Allele specific DNA marker for fusarium resistance gene FocBo1 in Brassica oleracea
The fusarium yellows resistance (YR) gene FocBo1 was previously identified and the DNA markers were developed to assist the breeding of YR cultivars in Brassica oleracea. However, the further analysis revealed discrepancies between the phenotypes and the genotypes predicted by those DNA markers in c...
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| Veröffentlicht in: | Breeding Science 2019, Vol.69(2), pp.308-315 |
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| creator | Sato, Maho Shimizu, Motoki Shea, Daniel J. Hoque, Mozammel Kawanabe, Takahiro Miyaji, Naomi Fujimoto, Ryo Fukai, Eigo Okazaki, Keiichi |
| description | The fusarium yellows resistance (YR) gene FocBo1 was previously identified and the DNA markers were developed to assist the breeding of YR cultivars in Brassica oleracea. However, the further analysis revealed discrepancies between the phenotypes and the genotypes predicted by those DNA markers in cabbage commercial cultivars. Since this discrepancy seemed to be due to unknown susceptible alleles of focbo1, we sequenced the gene in 19 accessions to determine the sequence variations between alleles and found that there were two resistant FocBo1 alleles and six susceptible alleles in the investigated population. The newly designed PCR markers detected three mutations in the susceptible alleles that generate premature termination codons. These were shown to accurately distinguish resistant and susceptible alleles in more than 200 accessions of B. oleracea inbred lines and cultivars. The study revealed that the locus is represented by 37.2% resistant and 62.8% susceptible alleles within seventy-eight commercial cultivars. Structural analysis of the gene revealed that a part of the allelic variation comes from intragenic recombination between alleles. Our results enable a more precise prediction of the phenotype by marker assisted selection, promoting the production of YR cultivars in B. oleracea. |
| doi_str_mv | 10.1270/jsbbs.18156 |
| format | Article |
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However, the further analysis revealed discrepancies between the phenotypes and the genotypes predicted by those DNA markers in cabbage commercial cultivars. Since this discrepancy seemed to be due to unknown susceptible alleles of focbo1, we sequenced the gene in 19 accessions to determine the sequence variations between alleles and found that there were two resistant FocBo1 alleles and six susceptible alleles in the investigated population. The newly designed PCR markers detected three mutations in the susceptible alleles that generate premature termination codons. These were shown to accurately distinguish resistant and susceptible alleles in more than 200 accessions of B. oleracea inbred lines and cultivars. The study revealed that the locus is represented by 37.2% resistant and 62.8% susceptible alleles within seventy-eight commercial cultivars. Structural analysis of the gene revealed that a part of the allelic variation comes from intragenic recombination between alleles. Our results enable a more precise prediction of the phenotype by marker assisted selection, promoting the production of YR cultivars in B. oleracea.</description><identifier>ISSN: 1344-7610</identifier><identifier>EISSN: 1347-3735</identifier><identifier>DOI: 10.1270/jsbbs.18156</identifier><identifier>PMID: 31481840</identifier><language>eng</language><publisher>Japan: Japanese Society of Breeding</publisher><subject>Alleles ; allelic variation ; Brassica ; Brassica oleracea ; Breeding ; Codons ; Cultivars ; Deoxyribonucleic acid ; disease resistance ; DNA ; Fusarium ; Genotypes ; Inbreeding ; intergenic recombination ; Marker-assisted selection ; Markers ; Mutation ; Phenotypes ; Population genetics ; Predictions ; Recombination ; Research Paper ; Structural analysis ; Yellows</subject><ispartof>Breeding Science, 2019, Vol.69(2), pp.308-315</ispartof><rights>2019 by JAPANESE SOCIETY OF BREEDING</rights><rights>Copyright Japan Science and Technology Agency 2019</rights><rights>Copyright © 2019 by JAPANESE SOCIETY OF BREEDING 2019</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c617t-dd7a2d36c9940ec115f02af2291737b6f0466b6bb774893f5d6ab78107c17eae3</citedby><cites>FETCH-LOGICAL-c617t-dd7a2d36c9940ec115f02af2291737b6f0466b6bb774893f5d6ab78107c17eae3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6711725/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6711725/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,315,728,781,785,886,1884,27929,27930,53796,53798</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31481840$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Sato, Maho</creatorcontrib><creatorcontrib>Shimizu, Motoki</creatorcontrib><creatorcontrib>Shea, Daniel J.</creatorcontrib><creatorcontrib>Hoque, Mozammel</creatorcontrib><creatorcontrib>Kawanabe, Takahiro</creatorcontrib><creatorcontrib>Miyaji, Naomi</creatorcontrib><creatorcontrib>Fujimoto, Ryo</creatorcontrib><creatorcontrib>Fukai, Eigo</creatorcontrib><creatorcontrib>Okazaki, Keiichi</creatorcontrib><title>Allele specific DNA marker for fusarium resistance gene FocBo1 in Brassica oleracea</title><title>Breeding Science</title><addtitle>Breeding Science</addtitle><description>The fusarium yellows resistance (YR) gene FocBo1 was previously identified and the DNA markers were developed to assist the breeding of YR cultivars in Brassica oleracea. However, the further analysis revealed discrepancies between the phenotypes and the genotypes predicted by those DNA markers in cabbage commercial cultivars. Since this discrepancy seemed to be due to unknown susceptible alleles of focbo1, we sequenced the gene in 19 accessions to determine the sequence variations between alleles and found that there were two resistant FocBo1 alleles and six susceptible alleles in the investigated population. The newly designed PCR markers detected three mutations in the susceptible alleles that generate premature termination codons. These were shown to accurately distinguish resistant and susceptible alleles in more than 200 accessions of B. oleracea inbred lines and cultivars. The study revealed that the locus is represented by 37.2% resistant and 62.8% susceptible alleles within seventy-eight commercial cultivars. Structural analysis of the gene revealed that a part of the allelic variation comes from intragenic recombination between alleles. Our results enable a more precise prediction of the phenotype by marker assisted selection, promoting the production of YR cultivars in B. oleracea.</description><subject>Alleles</subject><subject>allelic variation</subject><subject>Brassica</subject><subject>Brassica oleracea</subject><subject>Breeding</subject><subject>Codons</subject><subject>Cultivars</subject><subject>Deoxyribonucleic acid</subject><subject>disease resistance</subject><subject>DNA</subject><subject>Fusarium</subject><subject>Genotypes</subject><subject>Inbreeding</subject><subject>intergenic recombination</subject><subject>Marker-assisted selection</subject><subject>Markers</subject><subject>Mutation</subject><subject>Phenotypes</subject><subject>Population genetics</subject><subject>Predictions</subject><subject>Recombination</subject><subject>Research Paper</subject><subject>Structural analysis</subject><subject>Yellows</subject><issn>1344-7610</issn><issn>1347-3735</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><recordid>eNpdkU2LFDEQhoMo7oeevEvAiyC9pvLZfRFm110VFj2o55BOV89m7OnMJt2C_95szziohyQF9fBQlZeQF8AugBv2dpPbNl9ADUo_IqcgpKmEEerxUsvKaGAn5CznDWNcMamekhMBsoZaslPydTUMOCDNO_ShD56-_7yiW5d-YKJ9LGfOLoV5SxPmkCc3eqRrHJHeRH8ZgYaRXiaXc_COxgGT8-iekSe9GzI-P7zn5PvN9berj9Xtlw-frla3lddgpqrrjOOd0L5pJEMPoHrGXc95A0aYVvdMat3qtjVG1o3oVadda2pgxoNBh-KcvNt7d3O7xc7jOCU32F0KZYFfNrpg_-2M4c6u40-rDYDhqgheHwQp3s-YJ7sN2eMwuBHjnC3ntVQaYEFf_Ydu4pzGsl6hNDeqFgYK9WZP-RRzTtgfhwFmH8KyS1h2CavQL_-e_8j-SacAqz2wKT-_xiPg0hT8gAeZbix_uBbpsefvXLI4it91GKei</recordid><startdate>20190101</startdate><enddate>20190101</enddate><creator>Sato, Maho</creator><creator>Shimizu, Motoki</creator><creator>Shea, Daniel J.</creator><creator>Hoque, Mozammel</creator><creator>Kawanabe, Takahiro</creator><creator>Miyaji, Naomi</creator><creator>Fujimoto, Ryo</creator><creator>Fukai, Eigo</creator><creator>Okazaki, Keiichi</creator><general>Japanese Society of Breeding</general><general>Japan Science and Technology Agency</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7QO</scope><scope>8FD</scope><scope>FR3</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20190101</creationdate><title>Allele specific DNA marker for fusarium resistance gene FocBo1 in Brassica oleracea</title><author>Sato, Maho ; Shimizu, Motoki ; Shea, Daniel J. ; Hoque, Mozammel ; Kawanabe, Takahiro ; Miyaji, Naomi ; Fujimoto, Ryo ; Fukai, Eigo ; Okazaki, Keiichi</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c617t-dd7a2d36c9940ec115f02af2291737b6f0466b6bb774893f5d6ab78107c17eae3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>Alleles</topic><topic>allelic variation</topic><topic>Brassica</topic><topic>Brassica oleracea</topic><topic>Breeding</topic><topic>Codons</topic><topic>Cultivars</topic><topic>Deoxyribonucleic acid</topic><topic>disease resistance</topic><topic>DNA</topic><topic>Fusarium</topic><topic>Genotypes</topic><topic>Inbreeding</topic><topic>intergenic recombination</topic><topic>Marker-assisted selection</topic><topic>Markers</topic><topic>Mutation</topic><topic>Phenotypes</topic><topic>Population genetics</topic><topic>Predictions</topic><topic>Recombination</topic><topic>Research Paper</topic><topic>Structural analysis</topic><topic>Yellows</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Sato, Maho</creatorcontrib><creatorcontrib>Shimizu, Motoki</creatorcontrib><creatorcontrib>Shea, Daniel J.</creatorcontrib><creatorcontrib>Hoque, Mozammel</creatorcontrib><creatorcontrib>Kawanabe, Takahiro</creatorcontrib><creatorcontrib>Miyaji, Naomi</creatorcontrib><creatorcontrib>Fujimoto, Ryo</creatorcontrib><creatorcontrib>Fukai, Eigo</creatorcontrib><creatorcontrib>Okazaki, Keiichi</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><collection>Biotechnology Research Abstracts</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Breeding Science</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Sato, Maho</au><au>Shimizu, Motoki</au><au>Shea, Daniel J.</au><au>Hoque, Mozammel</au><au>Kawanabe, Takahiro</au><au>Miyaji, Naomi</au><au>Fujimoto, Ryo</au><au>Fukai, Eigo</au><au>Okazaki, Keiichi</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Allele specific DNA marker for fusarium resistance gene FocBo1 in Brassica oleracea</atitle><jtitle>Breeding Science</jtitle><addtitle>Breeding Science</addtitle><date>2019-01-01</date><risdate>2019</risdate><volume>69</volume><issue>2</issue><spage>308</spage><epage>315</epage><pages>308-315</pages><issn>1344-7610</issn><eissn>1347-3735</eissn><abstract>The fusarium yellows resistance (YR) gene FocBo1 was previously identified and the DNA markers were developed to assist the breeding of YR cultivars in Brassica oleracea. However, the further analysis revealed discrepancies between the phenotypes and the genotypes predicted by those DNA markers in cabbage commercial cultivars. Since this discrepancy seemed to be due to unknown susceptible alleles of focbo1, we sequenced the gene in 19 accessions to determine the sequence variations between alleles and found that there were two resistant FocBo1 alleles and six susceptible alleles in the investigated population. The newly designed PCR markers detected three mutations in the susceptible alleles that generate premature termination codons. These were shown to accurately distinguish resistant and susceptible alleles in more than 200 accessions of B. oleracea inbred lines and cultivars. The study revealed that the locus is represented by 37.2% resistant and 62.8% susceptible alleles within seventy-eight commercial cultivars. Structural analysis of the gene revealed that a part of the allelic variation comes from intragenic recombination between alleles. 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| subjects | Alleles allelic variation Brassica Brassica oleracea Breeding Codons Cultivars Deoxyribonucleic acid disease resistance DNA Fusarium Genotypes Inbreeding intergenic recombination Marker-assisted selection Markers Mutation Phenotypes Population genetics Predictions Recombination Research Paper Structural analysis Yellows |
| title | Allele specific DNA marker for fusarium resistance gene FocBo1 in Brassica oleracea |
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