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Comparative genome analysis of 15 clinical Shigella flexneri strains regarding virulence and antibiotic resistance
Shigellosis is the major cause of dysentery globally. It is mainly attributed to two species, and , which leads to approximately 165 million infections and 1.1 million deaths each year. Rapid increase and widening of spectrum in antibiotics resistance make hard to be adequately controlled through ex...
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| Published in: | AIMS microbiology 2019-01, Vol.5 (3), p.205-222 |
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| creator | Wang, Liang Zhu, Zuobin Qian, Huimin Li, Ying Chen, Ying Ma, Ping Gu, Bing |
| description | Shigellosis is the major cause of dysentery globally. It is mainly attributed to two
species,
and
, which leads to approximately 165 million infections and 1.1 million deaths each year. Rapid increase and widening of spectrum in antibiotics resistance make
hard to be adequately controlled through existing prevention and treatment measures. It has also been observed that enhanced virulence and advent of antibiotic resistance (AR) could arise almost simultaneously. However, genetic linkages between the two factors are missing or largely ignored, which hinders experimental verification of the relationship. In this study, we sequenced 15 clinically isolated
strains. Genome assembly, annotation and comparison were performed through routine pipelines. Differential resistant profiles of all 15
strains to nine antibiotics were experimentally verified. Virulence factors (VFs) belonging to 4 categories and 31 functional groups from the Virulence Factor Database (VFDB) were used to screen all
translated CDSs. Distribution patterns of virulence factors were analysed by correlating with the profiles of bacterial antibiotics resistance. In addition, multi-resistant
strains were compared with antibiotic-sensitive strains by focusing on the abundance or scarcity of specific groups of VFs. By doing these, a clear view of the relationships between virulence factors and antibiotics resistance in
could be achieved, which not only provides a set of genetic evidence to support the interactions between VFs and AR but could also be used as a guidance for further verification of the relationships through manipulating specific groups of virulence factors. |
| doi_str_mv | 10.3934/microbiol.2019.3.205 |
| format | article |
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species,
and
, which leads to approximately 165 million infections and 1.1 million deaths each year. Rapid increase and widening of spectrum in antibiotics resistance make
hard to be adequately controlled through existing prevention and treatment measures. It has also been observed that enhanced virulence and advent of antibiotic resistance (AR) could arise almost simultaneously. However, genetic linkages between the two factors are missing or largely ignored, which hinders experimental verification of the relationship. In this study, we sequenced 15 clinically isolated
strains. Genome assembly, annotation and comparison were performed through routine pipelines. Differential resistant profiles of all 15
strains to nine antibiotics were experimentally verified. Virulence factors (VFs) belonging to 4 categories and 31 functional groups from the Virulence Factor Database (VFDB) were used to screen all
translated CDSs. Distribution patterns of virulence factors were analysed by correlating with the profiles of bacterial antibiotics resistance. In addition, multi-resistant
strains were compared with antibiotic-sensitive strains by focusing on the abundance or scarcity of specific groups of VFs. By doing these, a clear view of the relationships between virulence factors and antibiotics resistance in
could be achieved, which not only provides a set of genetic evidence to support the interactions between VFs and AR but could also be used as a guidance for further verification of the relationships through manipulating specific groups of virulence factors.</description><identifier>ISSN: 2471-1888</identifier><identifier>EISSN: 2471-1888</identifier><identifier>DOI: 10.3934/microbiol.2019.3.205</identifier><identifier>PMID: 31663057</identifier><language>eng</language><publisher>United States: AIMS Press</publisher><subject>antibiotics resistance ; comparative genomics ; hmmer ; prokka ; shigella ; virulence factor</subject><ispartof>AIMS microbiology, 2019-01, Vol.5 (3), p.205-222</ispartof><rights>2019 the Author(s), licensee AIMS Press.</rights><rights>2019 the Author(s), licensee AIMS Press 2019 the Author(s)</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c541t-ace55632b0ae305e44e52e00d2c35f28fd89fb49dc8b5214dd5d51f1af53a7463</citedby><cites>FETCH-LOGICAL-c541t-ace55632b0ae305e44e52e00d2c35f28fd89fb49dc8b5214dd5d51f1af53a7463</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6787350/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6787350/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,885,27924,27925,53791,53793</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31663057$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Wang, Liang</creatorcontrib><creatorcontrib>Zhu, Zuobin</creatorcontrib><creatorcontrib>Qian, Huimin</creatorcontrib><creatorcontrib>Li, Ying</creatorcontrib><creatorcontrib>Chen, Ying</creatorcontrib><creatorcontrib>Ma, Ping</creatorcontrib><creatorcontrib>Gu, Bing</creatorcontrib><creatorcontrib>These two authors contributed equally</creatorcontrib><creatorcontrib>5 Medical Technology School of Xuzhou Medical University, Xuzhou 221004, China</creatorcontrib><creatorcontrib>6 Department of Laboratory Medicine, Affiliated Hospital of Xuzhou Medical University, Xuzhou 221006, China</creatorcontrib><creatorcontrib>4 Jiangsu Provincial Center for Disease Control and Prevention, Nanjing 210009, China</creatorcontrib><creatorcontrib>2 Jiangsu Key Laboratory of New Drug Research and Clinical Pharmacy, Xuzhou Medical University, Xuzhou 221000, Jiangsu China</creatorcontrib><creatorcontrib>1 Department of Bioinformatics, School of Medical Informatics and Engineering, Xuzhou Medical University, Xuzhou 221000, Jiangsu China</creatorcontrib><creatorcontrib>3 Department of Genetics, School of Life Sciences, Xuzhou Medical University, Xuzhou, Jiangsu, China</creatorcontrib><title>Comparative genome analysis of 15 clinical Shigella flexneri strains regarding virulence and antibiotic resistance</title><title>AIMS microbiology</title><addtitle>AIMS Microbiol</addtitle><description>Shigellosis is the major cause of dysentery globally. It is mainly attributed to two
species,
and
, which leads to approximately 165 million infections and 1.1 million deaths each year. Rapid increase and widening of spectrum in antibiotics resistance make
hard to be adequately controlled through existing prevention and treatment measures. It has also been observed that enhanced virulence and advent of antibiotic resistance (AR) could arise almost simultaneously. However, genetic linkages between the two factors are missing or largely ignored, which hinders experimental verification of the relationship. In this study, we sequenced 15 clinically isolated
strains. Genome assembly, annotation and comparison were performed through routine pipelines. Differential resistant profiles of all 15
strains to nine antibiotics were experimentally verified. Virulence factors (VFs) belonging to 4 categories and 31 functional groups from the Virulence Factor Database (VFDB) were used to screen all
translated CDSs. Distribution patterns of virulence factors were analysed by correlating with the profiles of bacterial antibiotics resistance. In addition, multi-resistant
strains were compared with antibiotic-sensitive strains by focusing on the abundance or scarcity of specific groups of VFs. By doing these, a clear view of the relationships between virulence factors and antibiotics resistance in
could be achieved, which not only provides a set of genetic evidence to support the interactions between VFs and AR but could also be used as a guidance for further verification of the relationships through manipulating specific groups of virulence factors.</description><subject>antibiotics resistance</subject><subject>comparative genomics</subject><subject>hmmer</subject><subject>prokka</subject><subject>shigella</subject><subject>virulence factor</subject><issn>2471-1888</issn><issn>2471-1888</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><sourceid>DOA</sourceid><recordid>eNpVkU1v3CAQhq2qVROl-QdVxbGX3YIBG18qVat-RIrUQ9szGsPgEGHYgnfV_PvibrpKDmjQfDzzwts0bxnd8oGLD7M3OY0-hW1L2bDlNcgXzWUrerZhSqmXT-4XzXUp95RS1knGqHrdXHDWdZzK_rLJuzTvIcPij0gmjGlGAhHCQ_GFJEeYJCb46A0E8uPOTxgCEBfwT8TsSVky-FhIxgmy9XEiR58PAaNZKbaexVeVize1pRIXqJU3zSsHoeD1Y7xqfn35_HP3bXP7_evN7tPtxkjBlg0YlLLj7UgBq1YUAmWLlNrWcOla5awa3CgGa9QoWyaslVYyx8BJDr3o-FVzc-LaBPd6n_0M-UEn8PpfIuVJQ67SAurOsl5h7wRQFLIypG17NCioQBBSVtbHE2t_GGe0BmN9eXgGfV6J_k5P6ai7XvVc0gp4_wjI6fcBy6JnX8z6mxHToeiWM9rJgbJ1lzi1VotLyejOaxjVq_v67L5e3de8hnXs3VOJ56H_XvO_BTCxOg</recordid><startdate>20190101</startdate><enddate>20190101</enddate><creator>Wang, Liang</creator><creator>Zhu, Zuobin</creator><creator>Qian, Huimin</creator><creator>Li, Ying</creator><creator>Chen, Ying</creator><creator>Ma, Ping</creator><creator>Gu, Bing</creator><general>AIMS Press</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20190101</creationdate><title>Comparative genome analysis of 15 clinical Shigella flexneri strains regarding virulence and antibiotic resistance</title><author>Wang, Liang ; 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It is mainly attributed to two
species,
and
, which leads to approximately 165 million infections and 1.1 million deaths each year. Rapid increase and widening of spectrum in antibiotics resistance make
hard to be adequately controlled through existing prevention and treatment measures. It has also been observed that enhanced virulence and advent of antibiotic resistance (AR) could arise almost simultaneously. However, genetic linkages between the two factors are missing or largely ignored, which hinders experimental verification of the relationship. In this study, we sequenced 15 clinically isolated
strains. Genome assembly, annotation and comparison were performed through routine pipelines. Differential resistant profiles of all 15
strains to nine antibiotics were experimentally verified. Virulence factors (VFs) belonging to 4 categories and 31 functional groups from the Virulence Factor Database (VFDB) were used to screen all
translated CDSs. Distribution patterns of virulence factors were analysed by correlating with the profiles of bacterial antibiotics resistance. In addition, multi-resistant
strains were compared with antibiotic-sensitive strains by focusing on the abundance or scarcity of specific groups of VFs. By doing these, a clear view of the relationships between virulence factors and antibiotics resistance in
could be achieved, which not only provides a set of genetic evidence to support the interactions between VFs and AR but could also be used as a guidance for further verification of the relationships through manipulating specific groups of virulence factors.</abstract><cop>United States</cop><pub>AIMS Press</pub><pmid>31663057</pmid><doi>10.3934/microbiol.2019.3.205</doi><tpages>18</tpages><oa>free_for_read</oa></addata></record> |
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| language | eng |
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| source | NCBI_PubMed Central（免费） |
| subjects | antibiotics resistance comparative genomics hmmer prokka shigella virulence factor |
| title | Comparative genome analysis of 15 clinical Shigella flexneri strains regarding virulence and antibiotic resistance |
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