Rapid identification of the purple stem (Ps) gene of Chinese kale (Brassica oleracea var. alboglabra) in a segregation distortion population by bulked segregant analysis and RNA sequencing
Abundant anthocyanins accumulate in many flowers, leaves, fruits, as well as stems. In this study, an F 2 segregating population derived from a cross between Chinese kale with a purple stem and kale with a green stem was used to decipher the genetic basis for the stem color. Bulked segregant analysi...
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| Veröffentlicht in: | Molecular breeding 2017-12, Vol.37 (12), p.1-9, Article 153 |
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| creator | Tang, Qiwei Tian, Mengyu An, Guanghui Zhang, Weiyi Chen, Jiongjiong Yan, Chenghuan |
| description | Abundant anthocyanins accumulate in many flowers, leaves, fruits, as well as stems. In this study, an F
2
segregating population derived from a cross between Chinese kale with a purple stem and kale with a green stem was used to decipher the genetic basis for the stem color. Bulked segregant analysis in combination with RNA sequencing (BSR-seq) was used to genetically map the causal gene for the purple stem (
Ps
), and the allele frequency difference between the two pools showed a single peak on chromosome C09.
Ps
was fine-mapped to the 0.32 cM interval with 406 kb sequences. A gene-encoding
dihydroflavonol 4-reductase
(
DFR
), an enzyme in the anthocyanin biosynthesis pathway, was differentially expressed between the two pools, and was identified as the candidate gene for the purple stem in Chinese kale. Sequence analysis revealed that 1 bp was inserted in the coding sequence of exon 2 of the
BoDRF
gene in green kale, causing frameshift and loss of function. The expression level of the
BoDFR
gene was significantly lower than the Chinese kale cultivar with a purple stem. The genetic results of the
Ps
gene will be useful for future development of purple vegetables. |
| doi_str_mv | 10.1007/s11032-017-0752-3 |
| format | Article |
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2
segregating population derived from a cross between Chinese kale with a purple stem and kale with a green stem was used to decipher the genetic basis for the stem color. Bulked segregant analysis in combination with RNA sequencing (BSR-seq) was used to genetically map the causal gene for the purple stem (
Ps
), and the allele frequency difference between the two pools showed a single peak on chromosome C09.
Ps
was fine-mapped to the 0.32 cM interval with 406 kb sequences. A gene-encoding
dihydroflavonol 4-reductase
(
DFR
), an enzyme in the anthocyanin biosynthesis pathway, was differentially expressed between the two pools, and was identified as the candidate gene for the purple stem in Chinese kale. Sequence analysis revealed that 1 bp was inserted in the coding sequence of exon 2 of the
BoDRF
gene in green kale, causing frameshift and loss of function. The expression level of the
BoDFR
gene was significantly lower than the Chinese kale cultivar with a purple stem. The genetic results of the
Ps
gene will be useful for future development of purple vegetables.</description><identifier>ISSN: 1380-3743</identifier><identifier>EISSN: 1572-9788</identifier><identifier>DOI: 10.1007/s11032-017-0752-3</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Anthocyanins ; Biomedical and Life Sciences ; Biosynthesis ; Biotechnology ; Brassica ; Brassica alboglabra ; Chromosomes ; Cultivars ; Flowers ; Gene expression ; Gene frequency ; Gene sequencing ; Kale ; Life Sciences ; Molecular biology ; Plant biology ; Plant Genetics and Genomics ; Plant Pathology ; Plant Physiology ; Plant Sciences ; Population studies ; Reductase ; Reductases ; Ribonucleic acid ; RNA ; Vegetables</subject><ispartof>Molecular breeding, 2017-12, Vol.37 (12), p.1-9, Article 153</ispartof><rights>Springer Science+Business Media B.V., part of Springer Nature 2017</rights><rights>Copyright Springer Science & Business Media 2017</rights><rights>Molecular Breeding is a copyright of Springer, (2017). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c344t-976168d6bb3fcb4a840cbf8eec41c28398900c7975dc346ff3638b005c89797c3</citedby><cites>FETCH-LOGICAL-c344t-976168d6bb3fcb4a840cbf8eec41c28398900c7975dc346ff3638b005c89797c3</cites><orcidid>0000-0003-3174-7257</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11032-017-0752-3$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11032-017-0752-3$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids></links><search><creatorcontrib>Tang, Qiwei</creatorcontrib><creatorcontrib>Tian, Mengyu</creatorcontrib><creatorcontrib>An, Guanghui</creatorcontrib><creatorcontrib>Zhang, Weiyi</creatorcontrib><creatorcontrib>Chen, Jiongjiong</creatorcontrib><creatorcontrib>Yan, Chenghuan</creatorcontrib><title>Rapid identification of the purple stem (Ps) gene of Chinese kale (Brassica oleracea var. alboglabra) in a segregation distortion population by bulked segregant analysis and RNA sequencing</title><title>Molecular breeding</title><addtitle>Mol Breeding</addtitle><description>Abundant anthocyanins accumulate in many flowers, leaves, fruits, as well as stems. In this study, an F
2
segregating population derived from a cross between Chinese kale with a purple stem and kale with a green stem was used to decipher the genetic basis for the stem color. Bulked segregant analysis in combination with RNA sequencing (BSR-seq) was used to genetically map the causal gene for the purple stem (
Ps
), and the allele frequency difference between the two pools showed a single peak on chromosome C09.
Ps
was fine-mapped to the 0.32 cM interval with 406 kb sequences. A gene-encoding
dihydroflavonol 4-reductase
(
DFR
), an enzyme in the anthocyanin biosynthesis pathway, was differentially expressed between the two pools, and was identified as the candidate gene for the purple stem in Chinese kale. Sequence analysis revealed that 1 bp was inserted in the coding sequence of exon 2 of the
BoDRF
gene in green kale, causing frameshift and loss of function. The expression level of the
BoDFR
gene was significantly lower than the Chinese kale cultivar with a purple stem. The genetic results of the
Ps
gene will be useful for future development of purple vegetables.</description><subject>Anthocyanins</subject><subject>Biomedical and Life Sciences</subject><subject>Biosynthesis</subject><subject>Biotechnology</subject><subject>Brassica</subject><subject>Brassica alboglabra</subject><subject>Chromosomes</subject><subject>Cultivars</subject><subject>Flowers</subject><subject>Gene expression</subject><subject>Gene frequency</subject><subject>Gene sequencing</subject><subject>Kale</subject><subject>Life Sciences</subject><subject>Molecular biology</subject><subject>Plant biology</subject><subject>Plant Genetics and Genomics</subject><subject>Plant Pathology</subject><subject>Plant Physiology</subject><subject>Plant Sciences</subject><subject>Population studies</subject><subject>Reductase</subject><subject>Reductases</subject><subject>Ribonucleic acid</subject><subject>RNA</subject><subject>Vegetables</subject><issn>1380-3743</issn><issn>1572-9788</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2017</creationdate><recordtype>article</recordtype><sourceid>BENPR</sourceid><recordid>eNp9kc1u1TAQhSNEJUrLA7CzxKZdpPgnie1luSo_UlVQBWvLdiap29QOngTpvlsfDl8CEhtY-WjmfDPWnKp6zegFo1S-Rcao4DVlsqay5bV4Vh2zVvJaS6WeFy0UrYVsxIvqJeI9LYzuuuPq6dbOoSehh7iEIXi7hBRJGshyB2Re8zwBwQUeydkXPCcjRDg0d3chAgJ5sKV99i5bxIKSNEG2Hiz5YfMFsZNL42RdtuckRGIJwphh3Db0AZeUf8k5zeu0Vd2euHV6gP6PNy7ERjvtMWARPbm9uSyt7ytEH-J4Wh0NdkJ49fs9qb69v_q6-1hff_7waXd5XXvRNEs5Qcc61XfOicG7xqqGejcoAN8wz5XQSlPqpZZtX4BuGEQnlKO09UqXqhcn1Ztt7pxT2Y2LuU9rLv9Cw3mrG6U4bf_nYuXWWgsleXGxzeVzQswwmDmHR5v3hlFziNJsUZoSpTlEaURh-MZg8cYR8l-T_wn9BM9Zot0</recordid><startdate>20171201</startdate><enddate>20171201</enddate><creator>Tang, Qiwei</creator><creator>Tian, Mengyu</creator><creator>An, Guanghui</creator><creator>Zhang, Weiyi</creator><creator>Chen, Jiongjiong</creator><creator>Yan, Chenghuan</creator><general>Springer Netherlands</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7X2</scope><scope>8FE</scope><scope>8FH</scope><scope>8FK</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>LK8</scope><scope>M0K</scope><scope>M7P</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><orcidid>https://orcid.org/0000-0003-3174-7257</orcidid></search><sort><creationdate>20171201</creationdate><title>Rapid identification of the purple stem (Ps) gene of Chinese kale (Brassica oleracea var. alboglabra) in a segregation distortion population by bulked segregant analysis and RNA sequencing</title><author>Tang, Qiwei ; Tian, Mengyu ; An, Guanghui ; Zhang, Weiyi ; Chen, Jiongjiong ; Yan, Chenghuan</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c344t-976168d6bb3fcb4a840cbf8eec41c28398900c7975dc346ff3638b005c89797c3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2017</creationdate><topic>Anthocyanins</topic><topic>Biomedical and Life Sciences</topic><topic>Biosynthesis</topic><topic>Biotechnology</topic><topic>Brassica</topic><topic>Brassica alboglabra</topic><topic>Chromosomes</topic><topic>Cultivars</topic><topic>Flowers</topic><topic>Gene expression</topic><topic>Gene frequency</topic><topic>Gene sequencing</topic><topic>Kale</topic><topic>Life Sciences</topic><topic>Molecular biology</topic><topic>Plant biology</topic><topic>Plant Genetics and Genomics</topic><topic>Plant Pathology</topic><topic>Plant Physiology</topic><topic>Plant Sciences</topic><topic>Population studies</topic><topic>Reductase</topic><topic>Reductases</topic><topic>Ribonucleic acid</topic><topic>RNA</topic><topic>Vegetables</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Tang, Qiwei</creatorcontrib><creatorcontrib>Tian, Mengyu</creatorcontrib><creatorcontrib>An, Guanghui</creatorcontrib><creatorcontrib>Zhang, Weiyi</creatorcontrib><creatorcontrib>Chen, Jiongjiong</creatorcontrib><creatorcontrib>Yan, Chenghuan</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Agricultural Science Collection</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>Agricultural & Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Biological Science Collection</collection><collection>Agricultural Science Database</collection><collection>Biological Science Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><jtitle>Molecular breeding</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Tang, Qiwei</au><au>Tian, Mengyu</au><au>An, Guanghui</au><au>Zhang, Weiyi</au><au>Chen, Jiongjiong</au><au>Yan, Chenghuan</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Rapid identification of the purple stem (Ps) gene of Chinese kale (Brassica oleracea var. alboglabra) in a segregation distortion population by bulked segregant analysis and RNA sequencing</atitle><jtitle>Molecular breeding</jtitle><stitle>Mol Breeding</stitle><date>2017-12-01</date><risdate>2017</risdate><volume>37</volume><issue>12</issue><spage>1</spage><epage>9</epage><pages>1-9</pages><artnum>153</artnum><issn>1380-3743</issn><eissn>1572-9788</eissn><abstract>Abundant anthocyanins accumulate in many flowers, leaves, fruits, as well as stems. In this study, an F
2
segregating population derived from a cross between Chinese kale with a purple stem and kale with a green stem was used to decipher the genetic basis for the stem color. Bulked segregant analysis in combination with RNA sequencing (BSR-seq) was used to genetically map the causal gene for the purple stem (
Ps
), and the allele frequency difference between the two pools showed a single peak on chromosome C09.
Ps
was fine-mapped to the 0.32 cM interval with 406 kb sequences. A gene-encoding
dihydroflavonol 4-reductase
(
DFR
), an enzyme in the anthocyanin biosynthesis pathway, was differentially expressed between the two pools, and was identified as the candidate gene for the purple stem in Chinese kale. Sequence analysis revealed that 1 bp was inserted in the coding sequence of exon 2 of the
BoDRF
gene in green kale, causing frameshift and loss of function. The expression level of the
BoDFR
gene was significantly lower than the Chinese kale cultivar with a purple stem. The genetic results of the
Ps
gene will be useful for future development of purple vegetables.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><doi>10.1007/s11032-017-0752-3</doi><tpages>9</tpages><orcidid>https://orcid.org/0000-0003-3174-7257</orcidid></addata></record> |
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| issn | 1380-3743 1572-9788 |
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| source | Springer Nature - Complete Springer Journals |
| subjects | Anthocyanins Biomedical and Life Sciences Biosynthesis Biotechnology Brassica Brassica alboglabra Chromosomes Cultivars Flowers Gene expression Gene frequency Gene sequencing Kale Life Sciences Molecular biology Plant biology Plant Genetics and Genomics Plant Pathology Plant Physiology Plant Sciences Population studies Reductase Reductases Ribonucleic acid RNA Vegetables |
| title | Rapid identification of the purple stem (Ps) gene of Chinese kale (Brassica oleracea var. alboglabra) in a segregation distortion population by bulked segregant analysis and RNA sequencing |
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