QTL mapping of root traits in a doubled haploid population from a cross between upland and lowland japonica rice in three environments
To genetically dissect drought resistance associated with japonica upland rice, we evaluated a doubled haploid (DH) population from a cross between two japonica cultivars for seven root traits under three different growing conditions (upland, lowland and upland in PVC pipe). The traits included basa...
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| Veröffentlicht in: | Theoretical and applied genetics 2005-05, Vol.110 (7), p.1244-1252 |
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| creator | Li, Z Mu, P Li, C Zhang, H Gao, Y Wang, X |
| description | To genetically dissect drought resistance associated with japonica upland rice, we evaluated a doubled haploid (DH) population from a cross between two japonica cultivars for seven root traits under three different growing conditions (upland, lowland and upland in PVC pipe). The traits included basal root thickness (BRT), total root number (RN), maximum root length (MRL), root fresh weight (RFW), root dry weight (RDW), ratio of root fresh weight to shoot fresh weight (RFW/SFW) and ratio of root dry weight to shoot dry weight (RDW/SDW). The BRT was significantly correlated with the index of drought resistance, which was defined as the ratio of yield under the stress of the upland condition to that under the normal lowland condition. A complete genetic linkage map with 165 molecular markers covering 1,535 cM was constructed. Seven additive quantitative trait loci (QTLs) and 15 pairs of epistatic loci for BRT and RN were identified under upland and lowland conditions, and 12 additive QTLs and 17 pairs of epistatic QTLs for BRT, RN, MRL, RFW, RFW/SFW and RDW/SDW were identified under the PVC pipe condition. Four additive QTLs and one pair of epistatic QTLs controlling IDR were also found. These QTLs individually explained up to 25.6% of the phenotypic variance. QTL x environment (Q x E) interactions were detected for all root traits, and the contributions of these interactions ranged from 1.1% to 19.9%. Five co-localized QTLs controlling RFW and RDW, RFW/SFW, RDW/SDW and IDR, BRT and RN, RN, MRL and IDR were found. Four types of QTLs governing BRT and RN were classified by their detection in the upland and lowland conditions. Some common QTLs for root traits across different backgrounds were also revealed. These co-localized QTLs and common QTLs will facilitate marker-assisted selection for root traits in rice breeding programs. |
| doi_str_mv | 10.1007/s00122-005-1958-z |
| format | Article |
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The traits included basal root thickness (BRT), total root number (RN), maximum root length (MRL), root fresh weight (RFW), root dry weight (RDW), ratio of root fresh weight to shoot fresh weight (RFW/SFW) and ratio of root dry weight to shoot dry weight (RDW/SDW). The BRT was significantly correlated with the index of drought resistance, which was defined as the ratio of yield under the stress of the upland condition to that under the normal lowland condition. A complete genetic linkage map with 165 molecular markers covering 1,535 cM was constructed. Seven additive quantitative trait loci (QTLs) and 15 pairs of epistatic loci for BRT and RN were identified under upland and lowland conditions, and 12 additive QTLs and 17 pairs of epistatic QTLs for BRT, RN, MRL, RFW, RFW/SFW and RDW/SDW were identified under the PVC pipe condition. Four additive QTLs and one pair of epistatic QTLs controlling IDR were also found. These QTLs individually explained up to 25.6% of the phenotypic variance. QTL x environment (Q x E) interactions were detected for all root traits, and the contributions of these interactions ranged from 1.1% to 19.9%. Five co-localized QTLs controlling RFW and RDW, RFW/SFW, RDW/SDW and IDR, BRT and RN, RN, MRL and IDR were found. Four types of QTLs governing BRT and RN were classified by their detection in the upland and lowland conditions. Some common QTLs for root traits across different backgrounds were also revealed. These co-localized QTLs and common QTLs will facilitate marker-assisted selection for root traits in rice breeding programs.</description><identifier>ISSN: 0040-5752</identifier><identifier>EISSN: 1432-2242</identifier><identifier>DOI: 10.1007/s00122-005-1958-z</identifier><identifier>PMID: 15765223</identifier><identifier>CODEN: THAGA6</identifier><language>eng</language><publisher>Heidelberg: Springer</publisher><subject>Adaptation, Physiological - genetics ; additive gene effects ; Biological and medical sciences ; Chromosome Mapping ; Classical genetics, quantitative genetics, hybrids ; Crosses, Genetic ; cultivars ; Disasters ; doubled haploids ; drought tolerance ; dry matter accumulation ; Environment ; epistasis ; Fundamental and applied biological sciences. Psychology ; genetic markers ; Genetics ; Genetics of eukaryotes. Biological and molecular evolution ; Genomics ; genotype-environment interaction ; hybridization ; japonica cultivars ; japonica varieties ; lowlands ; Methods, theories and miscellaneous ; microsatellite repeats ; Microsatellite Repeats - genetics ; Oryza - genetics ; Oryza sativa ; Phenotype ; phenotypic variation ; Plant Roots - genetics ; Plant Roots - physiology ; Polymorphism, Restriction Fragment Length ; Polyvinyl chloride ; Pteridophyta, spermatophyta ; Quantitative Trait Loci ; restriction fragment length polymorphism ; rice ; root growth ; root shoot ratio ; root systems ; roots ; upland soils ; Vegetals</subject><ispartof>Theoretical and applied genetics, 2005-05, Vol.110 (7), p.1244-1252</ispartof><rights>2005 INIST-CNRS</rights><rights>Springer-Verlag 2005</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c477t-62fe09ec61dc437ffd89d8c5937611256b77c194b14211ed0c778890bed217463</citedby><cites>FETCH-LOGICAL-c477t-62fe09ec61dc437ffd89d8c5937611256b77c194b14211ed0c778890bed217463</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,776,780,27903,27904</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=16735416$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/15765223$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Li, Z</creatorcontrib><creatorcontrib>Mu, P</creatorcontrib><creatorcontrib>Li, C</creatorcontrib><creatorcontrib>Zhang, H</creatorcontrib><creatorcontrib>Gao, Y</creatorcontrib><creatorcontrib>Wang, X</creatorcontrib><title>QTL mapping of root traits in a doubled haploid population from a cross between upland and lowland japonica rice in three environments</title><title>Theoretical and applied genetics</title><addtitle>Theor Appl Genet</addtitle><description>To genetically dissect drought resistance associated with japonica upland rice, we evaluated a doubled haploid (DH) population from a cross between two japonica cultivars for seven root traits under three different growing conditions (upland, lowland and upland in PVC pipe). The traits included basal root thickness (BRT), total root number (RN), maximum root length (MRL), root fresh weight (RFW), root dry weight (RDW), ratio of root fresh weight to shoot fresh weight (RFW/SFW) and ratio of root dry weight to shoot dry weight (RDW/SDW). The BRT was significantly correlated with the index of drought resistance, which was defined as the ratio of yield under the stress of the upland condition to that under the normal lowland condition. A complete genetic linkage map with 165 molecular markers covering 1,535 cM was constructed. Seven additive quantitative trait loci (QTLs) and 15 pairs of epistatic loci for BRT and RN were identified under upland and lowland conditions, and 12 additive QTLs and 17 pairs of epistatic QTLs for BRT, RN, MRL, RFW, RFW/SFW and RDW/SDW were identified under the PVC pipe condition. Four additive QTLs and one pair of epistatic QTLs controlling IDR were also found. These QTLs individually explained up to 25.6% of the phenotypic variance. QTL x environment (Q x E) interactions were detected for all root traits, and the contributions of these interactions ranged from 1.1% to 19.9%. Five co-localized QTLs controlling RFW and RDW, RFW/SFW, RDW/SDW and IDR, BRT and RN, RN, MRL and IDR were found. Four types of QTLs governing BRT and RN were classified by their detection in the upland and lowland conditions. Some common QTLs for root traits across different backgrounds were also revealed. These co-localized QTLs and common QTLs will facilitate marker-assisted selection for root traits in rice breeding programs.</description><subject>Adaptation, Physiological - genetics</subject><subject>additive gene effects</subject><subject>Biological and medical sciences</subject><subject>Chromosome Mapping</subject><subject>Classical genetics, quantitative genetics, hybrids</subject><subject>Crosses, Genetic</subject><subject>cultivars</subject><subject>Disasters</subject><subject>doubled haploids</subject><subject>drought tolerance</subject><subject>dry matter accumulation</subject><subject>Environment</subject><subject>epistasis</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>genetic markers</subject><subject>Genetics</subject><subject>Genetics of eukaryotes. Biological and molecular evolution</subject><subject>Genomics</subject><subject>genotype-environment interaction</subject><subject>hybridization</subject><subject>japonica cultivars</subject><subject>japonica varieties</subject><subject>lowlands</subject><subject>Methods, theories and miscellaneous</subject><subject>microsatellite repeats</subject><subject>Microsatellite Repeats - genetics</subject><subject>Oryza - genetics</subject><subject>Oryza sativa</subject><subject>Phenotype</subject><subject>phenotypic variation</subject><subject>Plant Roots - genetics</subject><subject>Plant Roots - physiology</subject><subject>Polymorphism, Restriction Fragment Length</subject><subject>Polyvinyl chloride</subject><subject>Pteridophyta, spermatophyta</subject><subject>Quantitative Trait Loci</subject><subject>restriction fragment length polymorphism</subject><subject>rice</subject><subject>root growth</subject><subject>root shoot ratio</subject><subject>root systems</subject><subject>roots</subject><subject>upland soils</subject><subject>Vegetals</subject><issn>0040-5752</issn><issn>1432-2242</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2005</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNqF0c9qFTEUBvBBFHutPoAbDULdjZ6TP5OZZSlWhQsituuQSTJtLjPJmMxY7AP43Ob2Xii4cRGSxS8fOfmq6jXCBwSQHzMAUloDiBo70db3T6oNckZrSjl9Wm0AONRCCnpSvch5BwBUAHtenaCQjaCUbao_36-2ZNLz7MMNiQNJMS5kSdovmfhANLFx7Udnya2ex-gtmeO8jnrxMZAhxakIk2LOpHfLnXOBrPOogyX7Nca7h_NOzzF4o0nyxu1Tl9vkHHHhl08xTC4s-WX1bNBjdq-O-2l1ffnp6uJLvf32-evF-bY2XMqlbujgoHOmQWs4k8Ng2862RnRMNohUNL2UBjveI6eIzoKRsm076J2lKHnDTqv3h9w5xZ-ry4uafDZuLO90cc2qKZ6ykvc_WNKEEIwX-O4fuItrCmUI1VLoqGgBCsIDevir5AY1Jz_p9FshqH2V6lClKlWqfZXqvtx5cwxe-8nZxxvH7go4OwKdjR6HpIPx-dE1kgmO-5nfHtygo9I3qZjrHxSQAYIQHbbsL0KpsBI</recordid><startdate>20050501</startdate><enddate>20050501</enddate><creator>Li, Z</creator><creator>Mu, P</creator><creator>Li, C</creator><creator>Zhang, H</creator><creator>Gao, Y</creator><creator>Wang, X</creator><general>Springer</general><general>Springer Nature B.V</general><scope>FBQ</scope><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7SS</scope><scope>7TK</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20050501</creationdate><title>QTL mapping of root traits in a doubled haploid population from a cross between upland and lowland japonica rice in three environments</title><author>Li, Z ; Mu, P ; Li, C ; Zhang, H ; Gao, Y ; Wang, X</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c477t-62fe09ec61dc437ffd89d8c5937611256b77c194b14211ed0c778890bed217463</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2005</creationdate><topic>Adaptation, Physiological - genetics</topic><topic>additive gene effects</topic><topic>Biological and medical sciences</topic><topic>Chromosome Mapping</topic><topic>Classical genetics, quantitative genetics, hybrids</topic><topic>Crosses, Genetic</topic><topic>cultivars</topic><topic>Disasters</topic><topic>doubled haploids</topic><topic>drought tolerance</topic><topic>dry matter accumulation</topic><topic>Environment</topic><topic>epistasis</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>genetic markers</topic><topic>Genetics</topic><topic>Genetics of eukaryotes. Biological and molecular evolution</topic><topic>Genomics</topic><topic>genotype-environment interaction</topic><topic>hybridization</topic><topic>japonica cultivars</topic><topic>japonica varieties</topic><topic>lowlands</topic><topic>Methods, theories and miscellaneous</topic><topic>microsatellite repeats</topic><topic>Microsatellite Repeats - genetics</topic><topic>Oryza - genetics</topic><topic>Oryza sativa</topic><topic>Phenotype</topic><topic>phenotypic variation</topic><topic>Plant Roots - genetics</topic><topic>Plant Roots - physiology</topic><topic>Polymorphism, Restriction Fragment Length</topic><topic>Polyvinyl chloride</topic><topic>Pteridophyta, spermatophyta</topic><topic>Quantitative Trait Loci</topic><topic>restriction fragment length polymorphism</topic><topic>rice</topic><topic>root growth</topic><topic>root shoot ratio</topic><topic>root systems</topic><topic>roots</topic><topic>upland soils</topic><topic>Vegetals</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Li, Z</creatorcontrib><creatorcontrib>Mu, P</creatorcontrib><creatorcontrib>Li, C</creatorcontrib><creatorcontrib>Zhang, H</creatorcontrib><creatorcontrib>Gao, Y</creatorcontrib><creatorcontrib>Wang, X</creatorcontrib><collection>AGRIS</collection><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Neurosciences Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection (ProQuest)</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Theoretical and applied genetics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Li, Z</au><au>Mu, P</au><au>Li, C</au><au>Zhang, H</au><au>Gao, Y</au><au>Wang, X</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>QTL mapping of root traits in a doubled haploid population from a cross between upland and lowland japonica rice in three environments</atitle><jtitle>Theoretical and applied genetics</jtitle><addtitle>Theor Appl Genet</addtitle><date>2005-05-01</date><risdate>2005</risdate><volume>110</volume><issue>7</issue><spage>1244</spage><epage>1252</epage><pages>1244-1252</pages><issn>0040-5752</issn><eissn>1432-2242</eissn><coden>THAGA6</coden><abstract>To genetically dissect drought resistance associated with japonica upland rice, we evaluated a doubled haploid (DH) population from a cross between two japonica cultivars for seven root traits under three different growing conditions (upland, lowland and upland in PVC pipe). The traits included basal root thickness (BRT), total root number (RN), maximum root length (MRL), root fresh weight (RFW), root dry weight (RDW), ratio of root fresh weight to shoot fresh weight (RFW/SFW) and ratio of root dry weight to shoot dry weight (RDW/SDW). The BRT was significantly correlated with the index of drought resistance, which was defined as the ratio of yield under the stress of the upland condition to that under the normal lowland condition. A complete genetic linkage map with 165 molecular markers covering 1,535 cM was constructed. Seven additive quantitative trait loci (QTLs) and 15 pairs of epistatic loci for BRT and RN were identified under upland and lowland conditions, and 12 additive QTLs and 17 pairs of epistatic QTLs for BRT, RN, MRL, RFW, RFW/SFW and RDW/SDW were identified under the PVC pipe condition. Four additive QTLs and one pair of epistatic QTLs controlling IDR were also found. These QTLs individually explained up to 25.6% of the phenotypic variance. QTL x environment (Q x E) interactions were detected for all root traits, and the contributions of these interactions ranged from 1.1% to 19.9%. Five co-localized QTLs controlling RFW and RDW, RFW/SFW, RDW/SDW and IDR, BRT and RN, RN, MRL and IDR were found. Four types of QTLs governing BRT and RN were classified by their detection in the upland and lowland conditions. Some common QTLs for root traits across different backgrounds were also revealed. These co-localized QTLs and common QTLs will facilitate marker-assisted selection for root traits in rice breeding programs.</abstract><cop>Heidelberg</cop><cop>Berlin</cop><pub>Springer</pub><pmid>15765223</pmid><doi>10.1007/s00122-005-1958-z</doi><tpages>9</tpages></addata></record> |
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| ispartof | Theoretical and applied genetics, 2005-05, Vol.110 (7), p.1244-1252 |
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| source | MEDLINE; Springer Nature - Complete Springer Journals |
| subjects | Adaptation, Physiological - genetics additive gene effects Biological and medical sciences Chromosome Mapping Classical genetics, quantitative genetics, hybrids Crosses, Genetic cultivars Disasters doubled haploids drought tolerance dry matter accumulation Environment epistasis Fundamental and applied biological sciences. Psychology genetic markers Genetics Genetics of eukaryotes. Biological and molecular evolution Genomics genotype-environment interaction hybridization japonica cultivars japonica varieties lowlands Methods, theories and miscellaneous microsatellite repeats Microsatellite Repeats - genetics Oryza - genetics Oryza sativa Phenotype phenotypic variation Plant Roots - genetics Plant Roots - physiology Polymorphism, Restriction Fragment Length Polyvinyl chloride Pteridophyta, spermatophyta Quantitative Trait Loci restriction fragment length polymorphism rice root growth root shoot ratio root systems roots upland soils Vegetals |
| title | QTL mapping of root traits in a doubled haploid population from a cross between upland and lowland japonica rice in three environments |
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