New insights into the evolutionary history of plant sorbitol dehydrogenase
Identifieur interne : 000527 ( Main/Exploration ); précédent : 000526; suivant : 000528New insights into the evolutionary history of plant sorbitol dehydrogenase
Auteurs : Yong Jia [Australie] ; Darren Cj Wong [Australie] ; Crystal Sweetman [Australie] ; John B. Bruning [Australie] ; Christopher M. Ford [Australie]Source :
- BMC Plant Biology [ 1471-2229 ] ; 2015.
English descriptors
- KwdEn :
- Amino Acid Sequence, Angiosperms (genetics), Angiosperms (metabolism), Biological Evolution, Evolution, Molecular, Gene Expression Regulation, Plant, L-Iditol 2-Dehydrogenase (genetics), L-Iditol 2-Dehydrogenase (metabolism), Molecular Sequence Data, Phylogeny, Plant Proteins (genetics), Plant Proteins (metabolism), Sequence Alignment, Vitis (genetics), Vitis (metabolism).
- MESH :
- chemical , genetics : L-Iditol 2-Dehydrogenase, Plant Proteins.
- genetics : Angiosperms, Vitis.
- metabolism : Angiosperms, L-Iditol 2-Dehydrogenase, Plant Proteins, Vitis.
- Amino Acid Sequence, Biological Evolution, Evolution, Molecular, Gene Expression Regulation, Plant, Molecular Sequence Data, Phylogeny, Sequence Alignment.
Abstract
Sorbitol dehydrogenase (SDH, EC 1.1.1.14) is the key enzyme involved in sorbitol metabolism in higher plants. SDH genes in some
A total of 92 SDH genes were identified from 42 angiosperm species. SDH genes have been highly duplicated within the
Phylogenetic, natural selection and synteny analyses provided strong support for the emergence of SDH Class II by positive natural selection after tandem duplication in the common ancestor of core Eudicot plants. The substitutions of three putative active site residues might be responsible for the unique enzyme activity of
The online version of this article (doi:10.1186/s12870-015-0478-5) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/s12870-015-0478-5
PubMed: 25879735
PubMed Central: 4404067
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">New insights into the evolutionary history of plant sorbitol dehydrogenase</title><author><name sortKey="Jia, Yong" sort="Jia, Yong" uniqKey="Jia Y" first="Yong" last="Jia">Yong Jia</name><affiliation wicri:level="1"><nlm:aff id="Aff1">School of Agriculture, Food and Wine, University of Adelaide, Adelaide, 5005 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>School of Agriculture, Food and Wine, University of Adelaide, Adelaide</wicri:regionArea><wicri:noRegion>Adelaide</wicri:noRegion></affiliation></author><author><name sortKey="Wong, Darren Cj" sort="Wong, Darren Cj" uniqKey="Wong D" first="Darren Cj" last="Wong">Darren Cj Wong</name><affiliation wicri:level="1"><nlm:aff id="Aff1">School of Agriculture, Food and Wine, University of Adelaide, Adelaide, 5005 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>School of Agriculture, Food and Wine, University of Adelaide, Adelaide</wicri:regionArea><wicri:noRegion>Adelaide</wicri:noRegion></affiliation><affiliation><nlm:aff id="Aff2">Present address: Wine Research Center, Faculty of Land and Food Systems, University of British Columbia, Vancouver, V6T 1Z4 BC Canada</nlm:aff><wicri:noCountry code="subfield">V6T 1Z4 BC Canada</wicri:noCountry></affiliation></author><author><name sortKey="Sweetman, Crystal" sort="Sweetman, Crystal" uniqKey="Sweetman C" first="Crystal" last="Sweetman">Crystal Sweetman</name><affiliation wicri:level="1"><nlm:aff id="Aff1">School of Agriculture, Food and Wine, University of Adelaide, Adelaide, 5005 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>School of Agriculture, Food and Wine, University of Adelaide, Adelaide</wicri:regionArea><wicri:noRegion>Adelaide</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="Aff3">Present address: School of Biological Sciences, Flinders University, GPO Box 2100, Adelaide, 5001 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>Present address: School of Biological Sciences, Flinders University, GPO Box 2100, Adelaide</wicri:regionArea><wicri:noRegion>Adelaide</wicri:noRegion></affiliation></author><author><name sortKey="Bruning, John B" sort="Bruning, John B" uniqKey="Bruning J" first="John B" last="Bruning">John B. 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Ford</name><affiliation wicri:level="1"><nlm:aff id="Aff1">School of Agriculture, Food and Wine, University of Adelaide, Adelaide, 5005 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>School of Agriculture, Food and Wine, University of Adelaide, Adelaide</wicri:regionArea><wicri:noRegion>Adelaide</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">25879735</idno><idno type="pmc">4404067</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4404067</idno><idno type="RBID">PMC:4404067</idno><idno type="doi">10.1186/s12870-015-0478-5</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">000626</idno><idno type="wicri:Area/Pmc/Curation">000625</idno><idno type="wicri:Area/Pmc/Checkpoint">000412</idno><idno type="wicri:source">PubMed</idno><idno type="wicri:Area/PubMed/Corpus">000189</idno><idno type="wicri:Area/PubMed/Curation">000189</idno><idno type="wicri:Area/PubMed/Checkpoint">000189</idno><idno type="wicri:Area/Ncbi/Merge">001A86</idno><idno type="wicri:Area/Ncbi/Curation">001A86</idno><idno type="wicri:Area/Ncbi/Checkpoint">001A86</idno><idno type="wicri:Area/Main/Merge">000527</idno><idno type="wicri:Area/Main/Curation">000527</idno><idno type="wicri:Area/Main/Exploration">000527</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">New insights into the evolutionary history of plant sorbitol dehydrogenase</title><author><name sortKey="Jia, Yong" sort="Jia, Yong" uniqKey="Jia Y" first="Yong" last="Jia">Yong Jia</name><affiliation wicri:level="1"><nlm:aff id="Aff1">School of Agriculture, Food and Wine, University of Adelaide, Adelaide, 5005 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>School of Agriculture, Food and Wine, University of Adelaide, Adelaide</wicri:regionArea><wicri:noRegion>Adelaide</wicri:noRegion></affiliation></author><author><name sortKey="Wong, Darren Cj" sort="Wong, Darren Cj" uniqKey="Wong D" first="Darren Cj" last="Wong">Darren Cj Wong</name><affiliation wicri:level="1"><nlm:aff id="Aff1">School of Agriculture, Food and Wine, University of Adelaide, Adelaide, 5005 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>School of Agriculture, Food and Wine, University of Adelaide, Adelaide</wicri:regionArea><wicri:noRegion>Adelaide</wicri:noRegion></affiliation><affiliation><nlm:aff id="Aff2">Present address: Wine Research Center, Faculty of Land and Food Systems, University of British Columbia, Vancouver, V6T 1Z4 BC Canada</nlm:aff><wicri:noCountry code="subfield">V6T 1Z4 BC Canada</wicri:noCountry></affiliation></author><author><name sortKey="Sweetman, Crystal" sort="Sweetman, Crystal" uniqKey="Sweetman C" first="Crystal" last="Sweetman">Crystal Sweetman</name><affiliation wicri:level="1"><nlm:aff id="Aff1">School of Agriculture, Food and Wine, University of Adelaide, Adelaide, 5005 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>School of Agriculture, Food and Wine, University of Adelaide, Adelaide</wicri:regionArea><wicri:noRegion>Adelaide</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="Aff3">Present address: School of Biological Sciences, Flinders University, GPO Box 2100, Adelaide, 5001 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>Present address: School of Biological Sciences, Flinders University, GPO Box 2100, Adelaide</wicri:regionArea><wicri:noRegion>Adelaide</wicri:noRegion></affiliation></author><author><name sortKey="Bruning, John B" sort="Bruning, John B" uniqKey="Bruning J" first="John B" last="Bruning">John B. Bruning</name><affiliation wicri:level="1"><nlm:aff id="Aff4">School of Biological Sciences, University of Adelaide, Adelaide, 5005 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>School of Biological Sciences, University of Adelaide, Adelaide</wicri:regionArea><wicri:noRegion>Adelaide</wicri:noRegion></affiliation></author><author><name sortKey="Ford, Christopher M" sort="Ford, Christopher M" uniqKey="Ford C" first="Christopher M" last="Ford">Christopher M. Ford</name><affiliation wicri:level="1"><nlm:aff id="Aff1">School of Agriculture, Food and Wine, University of Adelaide, Adelaide, 5005 Australia</nlm:aff><country xml:lang="fr">Australie</country><wicri:regionArea>School of Agriculture, Food and Wine, University of Adelaide, Adelaide</wicri:regionArea><wicri:noRegion>Adelaide</wicri:noRegion></affiliation></author></analytic><series><title level="j">BMC Plant Biology</title><idno type="eISSN">1471-2229</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Amino Acid Sequence</term><term>Angiosperms (genetics)</term><term>Angiosperms (metabolism)</term><term>Biological Evolution</term><term>Evolution, Molecular</term><term>Gene Expression Regulation, Plant</term><term>L-Iditol 2-Dehydrogenase (genetics)</term><term>L-Iditol 2-Dehydrogenase (metabolism)</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>Plant Proteins (genetics)</term><term>Plant Proteins (metabolism)</term><term>Sequence Alignment</term><term>Vitis (genetics)</term><term>Vitis (metabolism)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>L-Iditol 2-Dehydrogenase</term><term>Plant Proteins</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Angiosperms</term><term>Vitis</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Angiosperms</term><term>L-Iditol 2-Dehydrogenase</term><term>Plant Proteins</term><term>Vitis</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Amino Acid Sequence</term><term>Biological Evolution</term><term>Evolution, Molecular</term><term>Gene Expression Regulation, Plant</term><term>Molecular Sequence Data</term><term>Phylogeny</term><term>Sequence Alignment</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>Sorbitol dehydrogenase (SDH, EC 1.1.1.14) is the key enzyme involved in sorbitol metabolism in higher plants. SDH genes in some <italic>Rosaceae</italic> species could be divided into two groups. L-idonate-5-dehydrogenase (LIDH, EC 1.1.1.264) is involved in tartaric acid (TA) synthesis in <italic>Vitis vinifera</italic> and is highly homologous to plant SDHs. Despite efforts to understand the biological functions of plant SDH, the evolutionary history of plant SDH genes and their phylogenetic relationship with the <italic>V. vinifera</italic> LIDH gene have not been characterized.</p></sec><sec><title>Results</title><p>A total of 92 SDH genes were identified from 42 angiosperm species. SDH genes have been highly duplicated within the <italic>Rosaceae</italic> family while monocot, <italic>Brassicaceae</italic> and most <italic>Asterid</italic> species exhibit singleton SDH genes. Core Eudicot SDHs have diverged into two phylogenetic lineages, now classified as SDH Class I and SDH Class II. <italic>V. vinifera</italic> LIDH was identified as a Class II SDH. Tandem duplication played a dominant role in the expansion of plant SDH family and Class II SDH genes were positioned in tandem with Class I SDH genes in several plant genomes. Protein modelling analyses of <italic>V. vinifera</italic> SDHs revealed 19 putative active site residues, three of which exhibited amino acid substitutions between Class I and Class II SDHs and were influenced by positive natural selection in the SDH Class II lineage. Gene expression analyses also demonstrated a clear transcriptional divergence between Class I and Class II SDH genes in <italic>V. vinifera</italic> and <italic>Citrus sinensis</italic> (orange).</p></sec><sec><title>Conclusions</title><p>Phylogenetic, natural selection and synteny analyses provided strong support for the emergence of SDH Class II by positive natural selection after tandem duplication in the common ancestor of core Eudicot plants. The substitutions of three putative active site residues might be responsible for the unique enzyme activity of <italic>V. vinifera</italic> LIDH, which belongs to SDH Class II and represents a novel function of SDH in <italic>V. vinifera</italic> that may be true also of other Class II SDHs. Gene expression analyses also supported the divergence of SDH Class II at the expression level. This study will facilitate future research into understanding the biological functions of plant SDHs.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s12870-015-0478-5) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Iwata, T" uniqKey="Iwata T">T Iwata</name></author><author><name sortKey="Hoog, Jo" uniqKey="Hoog J">JO Hoog</name></author><author><name sortKey="Reddy, Vn" uniqKey="Reddy V">VN Reddy</name></author><author><name sortKey="Carper, D" uniqKey="Carper D">D Carper</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Karlsson, C" uniqKey="Karlsson C">C Karlsson</name></author><author><name sortKey="Jornvall, H" uniqKey="Jornvall H">H Jornvall</name></author><author><name sortKey="Hoog, Jo" uniqKey="Hoog J">JO 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sortKey="Filipski, A" uniqKey="Filipski A">A Filipski</name></author><author><name sortKey="Kumar, S" uniqKey="Kumar S">S Kumar</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Nei, M" uniqKey="Nei M">M Nei</name></author><author><name sortKey="Kumar, S" uniqKey="Kumar S">S Kumar</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Jones, Dt" uniqKey="Jones D">DT Jones</name></author><author><name sortKey="Taylor, Wr" uniqKey="Taylor W">WR Taylor</name></author><author><name sortKey="Thornton, Jm" uniqKey="Thornton J">JM Thornton</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Altschul, Sf" uniqKey="Altschul S">SF Altschul</name></author><author><name sortKey="Gish, W" uniqKey="Gish W">W Gish</name></author><author><name sortKey="Miller, W" uniqKey="Miller W">W Miller</name></author><author><name sortKey="Myers, Ew" uniqKey="Myers E">EW Myers</name></author><author><name sortKey="Lipman, Dj" uniqKey="Lipman D">DJ Lipman</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Wang, Yp" uniqKey="Wang Y">YP Wang</name></author><author><name sortKey="Tang, Hb" uniqKey="Tang H">HB Tang</name></author><author><name sortKey="Debarry, Jd" uniqKey="Debarry J">JD DeBarry</name></author><author><name sortKey="Tan, X" uniqKey="Tan X">X Tan</name></author><author><name sortKey="Li, Jp" uniqKey="Li J">JP Li</name></author><author><name sortKey="Wang, Xy" uniqKey="Wang X">XY Wang</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Abagyan, R" uniqKey="Abagyan R">R Abagyan</name></author><author><name sortKey="Totrov, M" uniqKey="Totrov M">M Totrov</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Reimand, J" uniqKey="Reimand J">J Reimand</name></author><author><name sortKey="Arak, T" uniqKey="Arak T">T Arak</name></author><author><name sortKey="Vilo, J" uniqKey="Vilo J">J Vilo</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Australie</li></country></list><tree><country name="Australie"><noRegion><name sortKey="Jia, Yong" sort="Jia, Yong" uniqKey="Jia Y" first="Yong" last="Jia">Yong Jia</name></noRegion><name sortKey="Bruning, John B" sort="Bruning, John B" uniqKey="Bruning J" first="John B" last="Bruning">John B. Bruning</name><name sortKey="Ford, Christopher M" sort="Ford, Christopher M" uniqKey="Ford C" first="Christopher M" last="Ford">Christopher M. Ford</name><name sortKey="Sweetman, Crystal" sort="Sweetman, Crystal" uniqKey="Sweetman C" first="Crystal" last="Sweetman">Crystal Sweetman</name><name sortKey="Sweetman, Crystal" sort="Sweetman, Crystal" uniqKey="Sweetman C" first="Crystal" last="Sweetman">Crystal Sweetman</name><name sortKey="Wong, Darren Cj" sort="Wong, Darren Cj" uniqKey="Wong D" first="Darren Cj" last="Wong">Darren Cj Wong</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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