bluuebunny/crossref_metadata_2025_split huggingface dataset:
Immunogenicity, Safety, and Antibody Persistence at 3, 5, and 10 Years Postvaccination in Adolescents Randomized to Booster Immunization with a Combined Tetanus, Diphtheria, 5-Component Acellular Pertussis, and Inactivated Poliomyelitis Vaccine Administered with a Hepatitis B Virus Vaccine Concurrently or 1 Month Apart
Authors: Embree Joanne , Law Barbara , Voloshen Tim , Tomovici Antigona 
Published: December 2014

ABSTRACT

An understanding of the antibody persistence elicited by a combined tetanus, diphtheria, 5-component acellular pertussis, and inactivated poliovirus vaccine (Tdap-IPV) after adolescent vaccination is important to optimize booster dosing intervals. Our objectives were to compare the safety and immunogenicity of Tdap-IPV coadministered with hepatitis B vaccine (HepB) and sequential administration and evaluate humoral immunity at 3, 5, and 10 years after Tdap-IPV vaccination in adolescents. This phase II randomized, controlled, and open-label study enrolled 280 11- to 14-year-old adolescents with up to 10 years postvaccination follow-up. Group 1 (
n
= 145) received Tdap-IPV, followed by a HepB dose 1 month later, and group 2 (
n
= 135) received both vaccines simultaneously. No consistent increases in solicited reactions or unsolicited adverse events occurred with coadministration. All vaccinees attained seroprotective antibody levels at ≥0.01 IU/ml for diphtheria and tetanus, at a ≥1:8 dilution for poliovirus (serotypes 1, 2, and 3), and ≥10 mIU/ml for hepatitis B at 1 month postvaccination. Clinically relevant immunologic interactions did not occur with coadministration. For pertussis, all participants achieved seropositivity levels (at or above the lower limit of quantitation), and 72.7% to 95.8% had 4-fold increases in pertussis antibodies at 1 month postvaccination. At 10 years postvaccination, the remaining participants (62.8% of the original cohort) maintained seroprotective levels of ≥0.01 IU/ml for diphtheria and tetanus, a ≥1:8 dilution for all 3 poliovirus serotypes, and 74.1% to 98.2% maintained pertussis seropositivity levels depending on the antigen tested. There were no differences between the groups. These results support the coadministration of Tdap-IPV and HepB to adolescents and suggest that vaccination with Tdap-IPV can offer protection for 10 years after an adolescent booster vaccination.
Chikungunya Virus RNA and Antibody Testing at a National Reference Laboratory since the Emergence of Chikungunya Virus in the Americas
Authors: Prince Harry E. , Seaton Brent L. , Matud Jose L. , Batterman Hollis J. 
Published: December 2014

ABSTRACTSince first reported in the Americas in December 2013, chikungunya virus (CHIKV) infections have been documented in travelers returning from the Caribbean, with many cases identified by CHIKV antibody and/or RNA testing at our laboratory. We used our large data set to characterize the relationship between antibody titers and RNA detection and to estimate IgM persistence. CHIKV RNA was measured by nucleic acid amplification and CHIKV IgG/IgM by indirect immunofluorescence. Of the 1,306 samples submitted for RNA testing in January through September 2014, 393 (30%) were positive; for 166 RNA-positive samples, CHIKV antibody testing was also ordered, and 84% were antibody negative. Of the 6,971 sera submitted for antibody testing in January through September 2014, 1,811 (26%) were IgM positive; 1,461 IgM positives (81%) were also IgG positive. The relationship between the CHIKV antibody titers and RNA detection was evaluated using 376 IgM-positive samples (138 with RNA testing ordered and 238 deidentified and tested for RNA). RNA detection showed no significant association with the IgM titer but was inversely related to the IgG titer; 63% of the IgG negative sera were RNA positive, compared to 36% of sera with low IgG titers (1:10 to 1:80) and 16% with IgG titers of ≥1:160. Using second-sample results from 62 seroconverters, we estimated that CHIKV IgM persists for 110 days (95% confidence interval, 78 to 150 days) after the initial antibody-negative sample. These findings indicate that (i) RNA detection is more sensitive than antibody detection early in CHIKV infection, (ii) in the absence of RNA results, the IgG titer of the IgM-positive samples may be a useful surrogate for viremia, and (iii) CHIKV IgM persists for approximately 4 months after symptom onset.
Complete Genome Sequence of Porcine Circovirus Type 2 Strain HB-MC1
Authors: Yuan Wanzhe , Li Jiefeng , Zuo Yi , Sun Jiguo , Xie Chunfu , Wei Xiaoyuan , Zhang Qiuliang , Yan Guohua , Yang Yuzeng , Li Qingsuo 
Published: December 2014

ABSTRACT
Porcine circovirus type 2 (PCV2) is the primary causative agent of porcine circovirus-associated disease (PCVAD). Here, we report the complete genome sequence of PCV2 strain HB-MC1, which belongs to PCV2d.
Whole-Genome Sequencing Identifies an Atypical Listeria monocytogenes Strain Isolated from Pet Foods
Authors: Burall Laurel S. , Grim Christopher , Gopinath Gopal , Laksanalamai Pongpan , Datta Atin R. 
Published: December 2014

ABSTRACT

Four
Listeria
isolates, including an atypical strain, were isolated from various pet foods and sequenced. We report here the draft genome sequences of these isolates and a comparative genomic analysis with a closely related human clinical isolate. An analysis of the atypical strain identified a frameshift mutation in the
prfA
gene.
Draft Genome Sequence of Pseudomonas mediterranea Strain CFBP 5447
T
, a Producer of Filmable Medium-Chain-Length Polyhydroxyalkanoates
Authors: Licciardello G. , Bella P. , Devescovi G. , Strano C. P. , Sarris P. F. , Catara A. F. , Venturi V. , Catara V. 
Published: December 2014

ABSTRACT

Pseudomonas mediterranea
strain CFBP 5447
T
is a phytopathogenic bacterium isolated from tomato plants affected by pith necrosis disease. Moreover, its ability to produce medium-chain-length polyhydroxyalkanoates (mcl-PHAs) in culture from different carbon sources and valuable microbial products, such as cyclic lipopeptides, has been well documented. Here, we report the first draft genome sequence of this species.
Genome Sequence of a Pandrug-Resistant Pseudomonas aeruginosa Strain, YN-1
Authors: Tan Hong-Li , Wang Yong , Cheng Xue-Qin , Huang Yan-Mei , Liu Wei , Zhang Li-Juan 
Published: December 2014

ABSTRACT

A highly rampant multidrug-resistant strain of
Pseudomonas aeruginosa
appeared in a hospital in Yunnan Province, China. Here, we report the genome sequence of the pandrug-resistant (PDR)
P. aeruginosa
strain recovered from a patient in 2013.
Complete Genome Sequences of Bordetella pertussis Isolates B1917 and B1920, Representing Two Predominant Global Lineages
Authors: Bart Marieke J. , Zeddeman Anne , van der Heide Han G. J. , Heuvelman Kees , van Gent Marjolein , Mooi Frits R. 
Published: December 2014

ABSTRACT

Bordetella pertussis
is the causative agent of pertussis, a disease which has resurged despite vaccination. We report the complete, annotated genomes of isolates B1917 and B1920, representing two lineages predominating globally in the last 50 years. The B1917 lineage has been associated with the resurgence of pertussis in the 1990s.
Complete Genome Sequencing of Borrelia valaisiana and Borrelia afzelii Isolated from
Ixodes persulcatus
Ticks in Western Siberia
Authors: Kurilshikov Alexander M. , Fomenko Nataliya V. , Stronin Oleg V. , Tikunov Artem Y. , Kabilov Marsel R. , Tupikin Alexei E. , Tikunova Nina V. 
Published: December 2014

ABSTRACT

Lyme disease, caused by bacteria of the
Borrelia burgdorferi
sensu lato
complex, is the most frequent tick-borne infection in Eurasia. Here, we report the complete genome sequence of the
Borrelia valaisiana
Tom 4006 and
Borrelia afzelii
Tom 3107 strains isolated from
Ixodes persulcatus
ticks in western Siberia.
Draft Genome Sequence of Lactobacillus casei Lbs2
Authors: Bhowmick Swati , Malar Mathu , Das Abhishek , Kumar Thakur Bhupesh , Saha Piu , Das Santasabuj , Rashmi H. M. , Batish Virender K. , Grover Sunita , Tripathy Sucheta 
Published: December 2014

ABSTRACT

We report here a 3.2-Mb draft assembled genome of
Lactobacillus casei
Lbs2. The bacterium shows probiotic and immunomodulatory activities. The genome assembly and annotation will help to identify molecules and pathways responsible for interaction between the host immune system and the microbe.
Complete Genome Sequence for
Treponema
sp. OMZ 838 (ATCC 700772, DSM 16789), Isolated from a Necrotizing Ulcerative Gingivitis Lesion
Authors: Chan Yuki , Ma Angel P. Y. , Lacap-Bugler Donnabella C. , Huo Yong-Biao , Keung Leung W. , Leung Frederick C. , Watt Rory M. 
Published: December 2014

ABSTRACT

The oral treponeme bacterium
Treponema
sp. OMZ 838 was originally isolated from a human necrotizing ulcerative gingivitis (NUG) lesion. Its taxonomic status remains uncertain. The complete genome sequence length was determined to be 2,708,067 bp, with a G+C content of 44.58%, and 2,236 predicted coding DNA sequences (CDS).
Genome Sequences of Three Highly Copper-Resistant Salmonella enterica subsp. I Serovar Typhimurium Strains Isolated from Pigs in Denmark
Authors: Qin Yanan , Hasman Henrik , Aarestrup Frank M. , Alwathnani Hend A. , Rensing Christopher 
Published: December 2014

ABSTRACT

Salmonella typhimurium
is the causative agent of typhoid fever, which causes nearly 21.7 million illnesses and 217,000 deaths around the world each year. Here, we describe the draft genome sequences of the
Salmonella typhimurium
strains S7, S15, and S23, isolated from copper-fed pigs in Denmark and containing additional putative determinants conferring resistances to copper and other metals and metalloids.
Draft Genome Sequence of Elizabethkingia meningoseptica, Isolated from a Postoperative Endophthalmitis Patient
Authors: Pradeep Bulagonda Eswarappa , Mahalingam Niranjana , Manivannan Bhavani , Padmanabhan Krishnanand , Nilawe Pravin , Gurung Girija , Chhabra Amit , Nagaraja Valakunja 
Published: December 2014

ABSTRACT

We present the draft genome assembly of an
Elizabethkingia meningoseptica
strain isolated from a 67-year-old postoperative endophthalmitis patient who suffered loss of vision in the right eye. The draft genome assembly has 167 contigs with a total size of 4,019,665 bp encoding multiple drug-resistant genes.
Complete Genome Sequence of Klebsiella pneumoniae Sequence Type 17, a Multidrug-Resistant Strain Isolated during Tigecycline Treatment
Authors: Hua Xiaoting , Chen Qiong , Li Xi , Feng Ye , Ruan Zhi , Yu Yunsong 
Published: December 2014

ABSTRACT

Klbesiella pneumoniae
is one of the most important human pathogens and frequently causes many diseases. To facilitate the comparative genome analysis in tigecycline resistance mechanism, we report the complete chromosomal sequence of a multidrug-resistance
K. pneumoniae
strain before tigecycline treatment for reference genome.
Complete Genome Sequence of Streptococcus agalactiae CNCTC 10/84, a Hypervirulent Sequence Type 26 Strain
Authors: Hooven Thomas A. , Randis Tara M. , Daugherty Sean C. , Narechania Apurva , Planet Paul J. , Tettelin Hervé , Ratner Adam J. 
Published: December 2014

ABSTRACT

Streptococcus agalactiae
(group B
Streptococcus
[GBS]) is a human pathogen with a propensity to cause neonatal infections. We report the complete genome sequence of GBS strain CNCTC 10/84, a hypervirulent clinical isolate frequently used to study GBS pathogenesis. Comparative analysis of this sequence may shed light on novel pathogenic mechanisms.
Genome Sequences of Two Copper-Resistant Escherichia coli Strains Isolated from Copper-Fed Pigs
Authors: Lüthje Freja L. , Hasman Henrik , Aarestrup Frank M. , Alwathnani Hend A. , Rensing Christopher 
Published: December 2014

ABSTRACT

The draft genome sequences of two copper-resistant
Escherichia coli
strains were determined. These had been isolated from copper-fed pigs and contained additional putative operons conferring copper and other metal and metalloid resistances.
Draft Genome Sequence of Rice Isolate Pseudomonas chlororaphis EA105
Authors: McCully Lucy M. , Bitzer Adam S. , Spence Carla A. , Bais Harsh P. , Silby Mark W. 
Published: December 2014

ABSTRACT

Pseudomonas chlororaphis
EA105, a strain isolated from rice rhizosphere, has shown antagonistic activities against a rice fungal pathogen, and could be important in defense against rice blast. We report the draft genome sequence of EA105, which is an estimated size of 6.6 Mb.
Draft Genome Sequence of Violacein-Producing Marine Bacterium
Pseudoalteromonas
sp. 520P1
Authors: Dang Hoang Tran , Yotsumoto Kentarou , Enomoto Keiichi 
Published: December 2014

ABSTRACT

Here, we report a draft 5.25-Mb genome sequence of
Pseudoalteromonas
sp. 520P1, a marine violacein-producing bacterium isolated from the Pacific coast of Japan. Genome annotation by BLAST searches revealed the presence of one acylhomoserine lactone (AHL) synthase (
luxI
) and five AHL receptor protein (
luxR
) gene homologs.
Influenza pH1N1 Virus Accumulated H275Y Mutation in Neuraminidase during Propagation in MDCK Cells
Authors: Mishel Polina , Bychkov Dmitrii , Kallio-Kokko Hannimari , Valkonen Miia , Kantele Anu , Mattila Pirkko , Almusa Henrikki , Jalovaara Petri , Kainov Denis 
Published: December 2014

ABSTRACT
Here, we sequenced the genome of the influenza A/Finland/741 M/2014(H1N1) virus and found that the virus accumulated oseltamivir resistance mutation H275Y in its neuraminidase during propagation in cell culture. This indicates that propagation in cell culture modifies virus genomes. The instability of influenza genomes should be taken into consideration during drug-sensitivity studies.
Whole-Genome Sequence of “
Candidatus
Liberibacter solanacearum” Strain R1 from California
Authors: Zheng Z. , Clark N. , Keremane M. , Lee R. , Wallis C. , Deng X. , Chen J. 
Published: December 2014

ABSTRACT

The draft whole-genome sequence of “
Candidatus
Liberibacter solanacearum” strain R1, isolated from and maintained in tomato plants in California, is reported. The R1 strain has the genome size of 1,204,257 bp, G+C content of 35.3%, 1,101 predicted open reading frames, and 57 RNA genes.
Genome Sequence of Afipia felis Strain 76713, Isolated in Hospital Water Using an Amoeba Co-Culture Procedure
Authors: Benamar Samia , La Scola Bernard , Croce Olivier 
Published: December 2014

ABSTRACT

Afipia felis
is a Gram-negative alphaproteobacterium originally described as the agent of cat-scratch disease (CSD). We sequenced the genome from a strain of
A. felis
, which was recovered from a hospital water sample using an amoebal co-culture procedure. It is composed of 3,989,646 bp, with a G+C content of 61.27% and encodes 4,068 protein-coding genes and 53 RNA genes.
A Valuable Antigen Detection Method for Diagnosis of Acute Hepatitis E
Authors: Wen Gui-Ping , Tang Zi-Min , Yang Fan , Zhang Ke , Ji Wen-Fang , Cai Wei , Huang Shou-Jie , Wu Ting , Zhang Jun , Zheng Zi-Zheng , Xia Ning-Shao 
Published: December 2014

ABSTRACT

Hepatitis E virus (HEV) is a serious public health problem. The commonly used tests that are specific for current HEV infection diagnosis include the detection of anti-HEV IgM and HEV RNA. Here, we report an improved enzyme-linked immunosorbent assay (ELISA) method for HEV antigen detection with a linear range equivalent to 6.3 × 10
3
to 9.2 × 10
5
RNA copies per ml. The monoclonal antibody (MAb) 12F12, a high-ability MAb that binds HEV virus, was selected as the capture antibody from a panel of 95 MAbs. The positive period of HEV antigenemia in infected monkeys using this test was, on average, 3 weeks longer than previously reported and covered the majority of the acute phase. The positive detection rates of IgM, RNA, and new antigen from the first serum samples collected from 16 confirmed acute hepatitis E patients were 81% (13/16), 81% (13/16), and 100% (16/16), respectively. In three patients, the initial serum specimens that tested negative for IgM, despite the presence of symptoms of acute hepatitis and elevated alanine aminotransferase (ALT) levels, were positive for HEV antigen and HEV RNA. In contrast, the serum samples of the three RNA-negative patients were antigen positive (and IgM positive), possibly due to the degradation of HEV nucleic acids. Our results suggest that this new antigen detection method has acceptable concordance with RNA detection and could serve as an important tool for diagnosing acute hepatitis E.
Global Multilocus Sequence Typing Analysis of Mycoplasma bovis Isolates Reveals Two Main Population Clusters
Authors: Rosales R. S. , Churchward C. P. , Schnee C. , Sachse K. , Lysnyansky I. , Catania S. , Iob L. , Ayling R. D. , Nicholas R. A. J. 
Published: December 2014

ABSTRACT

Mycoplasma bovis
is a major bovine pathogen associated with bovine respiratory disease complex and is responsible for substantial economic losses worldwide.
M. bovis
is also associated with other clinical presentations in cattle, including mastitis, otitis, arthritis, and reproductive disorders. To gain a better understanding of the genetic diversity of this pathogen, a multilocus sequence typing (MLST) scheme was developed and applied to the characterization of 137
M. bovis
isolates from diverse geographical origins, obtained from healthy or clinically infected cattle. After
in silico
analysis, a final set of 7 housekeeping genes was selected (
dnaA
,
metS
,
recA
,
tufA
,
atpA
,
rpoD
, and
tkt
). MLST analysis demonstrated the presence of 35 different sequence types (STs) distributed in two main clonal complexes (CCs), defined at the double-locus variant level, namely, CC1, which included most of the British and German isolates, and CC2, which was a more heterogeneous and geographically distant group of isolates, including European, Asian, and Australian samples. Index of association analysis confirmed the clonal nature of the investigated
M. bovis
population, based on MLST data. This scheme has demonstrated high discriminatory power, with the analysis showing the presence of genetically distant and divergent clusters of isolates predominantly associated with geographical origins.
Pyogranulomatous Pneumonia in Goats Caused by an Undescribed Porphyromonas Species, “Porphyromonas katsikii”
Authors: Filioussis George , Petridou Evanthia , Karavanis Emmanouel , Frey Joachim 
Published: December 2014

ABSTRACT

A yet-undescribed bacterial species, tentatively named “
Porphyromonas
katsikii
,” was isolated from individuals of a small goat herd with pyogranulomatous pneumonia during an outbreak of acute respiratory disease. The isolated bacteria grew in the form of black-pigmented colonies after 14 days of incubation under anaerobic conditions at 37°C on a tryptic soy blood agar medium. The bacteria were identified as a yet-undescribed
Porphyromonas
species by determination of the nucleotide sequence of the
rrs
16S rRNA gene, and this species was tentatively named
Porphyromonas
katsikii
. PCR amplification with specific primers for this yet-undescribed species revealed the presence of
P. katsikii
in the lung tissue of all affected animals, while no PCR signals were evidenced from the lungs of healthy goats or from goats with pasteurellosis caused by
Mannheimia haemolytica
. These data indicate
P. katsikii
as the causative agent of acute respiratory distress.
P. katsikii
is phylogenetically related to
Porphyromonas
somerae
and
Porphyromonas levii
, which cause pathologies in humans and animals, respectively.
P. katsikii
was not detected by PCR from samples of the gingival pockets or of the faces of healthy goats.
Performance of Vitek 2 for Antimicrobial Susceptibility Testing of Enterobacteriaceae with Vitek 2 (2009 FDA) and 2014 CLSI Breakpoints
Authors: Bobenchik April M. , Deak Eszter , Hindler Janet A. , Charlton Carmen L. , Humphries Romney M. 
Published: December 2014

ABSTRACT

Vitek 2 (bioMérieux Inc., Durham, NC) is a widely used commercial antimicrobial susceptibility test system. We compared the MIC results obtained using the Vitek 2 AST-GN69 and AST-XN06 cards to those obtained by CLSI broth microdilution (BMD) for 255 isolates of
Enterobacteriaceae
, including 25 isolates of carbapenem-resistant
Enterobacteriaceae
. In total, 25 antimicrobial agents were examined. For 10 agents, the MIC data were evaluated using two sets of breakpoints: (i) the Vitek 2 breakpoints, which utilized the 2009 FDA breakpoints at the time of the study and are equivalent to the 2009 CLSI M100-S19 breakpoints, and (ii) the 2014 CLSI M100-S24 breakpoints. There was an overall 98.7% essential agreement (EA). The categorical agreement was 95.5% (CA) using the Vitek 2 breakpoints and 95.7% using the CLSI breakpoints. There was 1 very major error (VME) (0.05%) observed using the Vitek 2 breakpoints (cefazolin) and 8 VMEs (0.5%) using the CLSI breakpoints (2 each for aztreonam, cefepime, and ceftriaxone, and 1 for cefazolin and ceftazidime). Fifteen major errors (MEs) (0.4%) were noted using the Vitek 2 breakpoints and 8 (0.5%) using the CLSI breakpoints. Overall, the Vitek 2 performance was comparable to that of BMD for testing a limited number of
Enterobacteriaceae
commonly isolated by clinical laboratories. Ongoing studies are warranted to assess performance in isolates with emerging resistance.
Septic Arthritis and Osteomyelitis Due to Bordetella petrii
Authors: Nogi Masayuki , Bankowski Matthew J. , Pien Francis D. 
Published: December 2014

ABSTRACT

A case of
Bordetella petrii
septic arthritis and osteomyelitis in an elbow resulted from a dirt bike accident in Hawaii. Two months of intravenous antibiotics and repeated surgeries were required to cure this infection. Our case, and literature review, suggests that extended-spectrum penicillins, tetracycline, and trimethoprim-sulfamethoxazole are good treatment options.
Bartonella, a Common Cause of Endocarditis: a Report on 106 Cases and Review
Authors: Edouard Sophie , Nabet Cecile , Lepidi Hubert , Fournier Pierre-Edouard , Raoult Didier 
Published: December 2014

ABSTRACT

Bartonella
spp. are fastidious bacteria that cause blood culture-negative endocarditis and have been increasingly reported. In this study, we included all patients retrospectively and prospectively diagnosed with
Bartonella
endocarditis in our French reference center between 2005 and 2013. Our diagnosis was based on the modified Duke criteria and microbiological findings, including serological and PCR results. To review the published literature, we searched all human
Bartonella
endocarditis cases published in the PubMed database between January 2005 and October 2013. We report here a large series of 106 cases, which include 59 cases that had not previously been reported or mentioned. Indirect immunofluorescence assays, Western blotting, and real-time PCR from total blood, serum, and valve tissue exhibited sensitivities of 58%, 100%, 33%, 36%, and 91%, respectively. The number of cases reported in the literature between 2005 and 2013 increased to reach a cumulative number of 196 cases. The number of cases reported in the literature by other centers is increasing more rapidly than that reported by our French reference center (
P
< 10
−2
). Currently, there is a lack of criteria for the diagnosis of
Bartonella
endocarditis. We suggest that a positive PCR result from a cardiac valve or blood specimen, an IgG titer of ≥800 using an immunofluorescence assay, or a positive Western blot assay be considered major Duke criteria for
Bartonella
endocarditis. There is no real increase in the incidence of these infections but rather a better understanding and interest in the disease resulting from the improvement of diagnostic tools.