RAD-Seq-Based High-Density Linkage Maps Construction and Quantitative Trait Loci Mapping of Flowering Time Trait in Alfalfa (Medicago sativa L.)
Alfalfa (Medicago sativa L.) is a perennial forage crop known as the “Queen of Forages.” To dissect the genetic mechanism of flowering time (FT) in alfalfa, high−density linkage maps were constructed for both parents of an F1 mapping population derived from a cross between Cangzhou (P1) and ZhongmuN...
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Frontiers Media S.A.
2022-05-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2022.899681/full |
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| author | Xueqian Jiang Tianhui Yang Fan Zhang Xijiang Yang Changfu Yang Fei He Ruicai Long Ting Gao Yiwei Jiang Qingchuan Yang Zhen Wang Junmei Kang |
| author_facet | Xueqian Jiang Tianhui Yang Fan Zhang Xijiang Yang Changfu Yang Fei He Ruicai Long Ting Gao Yiwei Jiang Qingchuan Yang Zhen Wang Junmei Kang |
| author_sort | Xueqian Jiang |
| collection | DOAJ |
| description | Alfalfa (Medicago sativa L.) is a perennial forage crop known as the “Queen of Forages.” To dissect the genetic mechanism of flowering time (FT) in alfalfa, high−density linkage maps were constructed for both parents of an F1 mapping population derived from a cross between Cangzhou (P1) and ZhongmuNO.1 (P2), consisting of 150 progenies. The FT showed a transgressive segregation pattern in the mapping population. A total of 13,773 single-nucleotide polymorphism markers was obtained by using restriction-site associated DNA sequencing and distributed on 64 linkage groups, with a total length of 3,780.49 and 4,113.45 cM and an average marker interval of 0.58 and 0.59 cM for P1 and P2 parent, respectively. Quantitative trait loci (QTL) analyses were performed using the least square means of each year as well as the best linear unbiased prediction values across 4 years. Sixteen QTLs for FT were detected for P1 and 22 QTLs for P2, accounting for 1.40–16.04% of FT variation. RNA-Seq analysis at three flowering stages identified 5,039, 7,058, and 7,996 genes that were differentially expressed between two parents, respectively. Based on QTL mapping, DEGs analysis, and functional annotation, seven candidate genes associated with flowering time were finally detected. This study discovered QTLs and candidate genes for alfalfa FT, making it a useful resource for breeding studies on this essential crop. |
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| last_indexed | 2024-04-12T13:06:38Z |
| publishDate | 2022-05-01 |
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| spelling | doaj.art-0f1fd0fd187a481f85ffaa24f680bcf12022-12-22T03:31:59ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2022-05-011310.3389/fpls.2022.899681899681RAD-Seq-Based High-Density Linkage Maps Construction and Quantitative Trait Loci Mapping of Flowering Time Trait in Alfalfa (Medicago sativa L.)Xueqian Jiang0Tianhui Yang1Fan Zhang2Xijiang Yang3Changfu Yang4Fei He5Ruicai Long6Ting Gao7Yiwei Jiang8Qingchuan Yang9Zhen Wang10Junmei Kang11Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, ChinaInstitute of Animal Science, Ningxia Academy of Agricultural and Forestry Sciences, Yinchuan, ChinaInstitute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, ChinaInstitute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, ChinaInstitute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, ChinaInstitute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, ChinaInstitute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, ChinaInstitute of Animal Science, Ningxia Academy of Agricultural and Forestry Sciences, Yinchuan, ChinaDepartment of Agronomy, Purdue University, West Lafayette, IN, United StatesInstitute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, ChinaInstitute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, ChinaInstitute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, ChinaAlfalfa (Medicago sativa L.) is a perennial forage crop known as the “Queen of Forages.” To dissect the genetic mechanism of flowering time (FT) in alfalfa, high−density linkage maps were constructed for both parents of an F1 mapping population derived from a cross between Cangzhou (P1) and ZhongmuNO.1 (P2), consisting of 150 progenies. The FT showed a transgressive segregation pattern in the mapping population. A total of 13,773 single-nucleotide polymorphism markers was obtained by using restriction-site associated DNA sequencing and distributed on 64 linkage groups, with a total length of 3,780.49 and 4,113.45 cM and an average marker interval of 0.58 and 0.59 cM for P1 and P2 parent, respectively. Quantitative trait loci (QTL) analyses were performed using the least square means of each year as well as the best linear unbiased prediction values across 4 years. Sixteen QTLs for FT were detected for P1 and 22 QTLs for P2, accounting for 1.40–16.04% of FT variation. RNA-Seq analysis at three flowering stages identified 5,039, 7,058, and 7,996 genes that were differentially expressed between two parents, respectively. Based on QTL mapping, DEGs analysis, and functional annotation, seven candidate genes associated with flowering time were finally detected. This study discovered QTLs and candidate genes for alfalfa FT, making it a useful resource for breeding studies on this essential crop.https://www.frontiersin.org/articles/10.3389/fpls.2022.899681/fullalfalfaflowering timegenetic mapQTLRAD-seqRNA-seq |
| spellingShingle | Xueqian Jiang Tianhui Yang Fan Zhang Xijiang Yang Changfu Yang Fei He Ruicai Long Ting Gao Yiwei Jiang Qingchuan Yang Zhen Wang Junmei Kang RAD-Seq-Based High-Density Linkage Maps Construction and Quantitative Trait Loci Mapping of Flowering Time Trait in Alfalfa (Medicago sativa L.) Frontiers in Plant Science alfalfa flowering time genetic map QTL RAD-seq RNA-seq |
| title | RAD-Seq-Based High-Density Linkage Maps Construction and Quantitative Trait Loci Mapping of Flowering Time Trait in Alfalfa (Medicago sativa L.) |
| title_full | RAD-Seq-Based High-Density Linkage Maps Construction and Quantitative Trait Loci Mapping of Flowering Time Trait in Alfalfa (Medicago sativa L.) |
| title_fullStr | RAD-Seq-Based High-Density Linkage Maps Construction and Quantitative Trait Loci Mapping of Flowering Time Trait in Alfalfa (Medicago sativa L.) |
| title_full_unstemmed | RAD-Seq-Based High-Density Linkage Maps Construction and Quantitative Trait Loci Mapping of Flowering Time Trait in Alfalfa (Medicago sativa L.) |
| title_short | RAD-Seq-Based High-Density Linkage Maps Construction and Quantitative Trait Loci Mapping of Flowering Time Trait in Alfalfa (Medicago sativa L.) |
| title_sort | rad seq based high density linkage maps construction and quantitative trait loci mapping of flowering time trait in alfalfa medicago sativa l |
| topic | alfalfa flowering time genetic map QTL RAD-seq RNA-seq |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2022.899681/full |
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