Dataset Information

Yersinia pestis Yp1945 laboratory domestication

ABSTRACT: Project goal is to describe proteomic changes arising from adaptation to laboratory culture conditions.

INSTRUMENT(S): LTQ Orbitrap

ORGANISM(S): Yersinia Pestis Co92

SUBMITTER: Owen Leiser

LAB HEAD: Helen Kreuzer

PROVIDER: PXD002955 | Pride | 2016-01-12

REPOSITORIES: Pride

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Publications

Investigation of Yersinia pestis Laboratory Adaptation through a Combined Genomics and Proteomics Approach.

Leiser Owen P OP Merkley Eric D ED Clowers Brian H BH Deatherage Kaiser Brooke L BL Lin Andy A Hutchison Janine R JR Melville Angela M AM Wagner David M DM Keim Paul S PS Foster Jeffrey T JT Kreuzer Helen W HW

PloS one 20151124 11

The bacterial pathogen Yersinia pestis, the cause of plague in humans and animals, normally has a sylvatic lifestyle, cycling between fleas and mammals. In contrast, laboratory-grown Y. pestis experiences a more constant environment and conditions that it would not normally encounter. The transition from the natural environment to the laboratory results in a vastly different set of selective pressures, and represents what could be considered domestication. Understanding the kinds of adaptations ...[more]

PMID: 26599979

Similar Datasets

Project description:BACKGROUND: Whole genome sequencing allowed the development of a number of high resolution sequence based typing tools for Yersinia (Y.) pestis. The application of these methods on isolates from most known foci worldwide and in particular from China and the Former Soviet Union has dramatically improved our understanding of the population structure of this species. In the current view, Y. pestis including the non or moderate human pathogen Y. pestis subspecies microtus emerged from Yersinia pseudotuberculosis about 2,600 to 28,600 years ago in central Asia. The majority of central Asia natural foci have been investigated. However these investigations included only few strains from Mongolia. METHODOLOGY/PRINCIPAL FINDINGS: Clustered Regularly Interspaced Short Prokaryotic Repeats (CRISPR) analysis and Multiple-locus variable number of tandem repeats (VNTR) analysis (MLVA) with 25 loci was performed on 100 Y. pestis strains, isolated from 37 sampling areas in Mongolia. The resulting data were compared with previously published data from more than 500 plague strains, 130 of which had also been previously genotyped by single nucleotide polymorphism (SNP) analysis. The comparison revealed six main clusters including the three microtus biovars Ulegeica, Altaica, and Xilingolensis. The largest cluster comprises 78 isolates, with unique and new genotypes seen so far in Mongolia only. Typing of selected isolates by key SNPs was used to robustly assign the corresponding clusters to previously defined SNP branches. CONCLUSIONS/SIGNIFICANCE: We show that Mongolia hosts the most recent microtus clade (Ulegeica). Interestingly no representatives of the ancestral Y. pestis subspecies pestis nodes previously identified in North-western China were identified in this study. This observation suggests that the subsequent evolution steps within Y. pestis pestis did not occur in Mongolia. Rather, Mongolia was most likely re-colonized by more recent clades coming back from China contemporary of the black death pandemic, or more recently in the past 600 years.

			Action	DRS
	MaxQuantOutput.tar.gz	Other
	Yp1945_L01P60_A.raw	Raw
	Yp1945_L01P60_B.raw	Raw
	Yp1945_L01P60_C.raw	Raw
	Yp1945_L02P60_A.raw	Raw