Unraveling adaptation of Pontibacter korlensis to radiation and infertility in desert through complete genome and comparative transcriptomic analysis
The desert is a harsh habitat for flora and microbial life due to its aridness and strong radiation. In this study, we constructed the first complete and deeply annotated genome of the genus Pontibacter ( Pontibacter korlensis X14-1 T = CCTCC AB 206081 T , X14-1). Reconstruction of the sugar metabo...
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| Veröffentlicht in: | Scientific reports 2015-06, Vol.5 (1), p.10929-10929, Article 10929 |
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| creator | Dai, Jun Dai, Wenkui Qiu, Chuangzhao Yang, Zhenyu Zhang, Yi Zhou, Mengzhou Zhang, Lei Fang, Chengxiang Gao, Qiang Yang, Qiao Li, Xin Wang, Zhi Wang, Zhiyong Jia, Zhenhua Chen, Xiong |
| description | The desert is a harsh habitat for flora and microbial life due to its aridness and strong radiation. In this study, we constructed the first complete and deeply annotated genome of the genus
Pontibacter
(
Pontibacter korlensis
X14-1
T
= CCTCC AB 206081
T
, X14-1). Reconstruction of the sugar metabolism process indicated that strain X14-1 can utilize diverse sugars, including cellulose, starch and sucrose; this result is consistent with previous experiments. Strain X14-1 is also able to resist desiccation and radiation in the desert through well-armed systems related to DNA repair, radical oxygen species (ROS) detoxification and the OstAB and TreYZ pathways for trehalose synthesis. A comparative transcriptomic analysis under gamma radiation revealed that strain X14-1 presents high-efficacy operating responses to radiation, including the robust expression of catalase and the manganese transport protein. Evaluation of 73 novel genes that are differentially expressed showed that some of these genes may contribute to the strain’s adaptation to radiation and desiccation through ferric transport and preservation. |
| doi_str_mv | 10.1038/srep10929 |
| format | Article |
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Pontibacter
(
Pontibacter korlensis
X14-1
T
= CCTCC AB 206081
T
, X14-1). Reconstruction of the sugar metabolism process indicated that strain X14-1 can utilize diverse sugars, including cellulose, starch and sucrose; this result is consistent with previous experiments. Strain X14-1 is also able to resist desiccation and radiation in the desert through well-armed systems related to DNA repair, radical oxygen species (ROS) detoxification and the OstAB and TreYZ pathways for trehalose synthesis. A comparative transcriptomic analysis under gamma radiation revealed that strain X14-1 presents high-efficacy operating responses to radiation, including the robust expression of catalase and the manganese transport protein. Evaluation of 73 novel genes that are differentially expressed showed that some of these genes may contribute to the strain’s adaptation to radiation and desiccation through ferric transport and preservation.</description><identifier>ISSN: 2045-2322</identifier><identifier>EISSN: 2045-2322</identifier><identifier>DOI: 10.1038/srep10929</identifier><identifier>PMID: 26057562</identifier><language>eng</language><publisher>London: Nature Publishing Group UK</publisher><subject>45/23 ; 45/43 ; 631/326/171/1818 ; 631/326/41/2530 ; Adaptation, Physiological ; Antibodies ; Catalase ; Cellulose ; Cytophaga - genetics ; Cytophaga - physiology ; Cytophaga - radiation effects ; Desiccation ; Detoxification ; DNA repair ; Genome, Plant ; Genomes ; Humanities and Social Sciences ; Infertility ; Infertility - genetics ; Infertility - physiopathology ; Manganese ; Molecular Sequence Data ; multidisciplinary ; Phylogeny ; Preservation ; Protein transport ; Reactive oxygen species ; Science ; Starch ; Sucrose ; Sugar ; Transcriptome ; Trehalose ; γ Radiation</subject><ispartof>Scientific reports, 2015-06, Vol.5 (1), p.10929-10929, Article 10929</ispartof><rights>The Author(s) 2015</rights><rights>Copyright Nature Publishing Group Jun 2015</rights><rights>Copyright © 2015, Macmillan Publishers Limited 2015 Macmillan Publishers Limited</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c438t-bd8440426825008af90ee8fbf10b328e988423ee877c033911aa126c688ff8d93</citedby><cites>FETCH-LOGICAL-c438t-bd8440426825008af90ee8fbf10b328e988423ee877c033911aa126c688ff8d93</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/PMC4460873/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4460873/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,725,778,782,862,883,27911,27912,41107,42176,51563,53778,53780</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/26057562$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Dai, Jun</creatorcontrib><creatorcontrib>Dai, Wenkui</creatorcontrib><creatorcontrib>Qiu, Chuangzhao</creatorcontrib><creatorcontrib>Yang, Zhenyu</creatorcontrib><creatorcontrib>Zhang, Yi</creatorcontrib><creatorcontrib>Zhou, Mengzhou</creatorcontrib><creatorcontrib>Zhang, Lei</creatorcontrib><creatorcontrib>Fang, Chengxiang</creatorcontrib><creatorcontrib>Gao, Qiang</creatorcontrib><creatorcontrib>Yang, Qiao</creatorcontrib><creatorcontrib>Li, Xin</creatorcontrib><creatorcontrib>Wang, Zhi</creatorcontrib><creatorcontrib>Wang, Zhiyong</creatorcontrib><creatorcontrib>Jia, Zhenhua</creatorcontrib><creatorcontrib>Chen, Xiong</creatorcontrib><title>Unraveling adaptation of Pontibacter korlensis to radiation and infertility in desert through complete genome and comparative transcriptomic analysis</title><title>Scientific reports</title><addtitle>Sci Rep</addtitle><addtitle>Sci Rep</addtitle><description>The desert is a harsh habitat for flora and microbial life due to its aridness and strong radiation. In this study, we constructed the first complete and deeply annotated genome of the genus
Pontibacter
(
Pontibacter korlensis
X14-1
T
= CCTCC AB 206081
T
, X14-1). Reconstruction of the sugar metabolism process indicated that strain X14-1 can utilize diverse sugars, including cellulose, starch and sucrose; this result is consistent with previous experiments. Strain X14-1 is also able to resist desiccation and radiation in the desert through well-armed systems related to DNA repair, radical oxygen species (ROS) detoxification and the OstAB and TreYZ pathways for trehalose synthesis. A comparative transcriptomic analysis under gamma radiation revealed that strain X14-1 presents high-efficacy operating responses to radiation, including the robust expression of catalase and the manganese transport protein. Evaluation of 73 novel genes that are differentially expressed showed that some of these genes may contribute to the strain’s adaptation to radiation and desiccation through ferric transport and preservation.</description><subject>45/23</subject><subject>45/43</subject><subject>631/326/171/1818</subject><subject>631/326/41/2530</subject><subject>Adaptation, Physiological</subject><subject>Antibodies</subject><subject>Catalase</subject><subject>Cellulose</subject><subject>Cytophaga - genetics</subject><subject>Cytophaga - physiology</subject><subject>Cytophaga - radiation effects</subject><subject>Desiccation</subject><subject>Detoxification</subject><subject>DNA repair</subject><subject>Genome, Plant</subject><subject>Genomes</subject><subject>Humanities and Social Sciences</subject><subject>Infertility</subject><subject>Infertility - genetics</subject><subject>Infertility - physiopathology</subject><subject>Manganese</subject><subject>Molecular Sequence Data</subject><subject>multidisciplinary</subject><subject>Phylogeny</subject><subject>Preservation</subject><subject>Protein transport</subject><subject>Reactive oxygen species</subject><subject>Science</subject><subject>Starch</subject><subject>Sucrose</subject><subject>Sugar</subject><subject>Transcriptome</subject><subject>Trehalose</subject><subject>γ Radiation</subject><issn>2045-2322</issn><issn>2045-2322</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</creationdate><recordtype>article</recordtype><sourceid>C6C</sourceid><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNplkU2LFDEQhoMo7rLuwT8gAS8qjOaru5OLIItfsKAH99yk05WerOmkTdID80P8v2addRg1l1SqnnqrwovQU0peU8Llm5xgoUQx9QCdMyKaDeOMPTyJz9BlzreknoYpQdVjdMZa0nRNy87Rz5uQ9A68CxPWo16KLi4GHC3-GkNxgzYFEv4ek4eQXcYl4qRHd6B0GLELFlJx3pV9jfEIuT5x2aa4Tlts4rx4KIAnCHGG3x13OZ2qwg5wSTpkk9xS4uxMLWu_r2OeoEdW-wyX9_cFuvnw_tvVp831l4-fr95db4zgsmyGUQpBBGslawiR2ioCIO1gKRk4k6CkFIzXVNcZwrmiVGvKWtNKaa0cFb9Abw-6yzrMMBoIdSHfL8nNOu37qF3_dyW4bT_FXS9ES2THq8CLe4EUf6yQSz-7bMB7HSCuuaet7Fqhuqar6PN_0Nu4pvrhSkmlmpZXvUq9PFAmxVyttcdlKOnv_O6Pflf22en2R_KPuxV4dQByLYUJ0snI_9R-AY2muNE</recordid><startdate>20150609</startdate><enddate>20150609</enddate><creator>Dai, Jun</creator><creator>Dai, Wenkui</creator><creator>Qiu, Chuangzhao</creator><creator>Yang, Zhenyu</creator><creator>Zhang, Yi</creator><creator>Zhou, Mengzhou</creator><creator>Zhang, Lei</creator><creator>Fang, Chengxiang</creator><creator>Gao, Qiang</creator><creator>Yang, Qiao</creator><creator>Li, Xin</creator><creator>Wang, Zhi</creator><creator>Wang, Zhiyong</creator><creator>Jia, Zhenhua</creator><creator>Chen, Xiong</creator><general>Nature Publishing Group UK</general><general>Nature Publishing Group</general><scope>C6C</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>88I</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M2P</scope><scope>M7P</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>Q9U</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20150609</creationdate><title>Unraveling adaptation of Pontibacter korlensis to radiation and infertility in desert through complete genome and comparative transcriptomic analysis</title><author>Dai, Jun ; Dai, Wenkui ; Qiu, Chuangzhao ; Yang, Zhenyu ; Zhang, Yi ; Zhou, Mengzhou ; Zhang, Lei ; Fang, Chengxiang ; Gao, Qiang ; Yang, Qiao ; Li, Xin ; Wang, Zhi ; Wang, Zhiyong ; Jia, Zhenhua ; Chen, Xiong</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c438t-bd8440426825008af90ee8fbf10b328e988423ee877c033911aa126c688ff8d93</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>45/23</topic><topic>45/43</topic><topic>631/326/171/1818</topic><topic>631/326/41/2530</topic><topic>Adaptation, Physiological</topic><topic>Antibodies</topic><topic>Catalase</topic><topic>Cellulose</topic><topic>Cytophaga - genetics</topic><topic>Cytophaga - physiology</topic><topic>Cytophaga - radiation effects</topic><topic>Desiccation</topic><topic>Detoxification</topic><topic>DNA repair</topic><topic>Genome, Plant</topic><topic>Genomes</topic><topic>Humanities and Social Sciences</topic><topic>Infertility</topic><topic>Infertility - genetics</topic><topic>Infertility - physiopathology</topic><topic>Manganese</topic><topic>Molecular Sequence Data</topic><topic>multidisciplinary</topic><topic>Phylogeny</topic><topic>Preservation</topic><topic>Protein transport</topic><topic>Reactive oxygen species</topic><topic>Science</topic><topic>Starch</topic><topic>Sucrose</topic><topic>Sugar</topic><topic>Transcriptome</topic><topic>Trehalose</topic><topic>γ Radiation</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Dai, Jun</creatorcontrib><creatorcontrib>Dai, Wenkui</creatorcontrib><creatorcontrib>Qiu, Chuangzhao</creatorcontrib><creatorcontrib>Yang, Zhenyu</creatorcontrib><creatorcontrib>Zhang, Yi</creatorcontrib><creatorcontrib>Zhou, Mengzhou</creatorcontrib><creatorcontrib>Zhang, Lei</creatorcontrib><creatorcontrib>Fang, Chengxiang</creatorcontrib><creatorcontrib>Gao, Qiang</creatorcontrib><creatorcontrib>Yang, Qiao</creatorcontrib><creatorcontrib>Li, Xin</creatorcontrib><creatorcontrib>Wang, Zhi</creatorcontrib><creatorcontrib>Wang, Zhiyong</creatorcontrib><creatorcontrib>Jia, Zhenhua</creatorcontrib><creatorcontrib>Chen, Xiong</creatorcontrib><collection>Springer Nature OA Free Journals</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>Science Database (Alumni Edition)</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection (ProQuest)</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Science Database</collection><collection>Biological Science Database</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central Basic</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Scientific reports</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Dai, Jun</au><au>Dai, Wenkui</au><au>Qiu, Chuangzhao</au><au>Yang, Zhenyu</au><au>Zhang, Yi</au><au>Zhou, Mengzhou</au><au>Zhang, Lei</au><au>Fang, Chengxiang</au><au>Gao, Qiang</au><au>Yang, Qiao</au><au>Li, Xin</au><au>Wang, Zhi</au><au>Wang, Zhiyong</au><au>Jia, Zhenhua</au><au>Chen, Xiong</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Unraveling adaptation of Pontibacter korlensis to radiation and infertility in desert through complete genome and comparative transcriptomic analysis</atitle><jtitle>Scientific reports</jtitle><stitle>Sci Rep</stitle><addtitle>Sci Rep</addtitle><date>2015-06-09</date><risdate>2015</risdate><volume>5</volume><issue>1</issue><spage>10929</spage><epage>10929</epage><pages>10929-10929</pages><artnum>10929</artnum><issn>2045-2322</issn><eissn>2045-2322</eissn><abstract>The desert is a harsh habitat for flora and microbial life due to its aridness and strong radiation. In this study, we constructed the first complete and deeply annotated genome of the genus
Pontibacter
(
Pontibacter korlensis
X14-1
T
= CCTCC AB 206081
T
, X14-1). Reconstruction of the sugar metabolism process indicated that strain X14-1 can utilize diverse sugars, including cellulose, starch and sucrose; this result is consistent with previous experiments. Strain X14-1 is also able to resist desiccation and radiation in the desert through well-armed systems related to DNA repair, radical oxygen species (ROS) detoxification and the OstAB and TreYZ pathways for trehalose synthesis. A comparative transcriptomic analysis under gamma radiation revealed that strain X14-1 presents high-efficacy operating responses to radiation, including the robust expression of catalase and the manganese transport protein. Evaluation of 73 novel genes that are differentially expressed showed that some of these genes may contribute to the strain’s adaptation to radiation and desiccation through ferric transport and preservation.</abstract><cop>London</cop><pub>Nature Publishing Group UK</pub><pmid>26057562</pmid><doi>10.1038/srep10929</doi><tpages>1</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | 45/23 45/43 631/326/171/1818 631/326/41/2530 Adaptation, Physiological Antibodies Catalase Cellulose Cytophaga - genetics Cytophaga - physiology Cytophaga - radiation effects Desiccation Detoxification DNA repair Genome, Plant Genomes Humanities and Social Sciences Infertility Infertility - genetics Infertility - physiopathology Manganese Molecular Sequence Data multidisciplinary Phylogeny Preservation Protein transport Reactive oxygen species Science Starch Sucrose Sugar Transcriptome Trehalose γ Radiation |
| title | Unraveling adaptation of Pontibacter korlensis to radiation and infertility in desert through complete genome and comparative transcriptomic analysis |
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