Use of molecular markers in identification and characterization of resistance to rice blast in India
Rice blast disease caused by Magnaporthe oryzae is one of the most destructive disease causing huge losses to rice yield in different parts of the world. Therefore, an attempt has been made to find out the resistance by screening and studying the genetic diversity of eighty released rice varieties b...
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| creator | Yadav, Manoj Kumar S, Aravindan Ngangkham, Umakanta Shubudhi, H N Bag, Manas Kumar Adak, Totan Munda, Sushmita Samantaray, Sanghamitra Jena, Mayabini |
| description | Rice blast disease caused by Magnaporthe oryzae is one of the most destructive disease causing huge losses to rice yield in different parts of the world. Therefore, an attempt has been made to find out the resistance by screening and studying the genetic diversity of eighty released rice varieties by National Rice Research Institute, Cuttack (NRVs) using molecular markers linked to twelve major blast resistance (R) genes viz Pib, Piz, Piz-t, Pik, Pik-p, Pikm Pik-h, Pita/Pita-2, Pi2, Pi9, Pi1 and Pi5. Out of which, nineteen varieties (23.75%) showed resistance, twenty one were moderately resistant (26.25%) while remaining forty varieties (50%) showed susceptible in uniform blast nursery. Rice varieties possessing blast resistance genes varied from four to twelve and the frequencies of the resistance genes ranged from 0 to 100%. The cluster analysis grouped the eighty NRVs into two major clusters at 63% level of genetic similarity coefficient. The PIC value for seventeen markers varied from 0 to 0.37 at an average of 0.20. Out of seventeen markers, only five markers, 195R-1, Pi9-i, Pita3, YL155/YL87 and 40N23r corresponded to three broad spectrum R genes viz. Pi9, Pita/Pita2 and Pi5 were found to be significantly associated with the blast disease with explaining phenotypic variance from 3.5% to 7.7%. The population structure analysis and PCoA divided the entire 80 NRVs into two sub-groups. The outcome of this study would help to formulate strategies for improving rice blast resistance through genetic studies, plant-pathogen interaction, identification of novel R genes, development of new resistant varieties through marker-assisted breeding for improving rice blast resistance in India and worldwide. |
| doi_str_mv | 10.1371/journal.pone.0176236 |
| format | Article |
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Therefore, an attempt has been made to find out the resistance by screening and studying the genetic diversity of eighty released rice varieties by National Rice Research Institute, Cuttack (NRVs) using molecular markers linked to twelve major blast resistance (R) genes viz Pib, Piz, Piz-t, Pik, Pik-p, Pikm Pik-h, Pita/Pita-2, Pi2, Pi9, Pi1 and Pi5. Out of which, nineteen varieties (23.75%) showed resistance, twenty one were moderately resistant (26.25%) while remaining forty varieties (50%) showed susceptible in uniform blast nursery. Rice varieties possessing blast resistance genes varied from four to twelve and the frequencies of the resistance genes ranged from 0 to 100%. The cluster analysis grouped the eighty NRVs into two major clusters at 63% level of genetic similarity coefficient. The PIC value for seventeen markers varied from 0 to 0.37 at an average of 0.20. Out of seventeen markers, only five markers, 195R-1, Pi9-i, Pita3, YL155/YL87 and 40N23r corresponded to three broad spectrum R genes viz. Pi9, Pita/Pita2 and Pi5 were found to be significantly associated with the blast disease with explaining phenotypic variance from 3.5% to 7.7%. The population structure analysis and PCoA divided the entire 80 NRVs into two sub-groups. The outcome of this study would help to formulate strategies for improving rice blast resistance through genetic studies, plant-pathogen interaction, identification of novel R genes, development of new resistant varieties through marker-assisted breeding for improving rice blast resistance in India and worldwide.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0176236</identifier><identifier>PMID: 28445532</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Agronomy ; Alleles ; Analysis ; Antibodies ; Binding sites ; Biodiversity ; Biology ; Biology and Life Sciences ; Borders ; Breeding ; Calories ; Chemical control ; Chromosome 3 ; Chromosomes ; Classification ; Cloning ; Cluster Analysis ; Cost engineering ; Crop yield ; Crops ; Cultivars ; Cultivation ; Disease control ; Disease resistance ; Disease Resistance - genetics ; Earth Sciences ; Ecology ; Ecology and Environmental Sciences ; Environmental conditions ; Finger ; Food ; Fungi ; Gene Frequency ; Gene mapping ; Genes ; Genes, Plant ; Genetic control ; Genetic diversity ; Genetic Markers - genetics ; Genetic Variation ; Genetics ; Genomics ; Genotypes ; Grain ; Growth hormone ; High resolution ; Hybrids ; India ; Infections ; Leaves ; Leucine ; Magnaporthe - pathogenicity ; Mapping ; Markers ; Microbial drug resistance ; Millet ; Molecular biology ; Nodes ; Oryza - genetics ; pH effects ; Phenotype ; Physical mapping ; Physiological aspects ; Plant breeding ; Plant Diseases - genetics ; Plant pathology ; Plant Proteins - genetics ; Plants ; Polymerase chain reaction ; Population structure ; Populations ; Research and Analysis Methods ; Rice ; Rice blast disease ; Rice yield ; Row spacing ; Scanning ; Seasons ; Seedlings ; Selective breeding ; Stresses ; Virulence ; World population ; Yield</subject><ispartof>PloS one, 2017-04, Vol.12 (4), p.e0176236-e0176236</ispartof><rights>COPYRIGHT 2017 Public Library of Science</rights><rights>2017 Yadav et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2017 Yadav et al 2017 Yadav et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c692t-abfe9bb445bc6681f76b0bec33e1d17ed2a84ce29ddb2c090a6bb91d3622aba23</citedby><cites>FETCH-LOGICAL-c692t-abfe9bb445bc6681f76b0bec33e1d17ed2a84ce29ddb2c090a6bb91d3622aba23</cites><orcidid>0000-0002-5771-0770</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5405977/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5405977/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2095,2914,23846,27903,27904,53769,53771,79346,79347</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/28445532$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Wang, Zonghua</contributor><creatorcontrib>Yadav, Manoj Kumar</creatorcontrib><creatorcontrib>S, Aravindan</creatorcontrib><creatorcontrib>Ngangkham, Umakanta</creatorcontrib><creatorcontrib>Shubudhi, H N</creatorcontrib><creatorcontrib>Bag, Manas Kumar</creatorcontrib><creatorcontrib>Adak, Totan</creatorcontrib><creatorcontrib>Munda, Sushmita</creatorcontrib><creatorcontrib>Samantaray, Sanghamitra</creatorcontrib><creatorcontrib>Jena, Mayabini</creatorcontrib><title>Use of molecular markers in identification and characterization of resistance to rice blast in India</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Rice blast disease caused by Magnaporthe oryzae is one of the most destructive disease causing huge losses to rice yield in different parts of the world. Therefore, an attempt has been made to find out the resistance by screening and studying the genetic diversity of eighty released rice varieties by National Rice Research Institute, Cuttack (NRVs) using molecular markers linked to twelve major blast resistance (R) genes viz Pib, Piz, Piz-t, Pik, Pik-p, Pikm Pik-h, Pita/Pita-2, Pi2, Pi9, Pi1 and Pi5. Out of which, nineteen varieties (23.75%) showed resistance, twenty one were moderately resistant (26.25%) while remaining forty varieties (50%) showed susceptible in uniform blast nursery. Rice varieties possessing blast resistance genes varied from four to twelve and the frequencies of the resistance genes ranged from 0 to 100%. The cluster analysis grouped the eighty NRVs into two major clusters at 63% level of genetic similarity coefficient. The PIC value for seventeen markers varied from 0 to 0.37 at an average of 0.20. Out of seventeen markers, only five markers, 195R-1, Pi9-i, Pita3, YL155/YL87 and 40N23r corresponded to three broad spectrum R genes viz. Pi9, Pita/Pita2 and Pi5 were found to be significantly associated with the blast disease with explaining phenotypic variance from 3.5% to 7.7%. The population structure analysis and PCoA divided the entire 80 NRVs into two sub-groups. The outcome of this study would help to formulate strategies for improving rice blast resistance through genetic studies, plant-pathogen interaction, identification of novel R genes, development of new resistant varieties through marker-assisted breeding for improving rice blast resistance in India and worldwide.</description><subject>Agronomy</subject><subject>Alleles</subject><subject>Analysis</subject><subject>Antibodies</subject><subject>Binding sites</subject><subject>Biodiversity</subject><subject>Biology</subject><subject>Biology and Life Sciences</subject><subject>Borders</subject><subject>Breeding</subject><subject>Calories</subject><subject>Chemical control</subject><subject>Chromosome 3</subject><subject>Chromosomes</subject><subject>Classification</subject><subject>Cloning</subject><subject>Cluster Analysis</subject><subject>Cost engineering</subject><subject>Crop yield</subject><subject>Crops</subject><subject>Cultivars</subject><subject>Cultivation</subject><subject>Disease control</subject><subject>Disease resistance</subject><subject>Disease Resistance - genetics</subject><subject>Earth Sciences</subject><subject>Ecology</subject><subject>Ecology and Environmental Sciences</subject><subject>Environmental conditions</subject><subject>Finger</subject><subject>Food</subject><subject>Fungi</subject><subject>Gene Frequency</subject><subject>Gene mapping</subject><subject>Genes</subject><subject>Genes, Plant</subject><subject>Genetic control</subject><subject>Genetic diversity</subject><subject>Genetic Markers - genetics</subject><subject>Genetic Variation</subject><subject>Genetics</subject><subject>Genomics</subject><subject>Genotypes</subject><subject>Grain</subject><subject>Growth hormone</subject><subject>High resolution</subject><subject>Hybrids</subject><subject>India</subject><subject>Infections</subject><subject>Leaves</subject><subject>Leucine</subject><subject>Magnaporthe - pathogenicity</subject><subject>Mapping</subject><subject>Markers</subject><subject>Microbial drug resistance</subject><subject>Millet</subject><subject>Molecular biology</subject><subject>Nodes</subject><subject>Oryza - genetics</subject><subject>pH effects</subject><subject>Phenotype</subject><subject>Physical mapping</subject><subject>Physiological aspects</subject><subject>Plant breeding</subject><subject>Plant Diseases - genetics</subject><subject>Plant pathology</subject><subject>Plant Proteins - genetics</subject><subject>Plants</subject><subject>Polymerase chain reaction</subject><subject>Population structure</subject><subject>Populations</subject><subject>Research and Analysis Methods</subject><subject>Rice</subject><subject>Rice blast disease</subject><subject>Rice yield</subject><subject>Row spacing</subject><subject>Scanning</subject><subject>Seasons</subject><subject>Seedlings</subject><subject>Selective breeding</subject><subject>Stresses</subject><subject>Virulence</subject><subject>World 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Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>PloS one</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yadav, Manoj Kumar</au><au>S, Aravindan</au><au>Ngangkham, Umakanta</au><au>Shubudhi, H N</au><au>Bag, Manas Kumar</au><au>Adak, Totan</au><au>Munda, Sushmita</au><au>Samantaray, Sanghamitra</au><au>Jena, Mayabini</au><au>Wang, Zonghua</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Use of molecular markers in identification and characterization of resistance to rice blast in India</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2017-04-26</date><risdate>2017</risdate><volume>12</volume><issue>4</issue><spage>e0176236</spage><epage>e0176236</epage><pages>e0176236-e0176236</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>Rice blast disease caused by Magnaporthe oryzae is one of the most destructive disease causing huge losses to rice yield in different parts of the world. Therefore, an attempt has been made to find out the resistance by screening and studying the genetic diversity of eighty released rice varieties by National Rice Research Institute, Cuttack (NRVs) using molecular markers linked to twelve major blast resistance (R) genes viz Pib, Piz, Piz-t, Pik, Pik-p, Pikm Pik-h, Pita/Pita-2, Pi2, Pi9, Pi1 and Pi5. Out of which, nineteen varieties (23.75%) showed resistance, twenty one were moderately resistant (26.25%) while remaining forty varieties (50%) showed susceptible in uniform blast nursery. Rice varieties possessing blast resistance genes varied from four to twelve and the frequencies of the resistance genes ranged from 0 to 100%. The cluster analysis grouped the eighty NRVs into two major clusters at 63% level of genetic similarity coefficient. The PIC value for seventeen markers varied from 0 to 0.37 at an average of 0.20. Out of seventeen markers, only five markers, 195R-1, Pi9-i, Pita3, YL155/YL87 and 40N23r corresponded to three broad spectrum R genes viz. Pi9, Pita/Pita2 and Pi5 were found to be significantly associated with the blast disease with explaining phenotypic variance from 3.5% to 7.7%. The population structure analysis and PCoA divided the entire 80 NRVs into two sub-groups. The outcome of this study would help to formulate strategies for improving rice blast resistance through genetic studies, plant-pathogen interaction, identification of novel R genes, development of new resistant varieties through marker-assisted breeding for improving rice blast resistance in India and worldwide.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>28445532</pmid><doi>10.1371/journal.pone.0176236</doi><tpages>e0176236</tpages><orcidid>https://orcid.org/0000-0002-5771-0770</orcidid><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1932-6203 |
| ispartof | PloS one, 2017-04, Vol.12 (4), p.e0176236-e0176236 |
| issn | 1932-6203 1932-6203 |
| language | eng |
| recordid | cdi_plos_journals_1892318528 |
| source | MEDLINE; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; Public Library of Science (PLoS); PubMed Central; Free Full-Text Journals in Chemistry |
| subjects | Agronomy Alleles Analysis Antibodies Binding sites Biodiversity Biology Biology and Life Sciences Borders Breeding Calories Chemical control Chromosome 3 Chromosomes Classification Cloning Cluster Analysis Cost engineering Crop yield Crops Cultivars Cultivation Disease control Disease resistance Disease Resistance - genetics Earth Sciences Ecology Ecology and Environmental Sciences Environmental conditions Finger Food Fungi Gene Frequency Gene mapping Genes Genes, Plant Genetic control Genetic diversity Genetic Markers - genetics Genetic Variation Genetics Genomics Genotypes Grain Growth hormone High resolution Hybrids India Infections Leaves Leucine Magnaporthe - pathogenicity Mapping Markers Microbial drug resistance Millet Molecular biology Nodes Oryza - genetics pH effects Phenotype Physical mapping Physiological aspects Plant breeding Plant Diseases - genetics Plant pathology Plant Proteins - genetics Plants Polymerase chain reaction Population structure Populations Research and Analysis Methods Rice Rice blast disease Rice yield Row spacing Scanning Seasons Seedlings Selective breeding Stresses Virulence World population Yield |
| title | Use of molecular markers in identification and characterization of resistance to rice blast in India |
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