{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,21]],"date-time":"2026-09-21T13:16:34Z","timestamp":1789996594974,"version":"4.0.1"},"reference-count":66,"publisher":"American Society for Microbiology","issue":"3","license":[{"start":{"date-parts":[[2016,2,1]],"date-time":"2016-02-01T00:00:00Z","timestamp":1454284800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["J Bacteriol"],"published-print":{"date-parts":[[2016,2]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n          <jats:p>\n            Recent breakthroughs in next-generation sequencing technologies have led to the identification of small noncoding RNAs (sRNAs) as a new important class of regulatory molecules. In prokaryotes, sRNAs are often bound to the chaperone protein Hfq, which allows them to interact with their partner mRNA(s). We screened the genome of the zoonotic and human pathogen\n            <jats:named-content xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" content-type=\"genus-species\" xlink:type=\"simple\">Brucella suis<\/jats:named-content>\n            1330 for the presence of this class of RNAs. We designed a coimmunoprecipitation strategy that relies on the use of Hfq as a bait to enrich the sample with sRNAs and eventually their target mRNAs. By deep sequencing analysis of the Hfq-bound transcripts, we identified a number of mRNAs and 33 sRNA candidates associated with Hfq. The expression of 10 sRNAs in the early stationary growth phase was experimentally confirmed by Northern blotting and\/or reverse transcriptase PCR.\n          <\/jats:p>\n          <jats:p>\n            <jats:bold>IMPORTANCE<\/jats:bold>\n            <jats:named-content xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" content-type=\"genus-species\" xlink:type=\"simple\">Brucella<\/jats:named-content>\n            organisms are facultative intracellular pathogens that use stealth strategies to avoid host defenses. Adaptation to the host environment requires tight control of gene expression. Recently, small noncoding RNAs (sRNAs) and the sRNA chaperone Hfq have been shown to play a role in the fine-tuning of gene expression. Here we have used RNA sequencing to identify RNAs associated with the\n            <jats:named-content xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" content-type=\"genus-species\" xlink:type=\"simple\">B. suis<\/jats:named-content>\n            Hfq protein. We have identified a novel list of 33 sRNAs and 62 Hfq-associated mRNAs for future studies aiming to understand the intracellular lifestyle of this pathogen.\n          <\/jats:p>","DOI":"10.1128\/jb.00711-15","type":"journal-article","created":{"date-parts":[[2015,11,10]],"date-time":"2015-11-10T03:58:31Z","timestamp":1447127911000},"page":"427-435","update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":23,"title":["Transcriptome-Wide Identification of Hfq-Associated RNAs in Brucella suis by Deep Sequencing"],"prefix":"10.1128","volume":"198","author":[{"given":"Bashir","family":"Saadeh","sequence":"first","affiliation":[{"name":"INSERM U1047, N\u00eemes, France"},{"name":"Universit\u00e9 de Montpellier, UFR M\u00e9decine, N\u00eemes, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Clayton C.","family":"Caswell","sequence":"additional","affiliation":[{"name":"Center for Molecular Medicine and Infectious Diseases, Department of Biomedical Sciences and Pathobiology, Virginia-Maryland College of Veterinary Medicine, Virginia Tech, Blacksburg, Virginia, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5735-7954","authenticated-orcid":false,"given":"Yanjie","family":"Chao","sequence":"additional","affiliation":[{"name":"Institute for Molecular Infection Biology, University of W\u00fcrzburg, W\u00fcrzburg, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Philippe","family":"Berta","sequence":"additional","affiliation":[{"name":"INSERM U1047, N\u00eemes, France"},{"name":"Universit\u00e9 de Montpellier, UFR M\u00e9decine, N\u00eemes, France"},{"name":"Universit\u00e9 de N\u00eemes, D\u00e9partement Sciences et Arts, N\u00eemes, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alice Rebecca","family":"Wattam","sequence":"additional","affiliation":[{"name":"Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, Virginia, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"suffix":"II","given":"R. 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