Genetic diversity of the conserved motifs of six bacterial leaf blight resistance genes in a set of rice landraces
Identifieur interne : 000085 ( Main/Exploration ); précédent : 000084; suivant : 000086Genetic diversity of the conserved motifs of six bacterial leaf blight resistance genes in a set of rice landraces
Auteurs : Basabdatta Das [Inde] ; Samik Sengupta [Inde] ; Manoj Prasad [Inde] ; Tapas Kumar Ghose [Inde]Source :
- BMC Genetics [ 1471-2156 ] ; 2014.
Abstract
Bacterial leaf blight (BLB) caused by the vascular pathogen
In this study 34 pairs of primers were designed from conserved domains of 6 BLB resistance genes;
This study revealed high genetic diversity at conserved domains of six BLB resistance genes in a set of 22 rice accessions. The inclusion of more genotypes from remote ecological niches and hotspots holds promise for identification of further genetic diversity at the BLB resistance genes.
Url:
DOI: 10.1186/1471-2156-15-82
PubMed: 25016378
PubMed Central: 4105243
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Genetic diversity of the conserved motifs of six bacterial leaf blight resistance genes in a set of rice landraces</title><author><name sortKey="Das, Basabdatta" sort="Das, Basabdatta" uniqKey="Das B" first="Basabdatta" last="Das">Basabdatta Das</name><affiliation wicri:level="1"><nlm:aff id="I1">Division of Plant Biology, Bose Institute, Main Campus, 93/1 A.P.C. Road, 700009 Kolkata, West Bengal, India</nlm:aff><country xml:lang="fr">Inde</country><wicri:regionArea>Division of Plant Biology, Bose Institute, Main Campus, 93/1 A.P.C. Road, 700009 Kolkata, West Bengal</wicri:regionArea></affiliation></author><author><name sortKey="Sengupta, Samik" sort="Sengupta, Samik" uniqKey="Sengupta S" first="Samik" last="Sengupta">Samik Sengupta</name><affiliation wicri:level="1"><nlm:aff id="I2">Department of Horticulture, Institute of Agricultural Science, University of Calcutta, 35, Balligunge Circular Road, 700029 Kolkata, West Bengal, India</nlm:aff><country xml:lang="fr">Inde</country><wicri:regionArea>Department of Horticulture, Institute of Agricultural Science, University of Calcutta, 35, Balligunge Circular Road, 700029 Kolkata, West Bengal</wicri:regionArea></affiliation></author><author><name sortKey="Prasad, Manoj" sort="Prasad, Manoj" uniqKey="Prasad M" first="Manoj" last="Prasad">Manoj Prasad</name><affiliation wicri:level="1"><nlm:aff id="I3">National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, 110067 New Delhi, India</nlm:aff><country xml:lang="fr">Inde</country><wicri:regionArea>National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, 110067 New Delhi</wicri:regionArea></affiliation></author><author><name sortKey="Ghose, Tapas Kumar" sort="Ghose, Tapas Kumar" uniqKey="Ghose T" first="Tapas Kumar" last="Ghose">Tapas Kumar Ghose</name><affiliation wicri:level="1"><nlm:aff id="I1">Division of Plant Biology, Bose Institute, Main Campus, 93/1 A.P.C. Road, 700009 Kolkata, West Bengal, India</nlm:aff><country xml:lang="fr">Inde</country><wicri:regionArea>Division of Plant Biology, Bose Institute, Main Campus, 93/1 A.P.C. Road, 700009 Kolkata, West Bengal</wicri:regionArea></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">25016378</idno><idno type="pmc">4105243</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4105243</idno><idno type="RBID">PMC:4105243</idno><idno type="doi">10.1186/1471-2156-15-82</idno><date when="2014">2014</date><idno type="wicri:Area/Pmc/Corpus">000201</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000201</idno><idno type="wicri:Area/Pmc/Curation">000201</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000201</idno><idno type="wicri:Area/Pmc/Checkpoint">000058</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000058</idno><idno type="wicri:Area/Ncbi/Merge">000340</idno><idno type="wicri:Area/Ncbi/Curation">000340</idno><idno type="wicri:Area/Ncbi/Checkpoint">000340</idno><idno type="wicri:Area/Main/Merge">000085</idno><idno type="wicri:Area/Main/Curation">000085</idno><idno type="wicri:Area/Main/Exploration">000085</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Genetic diversity of the conserved motifs of six bacterial leaf blight resistance genes in a set of rice landraces</title><author><name sortKey="Das, Basabdatta" sort="Das, Basabdatta" uniqKey="Das B" first="Basabdatta" last="Das">Basabdatta Das</name><affiliation wicri:level="1"><nlm:aff id="I1">Division of Plant Biology, Bose Institute, Main Campus, 93/1 A.P.C. Road, 700009 Kolkata, West Bengal, India</nlm:aff><country xml:lang="fr">Inde</country><wicri:regionArea>Division of Plant Biology, Bose Institute, Main Campus, 93/1 A.P.C. Road, 700009 Kolkata, West Bengal</wicri:regionArea></affiliation></author><author><name sortKey="Sengupta, Samik" sort="Sengupta, Samik" uniqKey="Sengupta S" first="Samik" last="Sengupta">Samik Sengupta</name><affiliation wicri:level="1"><nlm:aff id="I2">Department of Horticulture, Institute of Agricultural Science, University of Calcutta, 35, Balligunge Circular Road, 700029 Kolkata, West Bengal, India</nlm:aff><country xml:lang="fr">Inde</country><wicri:regionArea>Department of Horticulture, Institute of Agricultural Science, University of Calcutta, 35, Balligunge Circular Road, 700029 Kolkata, West Bengal</wicri:regionArea></affiliation></author><author><name sortKey="Prasad, Manoj" sort="Prasad, Manoj" uniqKey="Prasad M" first="Manoj" last="Prasad">Manoj Prasad</name><affiliation wicri:level="1"><nlm:aff id="I3">National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, 110067 New Delhi, India</nlm:aff><country xml:lang="fr">Inde</country><wicri:regionArea>National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, 110067 New Delhi</wicri:regionArea></affiliation></author><author><name sortKey="Ghose, Tapas Kumar" sort="Ghose, Tapas Kumar" uniqKey="Ghose T" first="Tapas Kumar" last="Ghose">Tapas Kumar Ghose</name><affiliation wicri:level="1"><nlm:aff id="I1">Division of Plant Biology, Bose Institute, Main Campus, 93/1 A.P.C. Road, 700009 Kolkata, West Bengal, India</nlm:aff><country xml:lang="fr">Inde</country><wicri:regionArea>Division of Plant Biology, Bose Institute, Main Campus, 93/1 A.P.C. Road, 700009 Kolkata, West Bengal</wicri:regionArea></affiliation></author></analytic><series><title level="j">BMC Genetics</title><idno type="eISSN">1471-2156</idno><imprint><date when="2014">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>Bacterial leaf blight (BLB) caused by the vascular pathogen <italic>Xanthomonas oryzae</italic> pv. <italic>oryzae</italic> (<italic>Xoo</italic>) is one of the most serious diseases leading to crop failure in rice growing countries. A total of 37 resistance genes against <italic>Xoo</italic> has been identified in rice. Of these, ten BLB resistance genes have been mapped on rice chromosomes, while 6 have been cloned, sequenced and characterized. Diversity analysis at the resistance gene level of this disease is scanty, and the landraces from West Bengal and North Eastern states of India have received little attention so far. The objective of this study was to assess the genetic diversity at conserved domains of 6 BLB resistance genes in a set of 22 rice accessions including landraces and check genotypes collected from the states of Assam, Nagaland, Mizoram and West Bengal.</p></sec><sec><title>Results</title><p>In this study 34 pairs of primers were designed from conserved domains of 6 BLB resistance genes; <italic>Xa1</italic>, <italic>xa5</italic>, <italic>Xa21</italic>, <italic>Xa21(A1)</italic>, <italic>Xa26</italic> and <italic>Xa27</italic>. The designed primer pairs were used to generate PCR based polymorphic DNA profiles to detect and elucidate the genetic diversity of the six genes in the 22 diverse rice accessions of known disease phenotype. A total of 140 alleles were identified including 41 rare and 26 null alleles. The average polymorphism information content (PIC) value was 0.56/primer pair. The DNA profiles identified each of the rice landraces unequivocally. The amplified polymorphic DNA bands were used to calculate genetic similarity of the rice landraces in all possible pair combinations. The similarity among the rice accessions ranged from 18% to 89% and the dendrogram produced from the similarity values was divided into 2 major clusters. The conserved domains identified within the sequenced rare alleles include Leucine-Rich Repeat, BED-type zinc finger domain, sugar transferase domain and the domain of the carbohydrate esterase 4 superfamily.</p></sec><sec><title>Conclusions</title><p>This study revealed high genetic diversity at conserved domains of six BLB resistance genes in a set of 22 rice accessions. 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uniqKey="Baiyashev R">RM Baiyashev</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Inde</li></country></list><tree><country name="Inde"><noRegion><name sortKey="Das, Basabdatta" sort="Das, Basabdatta" uniqKey="Das B" first="Basabdatta" last="Das">Basabdatta Das</name></noRegion><name sortKey="Ghose, Tapas Kumar" sort="Ghose, Tapas Kumar" uniqKey="Ghose T" first="Tapas Kumar" last="Ghose">Tapas Kumar Ghose</name><name sortKey="Prasad, Manoj" sort="Prasad, Manoj" uniqKey="Prasad M" first="Manoj" last="Prasad">Manoj Prasad</name><name sortKey="Sengupta, Samik" sort="Sengupta, Samik" uniqKey="Sengupta S" first="Samik" last="Sengupta">Samik Sengupta</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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