Evidence map›Paper›PMID 17173484›Full record

ArticlePLoS genetics2006

The complete genome sequence and comparative genome analysis of the high pathogenicity Yersinia enterocolitica strain 8081.

Nicholas R Thomson, Sarah Howard, Brendan W Wren, Matthew T G Holden, Lisa Crossman, Gregory L Challis, Carol Churcher, Karen Mungall, Karen Brooks, Tracey Chillingworth and 12 more

Open access · goldAbstract read
In one paragraph

Article in PLoS genetics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 121 papers.

0numbers the graph read from it
0cells of the map it votes in
121citing papers in PubMed
16.7field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

121 citing papers in PubMed, 249 citations in OpenAlex.

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  15. Comparative genomic insights intoMicrobial genomics · 2020
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  18. Binding ofFrontiers in microbiology · 2020
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  20. Urease Expression in PathogenicFrontiers in microbiology · 2020
    Article

61 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

22 authors at 4 institutions in 2 countries.

Nicholas R ThomsonThe Pathogen Sequencing Unit, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom. nrt@sanger.ac.uk
Sarah Howard
Brendan W Wren
Matthew T G Holden
Lisa Crossman
Gregory L Challis
Carol Churcher
Karen Mungall
Karen Brooks
Tracey Chillingworth
Theresa Feltwell
Zahra Abdellah
Heidi Hauser
Kay Jagels
Mark Maddison
Sharon Moule
Mandy Sanders
Sally Whitehead
Michael A Quail
Gordon Dougan
Julian Parkhill
Michael B Prentice
Wellcome Sanger Institute · GBLondon School of Hygiene & Tropical Medicine · GBUniversity College Cork · IEUniversity of Warwick · GB

Funding

Wellcome Trust
6 · The paper itself

Abstract

The human enteropathogen, Yersinia enterocolitica, is a significant link in the range of Yersinia pathologies extending from mild gastroenteritis to bubonic plague. Comparison at the genomic level is a key step in our understanding of the genetic basis for this pathogenicity spectrum. Here we report the genome of Y. enterocolitica strain 8081 (serotype 0:8; biotype 1B) and extensive microarray data relating to the genetic diversity of the Y. enterocolitica species. Our analysis reveals that the genome of Y. enterocolitica strain 8081 is a patchwork of horizontally acquired genetic loci, including a plasticity zone of 199 kb containing an extraordinarily high density of virulence genes. Microarray analysis has provided insights into species-specific Y. enterocolitica gene functions and the intraspecies differences between the high, low, and nonpathogenic Y. enterocolitica biotypes. Through comparative genome sequence analysis we provide new information on the evolution of the Yersinia. We identify numerous loci that represent ancestral clusters of genes potentially important in enteric survival and pathogenesis, which have been lost or are in the process of being lost, in the other sequenced Yersinia lineages. Our analysis also highlights large metabolic operons in Y. enterocolitica that are absent in the related enteropathogen, Yersinia pseudotuberculosis, indicating major differences in niche and nutrients used within the mammalian gut. These include clusters directing, the production of hydrogenases, tetrathionate respiration, cobalamin synthesis, and propanediol utilisation. Along with ancestral gene clusters, the genome of Y. enterocolitica has revealed species-specific and enteropathogen-specific loci. This has provided important insights into the pathology of this bacterium and, more broadly, into the evolution of the genus. Moreover, wider investigations looking at the patterns of gene loss and gain in the Yersinia have highlighted common themes in the genome evolution of other human enteropathogens.

Indexed as

Genome, BacterialEvolution, MolecularGenomicsMicroarray AnalysisMolecular Sequence DataYersinia enterocolitica

Identifiers

PMID17173484
PMCPMC1698947
OpenAlexW2170720827

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.