Complete Genome Sequence of Yersinia enterocolitica subsp. palearctica Serogroup O:3

Batzilla, Julia; Höper, Dirk W.; Antonenka, Uladzimir; Heesemann, Jürgen; Rakin, Alexander

doi:10.1128/jb.01484-10

Cited by 27 publications

(17 citation statements)

References 4 publications

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“…However, none of the biovar 1A strains harbored the fcuA gene responsible for the membrane receptor (26). Absence of fcuA gene has also been reported in other biovars of Y. enterocolitica that, at times, harbored only the fhuC gene (27,28). However, the presence of all three genes of the fhuCDB cluster in biovar 1A strains was observed for the first time in this study.…”

Section: Discussionsupporting

confidence: 37%

Analysis of iron acquisition and storage‐related genes in clinical and non‐clinical strains of Yersinia enterocolitica biovar 1A

Kanaujia

Bajaj

Virdi

2015

APMIS

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Possession of mechanisms for iron acquisition and its storage enhances the ability of the bacteria to survive in the iron-limiting environment of the host. In this study, 81 strains of Yersinia enterocolitica biovar 1A isolated from various clinical (n = 51) and non-clinical (n = 30) sources were investigated for the presence of the genes related to iron acquisition and storage. Important genes which were present in more than 85% of the strains included hasA, foxA, bfr, bfd, ftnA, and hmsT as well as the fhuCDB, fepBDGCfesfepA, feoAB, yfuABCD, hemPRSTUV, and hmsHFRS gene clusters. Majority of these genes is being reported for the first time in biovar 1A strains and showed significant homology with genes present in the known pathogenic biovars of Y. enterocolitica. However, no significant difference was observed in the distribution of iron acquisition and storage-related genes among clinical and non-clinical biovar 1A strains. Thus, it may be suggested that the presence of iron acquisition and storage-related genes per se might not be responsible for the supposedly better ability of clinical biovar 1A strains to cause infections in humans. However, in the backdrop of this data, the need to undertake functional studies are highly recommended.

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Section: Discussionsupporting

confidence: 37%

Analysis of iron acquisition and storage‐related genes in clinical and non‐clinical strains of Yersinia enterocolitica biovar 1A

Kanaujia

Bajaj

Virdi

2015

APMIS

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“…palearctica Y11 [14] genome against the 4.6 Mb long reference Yersinia enterocolitica subsp. enterocolitica 8081 [15] genome, the 547 draft contigs from the Lactococcus lactis subsp.…”

Section: Resultsmentioning

confidence: 99%

CONTIGuator: a bacterial genomes finishing tool for structural insights on draft genomes

Galardini

Biondi

Bazzicalupo

et al. 2011

Source Code Biol Med

249

202

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Recent developments in sequencing technologies have given the opportunity to sequence many bacterial genomes with limited cost and labor, compared to previous techniques. However, a limiting step of genome sequencing is the finishing process, needed to infer the relative position of each contig and close sequencing gaps. An additional degree of complexity is given by bacterial species harboring more than one replicon, which are not contemplated by the currently available programs. The availability of a large number of bacterial genomes allows geneticists to use complete genomes (possibly from the same species) as templates for contigs mapping.Here we present CONTIGuator, a software tool for contigs mapping over a reference genome which allows the visualization of a map of contigs, underlining loss and/or gain of genetic elements and permitting to finish multipartite genomes. The functionality of CONTIGuator was tested using four genomes, demonstrating its improved performances compared to currently available programs.Our approach appears efficient, with a clear visualization, allowing the user to perform comparative structural genomics analysis on draft genomes. CONTIGuator is a Python script for Linux environments and can be used on normal desktop machines and can be downloaded from http://contiguator.sourceforge.net.

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“…Most of the gaps between the contigs were manually closed by Sanger sequencing of PCR products, yielding a final set of 12 contigs with a size ranging from 34,829 bp to 1,531,738 bp (N50 = 870,086 bp). The resulting draft genome had a size of 4,463,212 bp and a G+C content of 47.0%, which is similar to that of other Y. enterocolitica genomes (8–11). Genome annotation using Rapid Annotation using Subsystem Technology (RAST) (http://rast.nmpdr.org/) (12) predicted 4,181 coding sequences (CDS), 64 tRNA genes, and 5 rRNA genes.…”

Section: Genome Announcementmentioning

confidence: 55%

“…To date, only two genome sequences of Y. enterocolitica 4/O:3 strains are publically available: one clinical strain from Germany (8) and one swine isolate from The Philippines (9). The availability of more genome sequences of this common and widespread enteric pathogen would help in increasing our understanding of its diversity and facilitating the development of new molecular diagnostic tools.…”

Section: Genome Announcementmentioning

confidence: 99%

Draft Genome Sequence of a Clinical Strain of Yersinia enterocolitica (IP10393) of Bioserotype 4/O:3 from France

Savin

Frangeul

et al. 2013

Genome Announc

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Complete Genome Sequence of Yersinia enterocolitica subsp. palearctica Serogroup O:3

Cited by 27 publications

References 4 publications

Analysis of iron acquisition and storage‐related genes in clinical and non‐clinical strains of Yersinia enterocolitica biovar 1A

Analysis of iron acquisition and storage‐related genes in clinical and non‐clinical strains of Yersinia enterocolitica biovar 1A

CONTIGuator: a bacterial genomes finishing tool for structural insights on draft genomes

Draft Genome Sequence of a Clinical Strain of Yersinia enterocolitica (IP10393) of Bioserotype 4/O:3 from France

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