{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,27]],"date-time":"2026-09-27T14:08:03Z","timestamp":1790518083997,"version":"4.1.0"},"reference-count":63,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2012,10,24]],"date-time":"2012-10-24T00:00:00Z","timestamp":1351036800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/pages\/standard-publication-reuse-rights"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2012,10,24]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>The underlying mechanisms that lead to dramatic differences between closely related pathogens are not always readily apparent. For example, the genomes of Yersinia pestis (YP) the causative agent of plague with a high mortality rate and Yersinia pseudotuberculosis (YPT) an enteric pathogen with a modest mortality rate are highly similar with some species specific differences; however the molecular causes of their distinct clinical outcomes remain poorly understood. In this study, a temporal multi-omic analysis of YP and YPT at physiologically relevant temperatures was performed to gain insights into how an acute and highly lethal bacterial pathogen, YP, differs from its less virulent progenitor, YPT. This analysis revealed higher gene and protein expression levels of conserved major virulence factors in YP relative to YPT, including the Yop virulon and the pH6 antigen. This suggests that adaptation in the regulatory architecture, in addition to the presence of unique genetic material, may contribute to the increased pathogenecity of YP relative to YPT. Additionally, global transcriptome and proteome responses of YP and YPT revealed conserved post-transcriptional control of metabolism and the translational machinery including the modulation of glutamate levels in Yersiniae. Finally, the omics data was coupled with a computational network analysis, allowing an efficient prediction of novel Yersinia virulence factors based on gene and protein expression patterns.<\/jats:p>\n                  <jats:p\/>","DOI":"10.1039\/c2mb25287b","type":"journal-article","created":{"date-parts":[[2012,10,24]],"date-time":"2012-10-24T08:30:34Z","timestamp":1351067434000},"page":"44-54","source":"Crossref","is-referenced-by-count":28,"title":["A multi-omic systems approach to elucidating\n                    <i>Yersinia<\/i>\n                    virulence mechanisms"],"prefix":"10.1093","volume":"9","author":[{"given":"Charles","family":"Ansong","sequence":"first","affiliation":[{"name":"Biological Sciences Division, Pacific Northwest National Laboratory a , P. O. Box 999, Richland, WA 99352, USA Joshua.Adkins@pnnl.gov +1 509-371-6555 +1 509-371-6583"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alexandra C","family":"Schrimpe-Rutledge","sequence":"additional","affiliation":[{"name":"Biological Sciences Division, Pacific Northwest National Laboratory a , P. O. Box 999, Richland, WA 99352, USA Joshua.Adkins@pnnl.gov +1 509-371-6555 +1 509-371-6583"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hugh D","family":"Mitchell","sequence":"additional","affiliation":[{"name":"Computational Sciences & Mathematics Division, Pacific Northwest National Laboratory b , Richland, WA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sadhana","family":"Chauhan","sequence":"additional","affiliation":[{"name":"Departments of Microbiology and Immunology, University of Texas Medical Branch c , Galveston, TX, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marcus B","family":"Jones","sequence":"additional","affiliation":[{"name":"Infectious Disease Group, J. Craig Venter Institute d , Rockville, MD, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Young-Mo","family":"Kim","sequence":"additional","affiliation":[{"name":"Biological Sciences Division, Pacific Northwest National Laboratory a , P. O. Box 999, Richland, WA 99352, USA Joshua.Adkins@pnnl.gov +1 509-371-6555 +1 509-371-6583"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kathleen","family":"McAteer","sequence":"additional","affiliation":[{"name":"Biology Program, Washington State University Tri-Cities e , Richland, WA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Brooke L","family":"Deatherage Kaiser","sequence":"additional","affiliation":[{"name":"Biological Sciences Division, Pacific Northwest National Laboratory a , P. O. Box 999, Richland, WA 99352, USA Joshua.Adkins@pnnl.gov +1 509-371-6555 +1 509-371-6583"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jennifer L","family":"Dubois","sequence":"additional","affiliation":[{"name":"Biosciences Division, Stanford Research Institute f , International, Menlo Park, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Heather M","family":"Brewer","sequence":"additional","affiliation":[{"name":"Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory g , Richland, WA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bryan C","family":"Frank","sequence":"additional","affiliation":[{"name":"Infectious Disease Group, J. Craig Venter Institute d , Rockville, MD, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jason E","family":"McDermott","sequence":"additional","affiliation":[{"name":"Computational Sciences & Mathematics Division, Pacific Northwest National Laboratory b , Richland, WA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thomas O","family":"Metz","sequence":"additional","affiliation":[{"name":"Biological Sciences Division, Pacific Northwest National Laboratory a , P. O. Box 999, Richland, WA 99352, USA Joshua.Adkins@pnnl.gov +1 509-371-6555 +1 509-371-6583"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Scott N","family":"Peterson","sequence":"additional","affiliation":[{"name":"Infectious Disease Group, J. Craig Venter Institute d , Rockville, MD, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Richard D","family":"Smith","sequence":"additional","affiliation":[{"name":"Biological Sciences Division, Pacific Northwest National Laboratory a , P. O. Box 999, Richland, WA 99352, USA Joshua.Adkins@pnnl.gov +1 509-371-6555 +1 509-371-6583"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vladimir L","family":"Motin","sequence":"additional","affiliation":[{"name":"Departments of Microbiology and Immunology, University of Texas Medical Branch c , Galveston, TX, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Joshua N","family":"Adkins","sequence":"additional","affiliation":[{"name":"Biological Sciences Division, Pacific Northwest National Laboratory a , P. O. Box 999, Richland, WA 99352, USA Joshua.Adkins@pnnl.gov +1 509-371-6555 +1 509-371-6583"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2012,10,24]]},"reference":[{"key":"2026012913113833100_cit1","doi-asserted-by":"crossref","first-page":"35","DOI":"10.1128\/CMR.10.1.35","volume":"10","author":"Perry","year":"1997","journal-title":"Clin. Microbiol. Rev."},{"key":"2026012913113833100_cit2","doi-asserted-by":"crossref","first-page":"17837","DOI":"10.1073\/pnas.0408026101","volume":"101","author":"Achtman","year":"2004","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"2026012913113833100_cit3","doi-asserted-by":"crossref","first-page":"13826","DOI":"10.1073\/pnas.0404012101","volume":"101","author":"Chain","year":"2004","journal-title":"Proc. Natl. Acad. Sci. U. S. 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