Genome-Wide Identification of Jatropha curcas Aquaporin Genes and the Comparative Analysis Provides Insights into the Gene Family Expansion and Evolution in Hevea brasiliensis
Identifieur interne : 000315 ( Pmc/Curation ); précédent : 000314; suivant : 000316Genome-Wide Identification of Jatropha curcas Aquaporin Genes and the Comparative Analysis Provides Insights into the Gene Family Expansion and Evolution in Hevea brasiliensis
Auteurs : Zhi Zou ; Lifu Yang ; Jun Gong ; Yeyong Mo ; Jikun Wang ; Jianhua Cao ; Feng An ; Guishui XieSource :
- Frontiers in Plant Science [ 1664-462X ] ; 2016.
Abstract
Aquaporins (AQPs) are channel-forming integral membrane proteins that transport water and other small solutes across biological membranes. Despite the vital role of AQPs, to date, little is known in physic nut (
Url:
DOI: 10.3389/fpls.2016.00395
PubMed: 27066041
PubMed Central: 4814485
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Genome-Wide Identification of <italic>Jatropha curcas</italic>
Aquaporin Genes and the Comparative Analysis Provides Insights into the Gene Family Expansion and Evolution in <italic>Hevea brasiliensis</italic>
</title>
<author><name sortKey="Zou, Zhi" sort="Zou, Zhi" uniqKey="Zou Z" first="Zhi" last="Zou">Zhi Zou</name>
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<author><name sortKey="Yang, Lifu" sort="Yang, Lifu" uniqKey="Yang L" first="Lifu" last="Yang">Lifu Yang</name>
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<author><name sortKey="Gong, Jun" sort="Gong, Jun" uniqKey="Gong J" first="Jun" last="Gong">Jun Gong</name>
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<author><name sortKey="Mo, Yeyong" sort="Mo, Yeyong" uniqKey="Mo Y" first="Yeyong" last="Mo">Yeyong Mo</name>
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<author><name sortKey="Wang, Jikun" sort="Wang, Jikun" uniqKey="Wang J" first="Jikun" last="Wang">Jikun Wang</name>
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<author><name sortKey="Cao, Jianhua" sort="Cao, Jianhua" uniqKey="Cao J" first="Jianhua" last="Cao">Jianhua Cao</name>
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<author><name sortKey="An, Feng" sort="An, Feng" uniqKey="An F" first="Feng" last="An">Feng An</name>
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<author><name sortKey="Xie, Guishui" sort="Xie, Guishui" uniqKey="Xie G" first="Guishui" last="Xie">Guishui Xie</name>
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Genome-Wide Identification of <italic>Jatropha curcas</italic>
Aquaporin Genes and the Comparative Analysis Provides Insights into the Gene Family Expansion and Evolution in <italic>Hevea brasiliensis</italic>
</title>
<author><name sortKey="Zou, Zhi" sort="Zou, Zhi" uniqKey="Zou Z" first="Zhi" last="Zou">Zhi Zou</name>
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<author><name sortKey="Yang, Lifu" sort="Yang, Lifu" uniqKey="Yang L" first="Lifu" last="Yang">Lifu Yang</name>
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<author><name sortKey="Gong, Jun" sort="Gong, Jun" uniqKey="Gong J" first="Jun" last="Gong">Jun Gong</name>
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<author><name sortKey="Mo, Yeyong" sort="Mo, Yeyong" uniqKey="Mo Y" first="Yeyong" last="Mo">Yeyong Mo</name>
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<author><name sortKey="Wang, Jikun" sort="Wang, Jikun" uniqKey="Wang J" first="Jikun" last="Wang">Jikun Wang</name>
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<author><name sortKey="Cao, Jianhua" sort="Cao, Jianhua" uniqKey="Cao J" first="Jianhua" last="Cao">Jianhua Cao</name>
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<author><name sortKey="An, Feng" sort="An, Feng" uniqKey="An F" first="Feng" last="An">Feng An</name>
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<author><name sortKey="Xie, Guishui" sort="Xie, Guishui" uniqKey="Xie G" first="Guishui" last="Xie">Guishui Xie</name>
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<series><title level="j">Frontiers in Plant Science</title>
<idno type="eISSN">1664-462X</idno>
<imprint><date when="2016">2016</date>
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<front><div type="abstract" xml:lang="en"><p>Aquaporins (AQPs) are channel-forming integral membrane proteins that transport water and other small solutes across biological membranes. Despite the vital role of AQPs, to date, little is known in physic nut (<italic>Jatropha curcas</italic>
L., Euphorbiaceae), an important non-edible oilseed crop with great potential for the production of biodiesel. In this study, 32 AQP genes were identified from the physic nut genome and the family number is relatively small in comparison to 51 in another Euphorbiaceae plant, rubber tree (<italic>Hevea brasiliensis</italic>
Muell. Arg.). Based on the phylogenetic analysis, the JcAQPs were assigned to five subfamilies, i.e., nine plasma membrane intrinsic proteins (PIPs), nine tonoplast intrinsic proteins (TIPs), eight NOD26-like intrinsic proteins (NIPs), two X intrinsic proteins (XIPs), and four small basic intrinsic proteins (SIPs). Like rubber tree and other plant species, functional prediction based on the aromatic/arginine selectivity filter, Froger's positions, and specificity-determining positions showed a remarkable difference in substrate specificity among subfamilies of JcAQPs. Genome-wide comparative analysis revealed the specific expansion of PIP and TIP subfamilies in rubber tree and the specific gene loss of the XIP subfamily in physic nut. Furthermore, by analyzing deep transcriptome sequencing data, the expression evolution especially the expression divergence of duplicated HbAQP genes was also investigated and discussed. Results obtained from this study not only provide valuable information for future functional analysis and utilization of Jc/HbAQP genes, but also provide a useful reference to survey the gene family expansion and evolution in Euphorbiaceae plants and other plant species.</p>
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<pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Front Plant Sci</journal-id>
<journal-id journal-id-type="iso-abbrev">Front Plant Sci</journal-id>
<journal-id journal-id-type="publisher-id">Front. Plant Sci.</journal-id>
<journal-title-group><journal-title>Frontiers in Plant Science</journal-title>
</journal-title-group>
<issn pub-type="epub">1664-462X</issn>
<publisher><publisher-name>Frontiers Media S.A.</publisher-name>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">27066041</article-id>
<article-id pub-id-type="pmc">4814485</article-id>
<article-id pub-id-type="doi">10.3389/fpls.2016.00395</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Plant Science</subject>
<subj-group><subject>Original Research</subject>
</subj-group>
</subj-group>
</article-categories>
<title-group><article-title>Genome-Wide Identification of <italic>Jatropha curcas</italic>
Aquaporin Genes and the Comparative Analysis Provides Insights into the Gene Family Expansion and Evolution in <italic>Hevea brasiliensis</italic>
</article-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Zou</surname>
<given-names>Zhi</given-names>
</name>
<xref ref-type="author-notes" rid="fn004"><sup>†</sup>
</xref>
<xref ref-type="author-notes" rid="fn001"><sup>*</sup>
</xref>
<uri xlink:type="simple" xlink:href="http://loop.frontiersin.org/people/300715/overview"></uri>
</contrib>
<contrib contrib-type="author"><name><surname>Yang</surname>
<given-names>Lifu</given-names>
</name>
<xref ref-type="author-notes" rid="fn004"><sup>†</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Gong</surname>
<given-names>Jun</given-names>
</name>
<xref ref-type="author-notes" rid="fn004"><sup>†</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Mo</surname>
<given-names>Yeyong</given-names>
</name>
</contrib>
<contrib contrib-type="author"><name><surname>Wang</surname>
<given-names>Jikun</given-names>
</name>
</contrib>
<contrib contrib-type="author"><name><surname>Cao</surname>
<given-names>Jianhua</given-names>
</name>
</contrib>
<contrib contrib-type="author"><name><surname>An</surname>
<given-names>Feng</given-names>
</name>
<uri xlink:type="simple" xlink:href="http://loop.frontiersin.org/people/325140/overview"></uri>
</contrib>
<contrib contrib-type="author"><name><surname>Xie</surname>
<given-names>Guishui</given-names>
</name>
<xref ref-type="author-notes" rid="fn002"><sup>*</sup>
</xref>
</contrib>
</contrib-group>
<aff><institution>Danzhou Investigation and Experiment Station of Tropical Crops, Ministry of Agriculture, Rubber Research Institute, Chinese Academy of Tropical Agricultural Sciences</institution>
<country>Danzhou, China</country>
</aff>
<author-notes><fn fn-type="edited-by"><p>Edited by: Rupesh Kailasrao Deshmukh, Laval University, Canada</p>
</fn>
<fn fn-type="edited-by"><p>Reviewed by: Gunvant Baliram Patil, University of Missouri, USA; Amit Atmaram Deokar, University of Saskatchewan, Canada</p>
</fn>
<corresp id="fn001">*Correspondence: Zhi Zou <email xlink:type="simple">zouzhi2008@126.com</email>
;</corresp>
<corresp id="fn002">Guishui Xie <email xlink:type="simple">xie23300459@163.com</email>
</corresp>
<fn fn-type="other" id="fn003"><p>This article was submitted to Plant Physiology, a section of the journal Frontiers in Plant Science</p>
</fn>
<fn fn-type="other" id="fn004"><p>†These authors have contributed equally to this work.</p>
</fn>
</author-notes>
<pub-date pub-type="epub"><day>31</day>
<month>3</month>
<year>2016</year>
</pub-date>
<pub-date pub-type="collection"><year>2016</year>
</pub-date>
<volume>7</volume>
<elocation-id>395</elocation-id>
<history><date date-type="received"><day>17</day>
<month>12</month>
<year>2015</year>
</date>
<date date-type="accepted"><day>14</day>
<month>3</month>
<year>2016</year>
</date>
</history>
<permissions><copyright-statement>Copyright © 2016 Zou, Yang, Gong, Mo, Wang, Cao, An and Xie.</copyright-statement>
<copyright-year>2016</copyright-year>
<copyright-holder>Zou, Yang, Gong, Mo, Wang, Cao, An and Xie</copyright-holder>
<license xlink:href="http://creativecommons.org/licenses/by/4.0/"><license-p>This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.</license-p>
</license>
</permissions>
<abstract><p>Aquaporins (AQPs) are channel-forming integral membrane proteins that transport water and other small solutes across biological membranes. Despite the vital role of AQPs, to date, little is known in physic nut (<italic>Jatropha curcas</italic>
L., Euphorbiaceae), an important non-edible oilseed crop with great potential for the production of biodiesel. In this study, 32 AQP genes were identified from the physic nut genome and the family number is relatively small in comparison to 51 in another Euphorbiaceae plant, rubber tree (<italic>Hevea brasiliensis</italic>
Muell. Arg.). Based on the phylogenetic analysis, the JcAQPs were assigned to five subfamilies, i.e., nine plasma membrane intrinsic proteins (PIPs), nine tonoplast intrinsic proteins (TIPs), eight NOD26-like intrinsic proteins (NIPs), two X intrinsic proteins (XIPs), and four small basic intrinsic proteins (SIPs). Like rubber tree and other plant species, functional prediction based on the aromatic/arginine selectivity filter, Froger's positions, and specificity-determining positions showed a remarkable difference in substrate specificity among subfamilies of JcAQPs. Genome-wide comparative analysis revealed the specific expansion of PIP and TIP subfamilies in rubber tree and the specific gene loss of the XIP subfamily in physic nut. Furthermore, by analyzing deep transcriptome sequencing data, the expression evolution especially the expression divergence of duplicated HbAQP genes was also investigated and discussed. Results obtained from this study not only provide valuable information for future functional analysis and utilization of Jc/HbAQP genes, but also provide a useful reference to survey the gene family expansion and evolution in Euphorbiaceae plants and other plant species.</p>
</abstract>
<kwd-group><kwd>physic nut (<italic>Jatropha curcas</italic>
L.)</kwd>
<kwd>rubber tree (<italic>Hevea brasiliensis</italic>
Muell. Arg.)</kwd>
<kwd>aquaporin</kwd>
<kwd>AQP gene family</kwd>
<kwd>expansion</kwd>
<kwd>evolution</kwd>
</kwd-group>
<counts><fig-count count="5"></fig-count>
<table-count count="4"></table-count>
<equation-count count="0"></equation-count>
<ref-count count="98"></ref-count>
<page-count count="18"></page-count>
<word-count count="13701"></word-count>
</counts>
</article-meta>
</front>
</pmc>
</record>
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