacter koseri
+
−
















TABLE 10







Exclusivity of Linezolid-Supplemented Basal SIB with and without NMP










Salmonella Indicator
Salmonella Indicator



Broth Reaction
Broth Reaction



Basal Media + 
Basal Media + 


Species
Linezolid
Linezolid/NMP





Enterobacter aerogenes
+
−


Enterobacter cloacae
+
−


Citrobacter freundii
+
−


Citrobacter koseri
+
−









These results show that the effectiveness of the EPI in enhancing the selectivity of Salmonella spp. selective agents.
Example 5
Demonstration of Salmonella-Selective EPI Activity of 4-Chloroquinoline
To increase the specificity of basal SIB, basal SIB was supplemented with 4-chloroquinoline (4CQ) at a final concentration of 0.2 mM (0.023 g/L) and 0.002 g/L rifampicin. Sponges were inoculated at 10-100 CFU/Sample. The culture response of twenty Salmonella enterica serovars was recorded after 48 hours incubation at 37° C. The data are shown in Table 11:







TABLE 11







Inclusivity of Basal SIB Supplemented with Rifampicin and 4CQ










Salmonella
Salmonella Indicator 



enterica serovar
Broth Reaction







S. Aberdeen
+



S. Aequatoria
+



S. Alabama
+



S. Altendorf
+



S. Austin
+



S. Ball
+



S. Berkeley
+



S. Brookfield
+



S. California
+



S. Canastal
+



S. Carmel
+



S. Carrau
+



S. Champaign 
+



S. Chicago
+



S. Colombo
+



S. Ealing
+



S. Dahlem
+



S. Gallinarum
+



S. Houten
+



S. Kottbus
+










These results show that supplementing basal SIB with rifampicin and 4-chloroquinoline does not inhibit Salmonella spp. growth.

Example 6
Antibiotic-Supplemented Basal SIB with and without 4CQ
To further demonstrate the increased Salmonella-selective specificity of the EPI- and antibiotic-supplemented SIB, four non-Salmonella species giving positive reactions in basal SIB or SIB-1 were tested in the rifampicin-supplemented media (0.002 g/L rifampicin) with and without 4-chloroquinoline (4CQ). The cultures were grown to stationary phase in BHI medium overnight at 37° C. and serially diluted out 3-log orders to obtain suspensions with approximately 105-106 CFU/mL. One tenth milliliter was pipetted onto a sterile collection sponge (3MTM ENVIROSWAB) and 15 mL of the basal SIB supplemented with either antibiotic alone or antibiotic with 4CQ was added. The samples were incubated for 48 hours at 37° C. and the color reactions were recorded. The data are shown in Table 12:







Table 12







Exclusivity of Rifampicin-Supplemented Basal SIB with and without 4CQ










Salmonella Indicator
Salmonella Indicator



Broth Reaction
Broth Reaction



Basal Media + 
Basal Media +


Species
Rifampicin
Rifampicin/4CQ





Enterobacter aerogenes
+
−


Enterobacter cloacae
+
−


Citrobacter freundii
+
−


Citrobacter koseri
+
−









These results show that the effectiveness of 4CQ in enhancing the selectivity of Salmonella spp. selective agents.

Example 7
Discussion
Several media formulations were tested for permitting growth of Salmonella while inhibiting growth of non-Salmonella species. Initial media formulations lacking myricetin, antibiotics, and EPIs did not effectively inhibit the growth of some cross-reacting species, notably, K. ozaenae, E. aerogenes, C. freundii, C. koseri and E. coli inactive. To minimize the potential of such environmental microflora to contribute to false positive reactions in selective indicator media, flavonoid compounds were investigated. Myricetin was tested as a potential suitable inhibitor for at least some of these gram negative species. Myricetin was observed to be effective against K. oxytoca and E. aerogenes but was of little use against the Citrobacter and E. coli inactive isolates. Media supplemented with the halo-quinoline 4-chloroquinoline (4CQ) or the naphthylmethyl piperazine 1-(1-naphthylmethyl)piperazine (NMP) in combination with certain antibiotics were substantially effective in preventing outgrowth of all the E. coli inactive isolates and some of the Citrobacters, particularly C. freundii. 
Particularly effective media formulations included the components contained in the basal selective indicator broth discussed below (including myricetin), an EPI (i.e., either halo-quinolines such as 4-chloroquinoline or naphthylmethyl piperazines such as 1-(1-naphthylmethyl)piperazine), and tetracycline, doxycycline, rifampicin, or linezolid. Such media were capable of controlling most of the gram negative competitors found in the environment, excluding some C. koseri strains. Compositions including rifampicin in place of tetracycline or doxycycline were highly inhibitory to all the Citrobacter species in the culture collection.
The data collectively demonstrate the enhancement of antimicrobial activity of selective agents in the presence of the EPIs. As shown herein, these agents effectively inhibit the growth of gram-negative competitors of Salmonella while not inhibiting the growth and metabolism of Salmonella.

## Claims

1. A selective enrichment medium comprising:
a carbon and nitrogen source;
an inorganic salt;
a fermentable sugar;
a selective agent comprising one or more of a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin, a rifamycin, a polyketide, and an oxazolidinone; and
an efflux pump inhibitor comprising one or more of an arylpiperazine and a quinoline derivative.

2. The selective enrichment medium of claim 1 wherein the selective agent comprises a sulfa drug, wherein the sulfa drug comprises one or more of sulfanilamide and sulfathiazole.

3. The selective enrichment medium of claim 2 wherein the sulfa drug comprises the sulfanilamide and the sulfathiazole in a ratio of about 9:1.

4. The selective enrichment medium of claim 1 wherein the fermentable sugar comprises 2-deoxy-D-Ribose, and wherein the selective agent comprises: a surfactant, wherein the surfactant comprises 7-ethyl-2-methyl-4-undecyl sulfate or a salt thereof; an aminocoumarin, wherein the aminocoumarin comprises novobiocin; and a supravital stain, wherein the supravital stain comprises brilliant green.

5. The selective enrichment medium of claim 1 wherein the selective agent comprises a polyketide, wherein the polyketide comprises one or more of tetracycline and doxycycline.

6. The selective enrichment medium of claim 1 wherein the selective agent comprises one or more of a rifamycin, a polyketide, and an oxazolidinone, and wherein the efflux pump inhibitor comprises one or more of an arylpiperazine and a quinoline derivative.

7. The selective enrichment medium of claim 1 wherein the selective agent comprises one or more of rifampicin, tetracycline, doxycycline, and linezolid, and wherein the efflux pump inhibitor comprises one or more of 1-(1-naphthylmethyl)piperazine and 4-chloroquinoline.

8. The selective enrichment medium of claim 1 wherein the selective agent comprises a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, and myricetin, and wherein the efflux pump inhibitor comprises one or more of an arylpiperazine and a quinoline derivative.

9. The selective enrichment medium of claim 1 wherein the selective agent comprises a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, myricetin and one or more of a rifamycin, a polyketide, and an oxazolidinone, and wherein the efflux pump inhibitor comprises one or more of an arylpiperazine and a quinoline derivative.

10. The selective enrichment medium of claim 1 further comprising a pH indicator sensitive to acidification.

11. The selective enrichment medium of claim 1 wherein the selective agent and the efflux pump inhibitor are present in amounts effective to inhibit growth of at least one non-Salmonella species to a greater extent than Salmonella species.

12. A method of selectively enriching for Salmonella species comprising culturing a sample suspected of containing Salmonella species in the selective enrichment medium of claim 1.

13. The method of claim 12 wherein the culturing grows and ferments a Salmonella species.

14. The method of claim 13 wherein the culturing inhibits growth of a microorganism selected from the group consisting of Citrobacter freundii and Citrobacter koseri.

15. The selective enrichment medium of claim 1 wherein the selective agent comprises one or more of a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, bromobenzoic acid, and myricetin and one or more of a rifamycin, a polyketide, and an oxazolidinone.

16. A selective enrichment medium comprising:
a carbon and nitrogen source;
an inorganic salt;
a fermentable sugar;
bromobenzoic acid;
one or more of a rifamycin, a polyketide, and an oxazolidinone; and
an efflux pump inhibitor comprising one or more of an arylpiperazine and a quinoline derivative.

17. The selective enrichment medium of claim 16 further comprising a sulfa drug, a surfactant, an aminocoumarin, cycloheximide, a supravital stain, ascorbic acid, and myricetin.