QTL mapping reveals candidate genes for main agronomic traits in Luffa based on a high-resolution genetic map
Luffa is an important medicinal and edible vegetable crop of Cucurbitaceae. Strong heterosis effects and strikingly complementary characteristics were found between the two domesticated Luffa cultivars, Luffa acutangula and Luffa cylindrica. To explore the genetic basis underlying their important ag...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-11-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2022.1069618/full |
| _version_ | 1797983568379510784 |
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| author | Lili Liu Yaqin Gan Yaqin Gan Jianning Luo Jianning Luo Junxing Li Xiaoming Zheng Hao Gong Xiaoxi Liu Liting Deng Gangjun Zhao Haibin Wu Haibin Wu |
| author_facet | Lili Liu Yaqin Gan Yaqin Gan Jianning Luo Jianning Luo Junxing Li Xiaoming Zheng Hao Gong Xiaoxi Liu Liting Deng Gangjun Zhao Haibin Wu Haibin Wu |
| author_sort | Lili Liu |
| collection | DOAJ |
| description | Luffa is an important medicinal and edible vegetable crop of Cucurbitaceae. Strong heterosis effects and strikingly complementary characteristics were found between the two domesticated Luffa cultivars, Luffa acutangula and Luffa cylindrica. To explore the genetic basis underlying their important agronomic traits, we constructed the first interspecific high-density genetic linkage map using a BC1 population of 110 lines derived from a cross between S1174 (Luffa acutangula) and P93075 (Luffa cylindrica). The map spanned a total of 2246.74 cM with an average distance of 0.48 cM between adjacent markers. Thereafter, a large-scale field-based quantitative trait loci (QTLs) mapping was conducted for 25 important agronomic traits and 40 significant genetic loci distributed across 11 chromosomes were detected. Notably, a vital QTL (qID2) located on chromosome 9 with a minimum distance of 23 kb was identified to be responsible for the internode diameter and explained 11% of the phenotypic variation. Lac09g006860 (LacCRWN3), encoding a nuclear lamina protein involved in the control of nuclear morphology, was the only gene harbored in qID2. Sequence alignment showed completely different promoter sequences between the two parental alleles of LacCRWN3 except for some nonsynonymous single nucleotide polymorphisms (SNPs) in exons, and the expression level in thick-stem P93075 was distinctively higher than that in thin-stem S1174. According to the natural variation analysis of a population of 183 inbred lines, two main haplotypes were found for LacCRWN3: the P93075-like and S1174-like, with the former haplotype lines exhibiting significantly thicker internode diameters than those of the latter haplotype lines. It showed that LacCRWN3, as the only CRWN3 gene in Cucurbitaceae, was the most likely candidate gene regulating the internode diameter of Luffa. Our findings will be beneficial for deciphering the molecular mechanism of key phenotypic traits and promoting maker-assisted breeding in Luffa. |
| first_indexed | 2024-04-11T06:49:29Z |
| format | Article |
| id | doaj.art-bbc67bceef3b4686acf37ba5994cf7cb |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-04-11T06:49:29Z |
| publishDate | 2022-11-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-bbc67bceef3b4686acf37ba5994cf7cb2022-12-22T04:39:15ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2022-11-011310.3389/fpls.2022.10696181069618QTL mapping reveals candidate genes for main agronomic traits in Luffa based on a high-resolution genetic mapLili Liu0Yaqin Gan1Yaqin Gan2Jianning Luo3Jianning Luo4Junxing Li5Xiaoming Zheng6Hao Gong7Xiaoxi Liu8Liting Deng9Gangjun Zhao10Haibin Wu11Haibin Wu12Guangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, ChinaGuangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, ChinaCollege of Coastal Agricultural Sciences, Guangdong Ocean University, Zhanjiang, ChinaGuangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, ChinaGuangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, ChinaGuangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, ChinaGuangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, ChinaGuangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, ChinaGuangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, ChinaGuangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, ChinaGuangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, ChinaGuangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, ChinaGuangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, ChinaLuffa is an important medicinal and edible vegetable crop of Cucurbitaceae. Strong heterosis effects and strikingly complementary characteristics were found between the two domesticated Luffa cultivars, Luffa acutangula and Luffa cylindrica. To explore the genetic basis underlying their important agronomic traits, we constructed the first interspecific high-density genetic linkage map using a BC1 population of 110 lines derived from a cross between S1174 (Luffa acutangula) and P93075 (Luffa cylindrica). The map spanned a total of 2246.74 cM with an average distance of 0.48 cM between adjacent markers. Thereafter, a large-scale field-based quantitative trait loci (QTLs) mapping was conducted for 25 important agronomic traits and 40 significant genetic loci distributed across 11 chromosomes were detected. Notably, a vital QTL (qID2) located on chromosome 9 with a minimum distance of 23 kb was identified to be responsible for the internode diameter and explained 11% of the phenotypic variation. Lac09g006860 (LacCRWN3), encoding a nuclear lamina protein involved in the control of nuclear morphology, was the only gene harbored in qID2. Sequence alignment showed completely different promoter sequences between the two parental alleles of LacCRWN3 except for some nonsynonymous single nucleotide polymorphisms (SNPs) in exons, and the expression level in thick-stem P93075 was distinctively higher than that in thin-stem S1174. According to the natural variation analysis of a population of 183 inbred lines, two main haplotypes were found for LacCRWN3: the P93075-like and S1174-like, with the former haplotype lines exhibiting significantly thicker internode diameters than those of the latter haplotype lines. It showed that LacCRWN3, as the only CRWN3 gene in Cucurbitaceae, was the most likely candidate gene regulating the internode diameter of Luffa. Our findings will be beneficial for deciphering the molecular mechanism of key phenotypic traits and promoting maker-assisted breeding in Luffa.https://www.frontiersin.org/articles/10.3389/fpls.2022.1069618/fullLuffagenetic linkage mapvital agronomic traitsQTL mappingcandidate geneshaplotype analysis |
| spellingShingle | Lili Liu Yaqin Gan Yaqin Gan Jianning Luo Jianning Luo Junxing Li Xiaoming Zheng Hao Gong Xiaoxi Liu Liting Deng Gangjun Zhao Haibin Wu Haibin Wu QTL mapping reveals candidate genes for main agronomic traits in Luffa based on a high-resolution genetic map Frontiers in Plant Science Luffa genetic linkage map vital agronomic traits QTL mapping candidate genes haplotype analysis |
| title | QTL mapping reveals candidate genes for main agronomic traits in Luffa based on a high-resolution genetic map |
| title_full | QTL mapping reveals candidate genes for main agronomic traits in Luffa based on a high-resolution genetic map |
| title_fullStr | QTL mapping reveals candidate genes for main agronomic traits in Luffa based on a high-resolution genetic map |
| title_full_unstemmed | QTL mapping reveals candidate genes for main agronomic traits in Luffa based on a high-resolution genetic map |
| title_short | QTL mapping reveals candidate genes for main agronomic traits in Luffa based on a high-resolution genetic map |
| title_sort | qtl mapping reveals candidate genes for main agronomic traits in luffa based on a high resolution genetic map |
| topic | Luffa genetic linkage map vital agronomic traits QTL mapping candidate genes haplotype analysis |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2022.1069618/full |
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