Major haplotype divergence including multiple germin-like protein genes, at the wheat Sr2 adult plant stem rust resistance locus
Identifieur interne : 000A90 ( Pmc/Curation ); précédent : 000A89; suivant : 000A91Major haplotype divergence including multiple germin-like protein genes, at the wheat Sr2 adult plant stem rust resistance locus
Auteurs : Rohit Mago ; Linda Tabe ; Sonia Vautrin [France] ; Hana Šimková [République tchèque] ; Marie Kubaláková [République tchèque] ; Narayana Upadhyaya ; Hélène Berges [France] ; Xiuying Kong [République populaire de Chine] ; James Breen ; Jaroslav Doležel [République tchèque] ; Rudi Appels ; Jeffrey G. Ellis ; Wolfgang SpielmeyerSource :
- BMC Plant Biology [ 1471-2229 ] ; 2014.
Abstract
The adult plant stem rust resistance gene
Physical mapping and sequence comparison showed major haplotype divergence at the
The online version of this article (doi:10.1186/s12870-014-0379-z) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/s12870-014-0379-z
PubMed: 25547135
PubMed Central: 4305260
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Rohit Mago<affiliation><nlm:aff id="Aff1">CSIRO Agriculture Flagship, Canberra, ACT 2601 Australia</nlm:aff>
<wicri:noCountry code="subfield">ACT 2601 Australia</wicri:noCountry>
</affiliation>
<affiliation><nlm:aff id="Aff1">CSIRO Agriculture Flagship, Canberra, ACT 2601 Australia</nlm:aff>
<wicri:noCountry code="subfield">ACT 2601 Australia</wicri:noCountry>
</affiliation>
<affiliation><nlm:aff id="Aff1">CSIRO Agriculture Flagship, Canberra, ACT 2601 Australia</nlm:aff>
<wicri:noCountry code="subfield">ACT 2601 Australia</wicri:noCountry>
</affiliation>
<affiliation><nlm:aff id="Aff5">Centre for Comparative Genomics, Murdoch University, Murdoch, 6150 WA Australia</nlm:aff>
<wicri:noCountry code="subfield">6150 WA Australia</wicri:noCountry>
</affiliation>
<affiliation><nlm:aff id="Aff6">Current address: Australian Centre for Ancient DNA (ACAD), University of Adelaide, Adelaide, SA 5005 Australia</nlm:aff>
<wicri:noCountry code="subfield">SA 5005 Australia</wicri:noCountry>
</affiliation>
<affiliation><nlm:aff id="Aff6">Current address: Australian Centre for Ancient DNA (ACAD), University of Adelaide, Adelaide, SA 5005 Australia</nlm:aff>
<wicri:noCountry code="subfield">SA 5005 Australia</wicri:noCountry>
</affiliation>
<affiliation><nlm:aff id="Aff5">Centre for Comparative Genomics, Murdoch University, Murdoch, 6150 WA Australia</nlm:aff>
<wicri:noCountry code="subfield">6150 WA Australia</wicri:noCountry>
</affiliation>
<affiliation><nlm:aff id="Aff1">CSIRO Agriculture Flagship, Canberra, ACT 2601 Australia</nlm:aff>
<wicri:noCountry code="subfield">ACT 2601 Australia</wicri:noCountry>
</affiliation>
<affiliation><nlm:aff id="Aff1">CSIRO Agriculture Flagship, Canberra, ACT 2601 Australia</nlm:aff>
<wicri:noCountry code="subfield">ACT 2601 Australia</wicri:noCountry>
</affiliation>
Le document en format XML
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Major haplotype divergence including multiple germin-like protein genes, at the wheat <italic>Sr2</italic>
adult plant stem rust resistance locus</title>
<author><name sortKey="Mago, Rohit" sort="Mago, Rohit" uniqKey="Mago R" first="Rohit" last="Mago">Rohit Mago</name>
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<wicri:noCountry code="subfield">ACT 2601 Australia</wicri:noCountry>
</affiliation>
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<author><name sortKey="Tabe, Linda" sort="Tabe, Linda" uniqKey="Tabe L" first="Linda" last="Tabe">Linda Tabe</name>
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<wicri:noCountry code="subfield">ACT 2601 Australia</wicri:noCountry>
</affiliation>
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<author><name sortKey="Vautrin, Sonia" sort="Vautrin, Sonia" uniqKey="Vautrin S" first="Sonia" last="Vautrin">Sonia Vautrin</name>
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<wicri:regionArea>INRA – CNRGV, 24 Chemin de Borde Rouge, Auzeville, CS 52627, 31326 Castanet Tolosan Cedex</wicri:regionArea>
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<author><name sortKey="Simkova, Hana" sort="Simkova, Hana" uniqKey="Simkova H" first="Hana" last="Šimková">Hana Šimková</name>
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<country xml:lang="fr">République tchèque</country>
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</affiliation>
</author>
<author><name sortKey="Kubalakova, Marie" sort="Kubalakova, Marie" uniqKey="Kubalakova M" first="Marie" last="Kubaláková">Marie Kubaláková</name>
<affiliation wicri:level="1"><nlm:aff id="Aff3">Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, CZ-78371 Olomouc, Czech Republic</nlm:aff>
<country xml:lang="fr">République tchèque</country>
<wicri:regionArea>Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, CZ-78371 Olomouc</wicri:regionArea>
</affiliation>
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<author><name sortKey="Upadhyaya, Narayana" sort="Upadhyaya, Narayana" uniqKey="Upadhyaya N" first="Narayana" last="Upadhyaya">Narayana Upadhyaya</name>
<affiliation><nlm:aff id="Aff1">CSIRO Agriculture Flagship, Canberra, ACT 2601 Australia</nlm:aff>
<wicri:noCountry code="subfield">ACT 2601 Australia</wicri:noCountry>
</affiliation>
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<author><name sortKey="Berges, Helene" sort="Berges, Helene" uniqKey="Berges H" first="Hélène" last="Berges">Hélène Berges</name>
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<author><name sortKey="Kong, Xiuying" sort="Kong, Xiuying" uniqKey="Kong X" first="Xiuying" last="Kong">Xiuying Kong</name>
<affiliation wicri:level="1"><nlm:aff id="Aff4">Key Laboratory of Crop Germplasm Resources and Utilization, MOA/Institute of Crop Sciences, CAAS/The Key Facility for Crop Gene Resources and Genetic Improvement, Beijing, 100081 PR China</nlm:aff>
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<wicri:regionArea>Key Laboratory of Crop Germplasm Resources and Utilization, MOA/Institute of Crop Sciences, CAAS/The Key Facility for Crop Gene Resources and Genetic Improvement, Beijing</wicri:regionArea>
</affiliation>
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<author><name sortKey="Breen, James" sort="Breen, James" uniqKey="Breen J" first="James" last="Breen">James Breen</name>
<affiliation><nlm:aff id="Aff5">Centre for Comparative Genomics, Murdoch University, Murdoch, 6150 WA Australia</nlm:aff>
<wicri:noCountry code="subfield">6150 WA Australia</wicri:noCountry>
</affiliation>
<affiliation><nlm:aff id="Aff6">Current address: Australian Centre for Ancient DNA (ACAD), University of Adelaide, Adelaide, SA 5005 Australia</nlm:aff>
<wicri:noCountry code="subfield">SA 5005 Australia</wicri:noCountry>
</affiliation>
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<author><name sortKey="Dolezel, Jaroslav" sort="Dolezel, Jaroslav" uniqKey="Dolezel J" first="Jaroslav" last="Doležel">Jaroslav Doležel</name>
<affiliation wicri:level="1"><nlm:aff id="Aff3">Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, CZ-78371 Olomouc, Czech Republic</nlm:aff>
<country xml:lang="fr">République tchèque</country>
<wicri:regionArea>Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, CZ-78371 Olomouc</wicri:regionArea>
</affiliation>
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<author><name sortKey="Appels, Rudi" sort="Appels, Rudi" uniqKey="Appels R" first="Rudi" last="Appels">Rudi Appels</name>
<affiliation><nlm:aff id="Aff5">Centre for Comparative Genomics, Murdoch University, Murdoch, 6150 WA Australia</nlm:aff>
<wicri:noCountry code="subfield">6150 WA Australia</wicri:noCountry>
</affiliation>
</author>
<author><name sortKey="Ellis, Jeffrey G" sort="Ellis, Jeffrey G" uniqKey="Ellis J" first="Jeffrey G" last="Ellis">Jeffrey G. Ellis</name>
<affiliation><nlm:aff id="Aff1">CSIRO Agriculture Flagship, Canberra, ACT 2601 Australia</nlm:aff>
<wicri:noCountry code="subfield">ACT 2601 Australia</wicri:noCountry>
</affiliation>
</author>
<author><name sortKey="Spielmeyer, Wolfgang" sort="Spielmeyer, Wolfgang" uniqKey="Spielmeyer W" first="Wolfgang" last="Spielmeyer">Wolfgang Spielmeyer</name>
<affiliation><nlm:aff id="Aff1">CSIRO Agriculture Flagship, Canberra, ACT 2601 Australia</nlm:aff>
<wicri:noCountry code="subfield">ACT 2601 Australia</wicri:noCountry>
</affiliation>
</author>
</analytic>
<series><title level="j">BMC Plant Biology</title>
<idno type="eISSN">1471-2229</idno>
<imprint><date when="2014">2014</date>
</imprint>
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<front><div type="abstract" xml:lang="en"><sec><title>Background</title>
<p>The adult plant stem rust resistance gene <italic>Sr2</italic>
was introgressed into hexaploid wheat cultivar (cv) Marquis from tetraploid emmer wheat cv Yaroslav, to generate stem rust resistant cv Hope in the 1920s. Subsequently, <italic>Sr2</italic>
has been widely deployed and has provided durable partial resistance to all known races of <italic>Puccinia graminis</italic>
f. sp. <italic>tritici</italic>
. This report describes the physical map of the <italic>Sr2</italic>
-carrying region on the short arm of chromosome 3B of cv Hope and compares the Hope haplotype with non-<italic>Sr2</italic>
wheat cv Chinese Spring.</p>
</sec>
<sec><title>Results</title>
<p><italic>Sr2</italic>
was located to a region of 867 kb on chromosome 3B in Hope, which corresponded to a region of 567 kb in Chinese Spring. The Hope <italic>Sr2</italic>
region carried 34 putative genes but only 17 were annotated in the comparable region of Chinese Spring. The two haplotypes differed by extensive DNA sequence polymorphisms between flanking markers as well as by a major insertion/deletion event including ten Germin-Like Protein (GLP) genes in Hope that were absent in Chinese Spring. Haplotype analysis of a limited number of wheat genotypes of interest showed that all wheat genotypes carrying <italic>Sr2</italic>
possessed the GLP cluster; while, of those lacking <italic>Sr2</italic>
, some, including Marquis, possessed the cluster, while some lacked it. Thus, this region represents a common presence-absence polymorphism in wheat, with presence of the cluster not correlated with presence of <italic>Sr2</italic>
. Comparison of Hope and Marquis GLP genes on 3BS found no polymorphisms in the coding regions of the ten genes but several SNPs in the shared promoter of one divergently transcribed GLP gene pair and a single SNP downstream of the transcribed region of a second GLP.</p>
</sec>
<sec><title>Conclusion</title>
<p>Physical mapping and sequence comparison showed major haplotype divergence at the <italic>Sr2</italic>
locus between Hope and Chinese Spring. Candidate genes within the <italic>Sr2</italic>
region of Hope are being evaluated for the ability to confer stem rust resistance. Based on the detailed mapping and sequencing of the locus, we predict that <italic>Sr2</italic>
does not belong to the NB-LRR gene family and is not related to previously cloned, race non-specific rust resistance genes <italic>Lr34</italic>
and <italic>Yr36</italic>
.</p>
</sec>
<sec><title>Electronic supplementary material</title>
<p>The online version of this article (doi:10.1186/s12870-014-0379-z) contains supplementary material, which is available to authorized users.</p>
</sec>
</div>
</front>
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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">BMC Plant Biol</journal-id>
<journal-id journal-id-type="iso-abbrev">BMC Plant Biol</journal-id>
<journal-title-group><journal-title>BMC Plant Biology</journal-title>
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<issn pub-type="epub">1471-2229</issn>
<publisher><publisher-name>BioMed Central</publisher-name>
<publisher-loc>London</publisher-loc>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">25547135</article-id>
<article-id pub-id-type="pmc">4305260</article-id>
<article-id pub-id-type="publisher-id">379</article-id>
<article-id pub-id-type="doi">10.1186/s12870-014-0379-z</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Research Article</subject>
</subj-group>
</article-categories>
<title-group><article-title>Major haplotype divergence including multiple germin-like protein genes, at the wheat <italic>Sr2</italic>
adult plant stem rust resistance locus</article-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>Mago</surname>
<given-names>Rohit</given-names>
</name>
<address><email>rohit.mago@csiro.au</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Tabe</surname>
<given-names>Linda</given-names>
</name>
<address><email>linda.tabe@csiro.au</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Vautrin</surname>
<given-names>Sonia</given-names>
</name>
<address><email>sonia.vautrin@toulouse.inra.fr</email>
</address>
<xref ref-type="aff" rid="Aff2"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Šimková</surname>
<given-names>Hana</given-names>
</name>
<address><email>simkovah@ueb.cas.cz</email>
</address>
<xref ref-type="aff" rid="Aff3"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Kubaláková</surname>
<given-names>Marie</given-names>
</name>
<address><email>mariek@ueb.cas.cz</email>
</address>
<xref ref-type="aff" rid="Aff3"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Upadhyaya</surname>
<given-names>Narayana</given-names>
</name>
<address><email>narayana.upadhyaya@csiro.au</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Berges</surname>
<given-names>Hélène</given-names>
</name>
<address><email>helene.berges@toulouse.inra.fr</email>
</address>
<xref ref-type="aff" rid="Aff2"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Kong</surname>
<given-names>Xiuying</given-names>
</name>
<address><email>xykong@mail.caas.net.cn</email>
</address>
<xref ref-type="aff" rid="Aff4"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Breen</surname>
<given-names>James</given-names>
</name>
<address><email>jimmy.breen@adelaide.edu.au</email>
</address>
<xref ref-type="aff" rid="Aff5"></xref>
<xref ref-type="aff" rid="Aff6"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Doležel</surname>
<given-names>Jaroslav</given-names>
</name>
<address><email>dolezel@ueb.cas.cz</email>
</address>
<xref ref-type="aff" rid="Aff3"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Appels</surname>
<given-names>Rudi</given-names>
</name>
<address><email>rudiappels5@gmail.com</email>
</address>
<xref ref-type="aff" rid="Aff5"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Ellis</surname>
<given-names>Jeffrey G</given-names>
</name>
<address><email>jeff.ellis@csiro.au</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author" corresp="yes"><name><surname>Spielmeyer</surname>
<given-names>Wolfgang</given-names>
</name>
<address><email>wolfgang.spielmeyer@csiro.au</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<aff id="Aff1"><label></label>
CSIRO Agriculture Flagship, Canberra, ACT 2601 Australia</aff>
<aff id="Aff2"><label></label>
INRA – CNRGV, 24 Chemin de Borde Rouge, Auzeville, CS 52627, 31326 Castanet Tolosan Cedex, France</aff>
<aff id="Aff3"><label></label>
Institute of Experimental Botany, Centre of the Region Haná for Biotechnological and Agricultural Research, Šlechtitelů 31, CZ-78371 Olomouc, Czech Republic</aff>
<aff id="Aff4"><label></label>
Key Laboratory of Crop Germplasm Resources and Utilization, MOA/Institute of Crop Sciences, CAAS/The Key Facility for Crop Gene Resources and Genetic Improvement, Beijing, 100081 PR China</aff>
<aff id="Aff5"><label></label>
Centre for Comparative Genomics, Murdoch University, Murdoch, 6150 WA Australia</aff>
<aff id="Aff6"><label></label>
Current address: Australian Centre for Ancient DNA (ACAD), University of Adelaide, Adelaide, SA 5005 Australia</aff>
</contrib-group>
<pub-date pub-type="epub"><day>30</day>
<month>12</month>
<year>2014</year>
</pub-date>
<pub-date pub-type="pmc-release"><day>30</day>
<month>12</month>
<year>2014</year>
</pub-date>
<pub-date pub-type="collection"><year>2014</year>
</pub-date>
<volume>14</volume>
<elocation-id>379</elocation-id>
<history><date date-type="received"><day>3</day>
<month>8</month>
<year>2014</year>
</date>
<date date-type="accepted"><day>11</day>
<month>12</month>
<year>2014</year>
</date>
</history>
<permissions><copyright-statement>© Mago et al.; licensee BioMed Central. 2014</copyright-statement>
<license license-type="open-access"><license-p>This is an Open Access article distributed under the terms of the Creative Commons Attribution License (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by/4.0">http://creativecommons.org/licenses/by/4.0</ext-link>
), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/publicdomain/zero/1.0/">http://creativecommons.org/publicdomain/zero/1.0/</ext-link>
) applies to the data made available in this article, unless otherwise stated.</license-p>
</license>
</permissions>
<abstract id="Abs1"><sec><title>Background</title>
<p>The adult plant stem rust resistance gene <italic>Sr2</italic>
was introgressed into hexaploid wheat cultivar (cv) Marquis from tetraploid emmer wheat cv Yaroslav, to generate stem rust resistant cv Hope in the 1920s. Subsequently, <italic>Sr2</italic>
has been widely deployed and has provided durable partial resistance to all known races of <italic>Puccinia graminis</italic>
f. sp. <italic>tritici</italic>
. This report describes the physical map of the <italic>Sr2</italic>
-carrying region on the short arm of chromosome 3B of cv Hope and compares the Hope haplotype with non-<italic>Sr2</italic>
wheat cv Chinese Spring.</p>
</sec>
<sec><title>Results</title>
<p><italic>Sr2</italic>
was located to a region of 867 kb on chromosome 3B in Hope, which corresponded to a region of 567 kb in Chinese Spring. The Hope <italic>Sr2</italic>
region carried 34 putative genes but only 17 were annotated in the comparable region of Chinese Spring. The two haplotypes differed by extensive DNA sequence polymorphisms between flanking markers as well as by a major insertion/deletion event including ten Germin-Like Protein (GLP) genes in Hope that were absent in Chinese Spring. Haplotype analysis of a limited number of wheat genotypes of interest showed that all wheat genotypes carrying <italic>Sr2</italic>
possessed the GLP cluster; while, of those lacking <italic>Sr2</italic>
, some, including Marquis, possessed the cluster, while some lacked it. Thus, this region represents a common presence-absence polymorphism in wheat, with presence of the cluster not correlated with presence of <italic>Sr2</italic>
. Comparison of Hope and Marquis GLP genes on 3BS found no polymorphisms in the coding regions of the ten genes but several SNPs in the shared promoter of one divergently transcribed GLP gene pair and a single SNP downstream of the transcribed region of a second GLP.</p>
</sec>
<sec><title>Conclusion</title>
<p>Physical mapping and sequence comparison showed major haplotype divergence at the <italic>Sr2</italic>
locus between Hope and Chinese Spring. Candidate genes within the <italic>Sr2</italic>
region of Hope are being evaluated for the ability to confer stem rust resistance. Based on the detailed mapping and sequencing of the locus, we predict that <italic>Sr2</italic>
does not belong to the NB-LRR gene family and is not related to previously cloned, race non-specific rust resistance genes <italic>Lr34</italic>
and <italic>Yr36</italic>
.</p>
</sec>
<sec><title>Electronic supplementary material</title>
<p>The online version of this article (doi:10.1186/s12870-014-0379-z) contains supplementary material, which is available to authorized users.</p>
</sec>
</abstract>
<kwd-group xml:lang="en"><title>Keywords</title>
<kwd>Adult plant resistance (APR)</kwd>
<kwd>Map-based cloning</kwd>
<kwd><italic>Sr2</italic>
</kwd>
<kwd>Germin-like proteins (GLPs)</kwd>
<kwd>Wheat stem rust</kwd>
<kwd><italic>Puccinia graminis</italic>
</kwd>
<kwd>Physical mapping</kwd>
<kwd>Gene expression</kwd>
</kwd-group>
<custom-meta-group><custom-meta><meta-name>issue-copyright-statement</meta-name>
<meta-value>© The Author(s) 2014</meta-value>
</custom-meta>
</custom-meta-group>
</article-meta>
</front>
</pmc>
</record>
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