Genome-Wide Association Study of Resistance to Potato Common Scab
Potato common scab caused by bacterial pathogen Streptomyces scabies (Thaxt.) Waksman & Henrici is one of the most important diseases of potato ( Solanum tuberosum L.) worldwide. Currently, the most effective and desirable method to control common scab is through the use of resistant cultivars....
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| Veröffentlicht in: | Potato research 2020-06, Vol.63 (2), p.253-266 |
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| creator | Yuan, Jiazheng Bizimungu, Benoît De Koeyer, David Rosyara, Umesh Wen, Zixiang Lagüe, Martin |
| description | Potato common scab caused by bacterial pathogen
Streptomyces scabies
(Thaxt.) Waksman & Henrici is one of the most important diseases of potato (
Solanum tuberosum
L.) worldwide. Currently, the most effective and desirable method to control common scab is through the use of resistant cultivars. In order to decipher the genetic control of resistance to common scab disease in Canadian potato germplasm, an association panel of 143 clones including advanced breeding clones and commercial cultivars was genotyped with 12K SolCAP SNPs and phenotyped for potato common scab resistances in multiple years. By conducting a genome-wide association analysis (GWAS) using GWASpoly R package, three resistance QTLs were identified on potato chromosomes 2, 4, and 12, respectively. The phenotypic variation explained by these QTLs was 21%, 19%, and 26%, respectively. The QTL on chromosome 2 was simplex-dominant whereas duplex-dominant QTLs were identified on chromosomes 4 and 12. These findings will be useful to design marker-assisted selection and breeding strategies to improve resistance to common scab in new potato cultivars. |
| doi_str_mv | 10.1007/s11540-019-09437-w |
| format | Article |
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Streptomyces scabies
(Thaxt.) Waksman & Henrici is one of the most important diseases of potato (
Solanum tuberosum
L.) worldwide. Currently, the most effective and desirable method to control common scab is through the use of resistant cultivars. In order to decipher the genetic control of resistance to common scab disease in Canadian potato germplasm, an association panel of 143 clones including advanced breeding clones and commercial cultivars was genotyped with 12K SolCAP SNPs and phenotyped for potato common scab resistances in multiple years. By conducting a genome-wide association analysis (GWAS) using GWASpoly R package, three resistance QTLs were identified on potato chromosomes 2, 4, and 12, respectively. The phenotypic variation explained by these QTLs was 21%, 19%, and 26%, respectively. The QTL on chromosome 2 was simplex-dominant whereas duplex-dominant QTLs were identified on chromosomes 4 and 12. These findings will be useful to design marker-assisted selection and breeding strategies to improve resistance to common scab in new potato cultivars.</description><identifier>ISSN: 0014-3065</identifier><identifier>EISSN: 1871-4528</identifier><identifier>DOI: 10.1007/s11540-019-09437-w</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Agriculture ; Analysis ; Association analysis ; Biomedical and Life Sciences ; Chromosome 2 ; Chromosomes ; Cloning ; Cultivars ; Disease resistance ; Genetic control ; Genomes ; Genomics ; Germplasm ; Life Sciences ; Marker-assisted selection ; Phenotypic variations ; Plant breeding ; Plant Genetics and Genomics ; Plant Sciences ; Plant Systematics/Taxonomy/Biogeography ; Potato common scab ; Potatoes ; Quantitative genetics ; Quantitative trait loci ; Single-nucleotide polymorphism ; Vegetables</subject><ispartof>Potato research, 2020-06, Vol.63 (2), p.253-266</ispartof><rights>Crown 2019</rights><rights>COPYRIGHT 2020 Springer</rights><rights>Crown 2019.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c452t-9c4a9c116915fff2d19eeca166f90f9896bb7ef268e23fb006b25127f73f49683</citedby><cites>FETCH-LOGICAL-c452t-9c4a9c116915fff2d19eeca166f90f9896bb7ef268e23fb006b25127f73f49683</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11540-019-09437-w$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11540-019-09437-w$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27924,27925,41488,42557,51319</link.rule.ids></links><search><creatorcontrib>Yuan, Jiazheng</creatorcontrib><creatorcontrib>Bizimungu, Benoît</creatorcontrib><creatorcontrib>De Koeyer, David</creatorcontrib><creatorcontrib>Rosyara, Umesh</creatorcontrib><creatorcontrib>Wen, Zixiang</creatorcontrib><creatorcontrib>Lagüe, Martin</creatorcontrib><title>Genome-Wide Association Study of Resistance to Potato Common Scab</title><title>Potato research</title><addtitle>Potato Res</addtitle><description>Potato common scab caused by bacterial pathogen
Streptomyces scabies
(Thaxt.) Waksman & Henrici is one of the most important diseases of potato (
Solanum tuberosum
L.) worldwide. Currently, the most effective and desirable method to control common scab is through the use of resistant cultivars. In order to decipher the genetic control of resistance to common scab disease in Canadian potato germplasm, an association panel of 143 clones including advanced breeding clones and commercial cultivars was genotyped with 12K SolCAP SNPs and phenotyped for potato common scab resistances in multiple years. By conducting a genome-wide association analysis (GWAS) using GWASpoly R package, three resistance QTLs were identified on potato chromosomes 2, 4, and 12, respectively. The phenotypic variation explained by these QTLs was 21%, 19%, and 26%, respectively. The QTL on chromosome 2 was simplex-dominant whereas duplex-dominant QTLs were identified on chromosomes 4 and 12. These findings will be useful to design marker-assisted selection and breeding strategies to improve resistance to common scab in new potato cultivars.</description><subject>Agriculture</subject><subject>Analysis</subject><subject>Association analysis</subject><subject>Biomedical and Life Sciences</subject><subject>Chromosome 2</subject><subject>Chromosomes</subject><subject>Cloning</subject><subject>Cultivars</subject><subject>Disease resistance</subject><subject>Genetic control</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Germplasm</subject><subject>Life Sciences</subject><subject>Marker-assisted selection</subject><subject>Phenotypic variations</subject><subject>Plant breeding</subject><subject>Plant Genetics and Genomics</subject><subject>Plant Sciences</subject><subject>Plant Systematics/Taxonomy/Biogeography</subject><subject>Potato common scab</subject><subject>Potatoes</subject><subject>Quantitative genetics</subject><subject>Quantitative trait loci</subject><subject>Single-nucleotide polymorphism</subject><subject>Vegetables</subject><issn>0014-3065</issn><issn>1871-4528</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2020</creationdate><recordtype>article</recordtype><recordid>eNp9kd9LwzAQx4MoOKf_gE8FnzPvmiZtHsfQKQwUf-BjSNNkZKzNbDrG_ns7KwxB5B4Ojs_n7uBLyDXCBAHy24jIM6CAkoLMWE53J2SERY4042lxSkYAmFEGgp-TixhXABnnyEdkOrdNqC398JVNpjEG43XnQ5O8dttqnwSXvNjoY6cbY5MuJM-h032bhbo-QEaXl-TM6XW0Vz99TN7v795mD3TxNH-cTRfU9C90VJpMS4MoJHLnXFqhtNZoFMJJcLKQoixz61JR2JS5EkCUKcc0dzlzmRQFG5ObYe-mDZ9bGzu1Ctu26U-qNAMugXPGj9RSr63yjQtdq03to1HTHLlAxuBATf6g-qps7U1orPP9_JeQDoJpQ4ytdWrT-lq3e4WgDgmoIQHVJ6C-E1C7XmKDFHu4Wdr2-PE_1hee8oaL</recordid><startdate>20200601</startdate><enddate>20200601</enddate><creator>Yuan, Jiazheng</creator><creator>Bizimungu, Benoît</creator><creator>De Koeyer, David</creator><creator>Rosyara, Umesh</creator><creator>Wen, Zixiang</creator><creator>Lagüe, Martin</creator><general>Springer Netherlands</general><general>Springer</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope></search><sort><creationdate>20200601</creationdate><title>Genome-Wide Association Study of Resistance to Potato Common Scab</title><author>Yuan, Jiazheng ; Bizimungu, Benoît ; De Koeyer, David ; Rosyara, Umesh ; Wen, Zixiang ; Lagüe, Martin</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c452t-9c4a9c116915fff2d19eeca166f90f9896bb7ef268e23fb006b25127f73f49683</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Agriculture</topic><topic>Analysis</topic><topic>Association analysis</topic><topic>Biomedical and Life Sciences</topic><topic>Chromosome 2</topic><topic>Chromosomes</topic><topic>Cloning</topic><topic>Cultivars</topic><topic>Disease resistance</topic><topic>Genetic control</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Germplasm</topic><topic>Life Sciences</topic><topic>Marker-assisted selection</topic><topic>Phenotypic variations</topic><topic>Plant breeding</topic><topic>Plant Genetics and Genomics</topic><topic>Plant Sciences</topic><topic>Plant Systematics/Taxonomy/Biogeography</topic><topic>Potato common scab</topic><topic>Potatoes</topic><topic>Quantitative genetics</topic><topic>Quantitative trait loci</topic><topic>Single-nucleotide polymorphism</topic><topic>Vegetables</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Yuan, Jiazheng</creatorcontrib><creatorcontrib>Bizimungu, Benoît</creatorcontrib><creatorcontrib>De Koeyer, David</creatorcontrib><creatorcontrib>Rosyara, Umesh</creatorcontrib><creatorcontrib>Wen, Zixiang</creatorcontrib><creatorcontrib>Lagüe, Martin</creatorcontrib><collection>CrossRef</collection><jtitle>Potato research</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yuan, Jiazheng</au><au>Bizimungu, Benoît</au><au>De Koeyer, David</au><au>Rosyara, Umesh</au><au>Wen, Zixiang</au><au>Lagüe, Martin</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genome-Wide Association Study of Resistance to Potato Common Scab</atitle><jtitle>Potato research</jtitle><stitle>Potato Res</stitle><date>2020-06-01</date><risdate>2020</risdate><volume>63</volume><issue>2</issue><spage>253</spage><epage>266</epage><pages>253-266</pages><issn>0014-3065</issn><eissn>1871-4528</eissn><abstract>Potato common scab caused by bacterial pathogen
Streptomyces scabies
(Thaxt.) Waksman & Henrici is one of the most important diseases of potato (
Solanum tuberosum
L.) worldwide. Currently, the most effective and desirable method to control common scab is through the use of resistant cultivars. In order to decipher the genetic control of resistance to common scab disease in Canadian potato germplasm, an association panel of 143 clones including advanced breeding clones and commercial cultivars was genotyped with 12K SolCAP SNPs and phenotyped for potato common scab resistances in multiple years. By conducting a genome-wide association analysis (GWAS) using GWASpoly R package, three resistance QTLs were identified on potato chromosomes 2, 4, and 12, respectively. The phenotypic variation explained by these QTLs was 21%, 19%, and 26%, respectively. The QTL on chromosome 2 was simplex-dominant whereas duplex-dominant QTLs were identified on chromosomes 4 and 12. These findings will be useful to design marker-assisted selection and breeding strategies to improve resistance to common scab in new potato cultivars.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><doi>10.1007/s11540-019-09437-w</doi><tpages>14</tpages></addata></record> |
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| subjects | Agriculture Analysis Association analysis Biomedical and Life Sciences Chromosome 2 Chromosomes Cloning Cultivars Disease resistance Genetic control Genomes Genomics Germplasm Life Sciences Marker-assisted selection Phenotypic variations Plant breeding Plant Genetics and Genomics Plant Sciences Plant Systematics/Taxonomy/Biogeography Potato common scab Potatoes Quantitative genetics Quantitative trait loci Single-nucleotide polymorphism Vegetables |
| title | Genome-Wide Association Study of Resistance to Potato Common Scab |
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