Detection of quantitative trait loci (QTL) associated with spring regrowth in alfalfa (Medicago sativa L.)

doi:10.1016/S2095-3119(21)63671-7

Journal of Integrative Agriculture ›› 2022, Vol. 21 ›› Issue (3): 812-818.DOI: 10.1016/S2095-3119(21)63671-7

收稿日期:2020-09-25 接受日期:2021-03-15 出版日期:2022-03-01 发布日期:2021-03-15

Detection of quantitative trait loci (QTL) associated with spring regrowth in alfalfa (Medicago sativa L.)

JIANG Xue-qian[Author]) AND 1[Journal]) AND year[Order])" target="_blank">JIANG Xue-qian^1*, ZHANG Fan^1*, WANG Zhen¹, LONG Rui-cai¹, LI Ming-na¹, HE Fei¹, YANG Xi-jiang¹, YANG Chang-fu¹, JIANG Xu¹, YANG Qing-chuan¹, WANG Quan-zhen², KANG Jun-mei¹

¹ Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, P. R.China
² College of Grassland Agriculture, Northwest A&F University, Yangling 712100, P. R.China

Received:2020-09-25 Accepted:2021-03-15 Online:2022-03-01 Published:2021-03-15
About author:JIANG Xue-qian, E-mail: xueq_jiang@163.com; Correspondence KANG Jun-mei, E-mail: kangjunmei@caas.cn * These authors contributed equally to this research.
Supported by:

This research was funded by the Ministry of Science and Technology of People’s Republic of China (2017YFE0111000/EUCLEG 727312) and the Agricultural Science and Technology Innovation Program, China (ASTIP-IAS14).

摘要/Abstract

摘要：

本研究的目的是利用我们在先前研究中构建的F₁杂交群体的高密度遗传连锁图谱定位与春季再生相关的数量性状位点（quantitative trait loci, QTL）。该群体包含392个子代，且亲本在春季再生性状上表现出明显的差异。在两个地点连续统计了两年的表型数据，并利用IciMapping软件进行QTL定位分析。利用单个环境中表型的平均值和最佳线性无偏预测（Best Linear Unbiased Prediction，BLUP）作为QTL定位的表型，总共鉴定到36个与春季再生性状显著关联的加性QTL。其中，有十个QTL分别解释了超过10％的表型变异（phenotypic variation, PVE），在P1亲本（父本）中有四个，P2亲本（母本）中有六个。在这些加性QTL中共有六个重叠的QTL区间，在P1和P2中分别有两个和四个。在P1中，两个重叠的区间都位于连锁群7D上。在P2中，PVE >10％的四个QTL在连锁群6D上定位到相同区间。此外，在P2中鉴定出六对显著的上位性QTL，而在P1中没有定位到上位性QTL。在四个重叠的QTL（qCP2019-8，qLF2019-5，qLF2020-4和qBLUP-3）所处区间内筛选到一个候选基因，该基因被注释为MAIL1，拟南芥中的同源基因在植株的生长中起重要作用。本研究定位到的QTLs是利用标记辅助选择对紫花苜蓿春季再生性状进行遗传改良的宝贵资源，鉴定的相关基因为深入了解紫花苜蓿春季再生的遗传特性提供依据。

Abstract: Spring regrowth is an important trait for perennial plants including alfalfa, the most cultivated forage legume worldwide. However, the genetic and genomic basis of the trait is largely unknown in alfalfa due to its complex genetic background of the tetroploid genome. The objective of this study was to identify quantitative trait loci (QTLs) associated with spring regrowth using high-resolution genetic linkage maps we constructed previously. In total, 36 significant additive effect QTLs for the trait were detected. Among them, 10 QTLs individually explained more than 10% of the phenotypic variation (PVE) with four in P1 and six in P2. Six overlapped QTLs intervals were detected with two and four intervals distributed in P1 and P2, respectively. In P1, both overlapped genomic regions were located on homolog 7D. In P2, the four QTLs with PVE>10% were co-localized on homolog 6D. Meanwhile, six pairs of significant epistatic QTLs were identified in P2. Screening of potential candidate genes associated with four overlapped QTLs (qCP2019-8, qLF2019-5, qLF2020-4, and qBLUP-3) narrowed down one candidate annotated as MAIL1. The Arabidopsis homolog gene has been reported to play an important role in plant growth. Therefore, the detected QTLs are valuable resources for genetic improvement of alfalfa spring vigor using marker-assisted selection (MAS), and further identification of the associated genes would provide insights into genetic control of spring regrowth in alfalfa.

Key words: alfalfa , GBS , genetic map , QTL , spring regrowth

. [J]. Journal of Integrative Agriculture, 2022, 21(3): 812-818.

JIANG Xue-qian, ZHANG Fan, WANG Zhen, LONG Rui-cai, LI Ming-na, HE Fei, YANG Xi-jiang, YANG Chang-fu, JIANG Xu, YANG Qing-chuan, WANG Quan-zhen, KANG Jun-mei. Detection of quantitative trait loci (QTL) associated with spring regrowth in alfalfa (Medicago sativa L.)[J]. Journal of Integrative Agriculture, 2022, 21(3): 812-818.

参考文献

Adhikari L, Lindstrom O M, Markham J, Missaoui A M. 2018. Dissecting key adaptation traits in the polyploid perennial Medicago sativa using GBS-SNP mapping. Frontiers in Plant Science, 9, 934.
Adhikari L, Makaju S O, Missaoui A M. 2019. QTL mapping of flowering time and biomass yield in tetraploid alfalfa (Medicago sativa L.). BMC Plant Biology, 19, 359.
Adhikari L, Missaoui A M. 2017. Nodulation response to molybdenum supplementation in alfalfa and its correlation with root and shoot growth in low pH soil. Journal of Plant Nutrition, 40, 2290–2302.
Adhikari L, Missaoui A M. 2019. Quantitative trait loci mapping of leaf rust resistance in tetraploid alfalfa. Physiological and Molecular Plant Pathology, 106, 238–245.
Bates D, Maechler M, Bolker B. 2012. lme4: linear mixed-effects models using S4 classes (R package version 1.1-21). [2019-03-05]. http://cran.r-project.org/web/packages/lme4/index.html
Chen C J, Chen H, Zhang Y, Thomas H R, Frank M H, He Y H, Xia R. 2020. TBtools: An Integrative toolkit developed for interactive analyses of big biological data. Molecular Plant, 13, 1194–1202.
Chen H, Zeng Y, Yang Y, Huang L, Tang B, Zhang H, Hao F, Liu W, Li Y, Liu Y, Zhang X, Zhang R, Zhang Y, Li Y, Wang K, He H, Wang Z, Fan G, Yang H, Bao A, et al. 2020. Allele-aware chromosome-level genome assembly and efficient transgene-free genome editing for the autotetraploid cultivated alfalfa. Nature Communications, 11, 2494.
Chen T, Zhu Y, Chen K, Shen C, Zhao X, Shabala S, Shabala L, Meinke H, Venkataraman G, Chen Z H, Xu J, Zhou M. 2020. Identification of new QTL for salt tolerance from rice variety Pokkali. Journal of Agronomy and Crop Science, 206, 202–213.
Francki M G, Walker E, Li D A, Forrest K. 2018. High-density SNP mapping reveals closely linked QTL for resistance to Stagonospora nodorum blotch (SNB) in flag leaf and glume of hexaploid wheat. Genome, 61, 145–149.
He F, Long R, Zhang T, Zhang F, Wang Z, Yang X, Jiang X, Yang C, Zhi X, Li M, Yu L, Kang J, Yang Q. 2020. Quantitative trait locus mapping of yield and plant height in autotetraploid alfalfa (Medicago sativa L.). Crop Journal, 8, 812–818.
Jing Q, Bélanger G, Baron V, Bonesmo H, Virkajärvi P, Young D. 2012. Regrowth simulation of the perennial grass timothy. Ecological Modelling, 232, 64–77.
Lei M, Li H, Zhang L, Wang J. 2015. QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations. Crop Journal, 3, 269–283.
Li X, Alarcón-Zúñiga B, Kang J, Nadeem Tahir M H, Jiang Q, Wei Y, Reyno R, Robins J G, Brummer E C. 2015. Mapping fall dormancy and winter injury in tetraploid alfalfa. Crop Science, 55, 1995–2011.
Liu Z Y, Baoyin T, Li X L, Wang Z L. 2019. How fall dormancy benefits alfalfa winter-survival? Physiologic and transcriptomic analyses of dormancy process. BMC Plant Biology, 19, 205.
McCord P, Gordon V, Saha G, Hellinga J, Vandemark G, Larsen R, Smith M, Miller D. 2014. Detection of QTL for forage yield, lodging resistance and spring vigor traits in alfalfa (Medicago sativa L.). Euphytica, 200, 269–279.
Munjal G, Hao J, Teuber LR, Brummer EC. 2018. Selection mapping identifies loci underpinning autumn dormancy in alfalfa (Medicago sativa). G3 (Bethesda), 8, 461–468.
Radovic J, Sokolovic D, Markovic J. 2009. Alfalfa-most important perennial forage legume in animal husbandry. Biotechnology in Animal Husbandry, 25, 465–475.
Rahman M A, Bimpong I K, Bizimana J B, Pascual E D, Arceta M, Swamy B P M, Diaw F, Rahman M S, Singh R K. 2017. Mapping QTLs using a novel source of salinity tolerance from Hasawi and their interaction with environments in rice. Rice, 10, 47.
Ray I M, Han Y, Lei E, Meenach C D, Monteros M J. 2015. Identification of quantitative trait loci for alfalfa forage biomass productivity during drought stress. Crop Science, 55, 2012–2033.
Sakiroglu M, Brummer E C. 2017. Identification of loci controlling forage yield and nutritive value in diploid alfalfa using GBS-GWAS. Theoretical and Applied Genetics, 130, 261–268.
Uhlken C, Horvath B, Stadler R, Sauer N, Weingartner M. 2014. MAIN-LIKE1 is a crucial factor for correct cell division and differentiation in Arabidopsis thaliana. The Plant Journal, 78, 107–120.
Yang G, Zhai H, Wu H Y, Zhang X Z, Lü S X, Wang Y Y, Li Y Q, Hu B, Wang L, Wen Z X, Wang D C, Wang S D, Harada K, Xia Z J, Xie F T. 2017. QTL effects and epistatic interaction for flowering time and branch number in a soybean mapping population of Japanese×Chinese cultivars, Journal of Integrative Agriculture, 9, 1900–1912.
Yu X, Pijut P M, Byrne S, Asp T, Bai G, Jiang Y. 2015. Candidate gene association mapping for winter survival and spring regrowth in perennial ryegrass. Plant Science, 235, 37–45.
Zhang F, Kang J, Long R, Yu L X, Sun Y, Wang Z, Zhao Z, Zhang T, Yang Q. 2020. Construction of high-density genetic linkage map and mapping quantitative trait loci (qtl) for flowering time in autotetraploid alfalfa (Medicago sativa L.) using genotyping by sequencing. The Plant Genome, 13, e20045.
Zhang F, Kang J, Long R, Yu L X, Wang Z, Zhao Z, Zhang T, Yang Q. 2019. High-density linkage map construction and mapping QTL for yield and yield components in autotetraploid alfalfa using RAD-seq. BMC Plant Biology, 19, 165.
Zhang X, Huang C, Wu D, Qiao F, Li W, Duan L, Wang K, Xiao Y, Chen G, Liu Q, Xiong L, Yang W, Yan J. 2017. High-throughput phenotyping and qtl mapping reveals the genetic architecture of maize plant growth. Plant Physiology, 173, 1554–1564.

Detection of quantitative trait loci (QTL) associated with spring regrowth in alfalfa (Medicago sativa L.)

可视化

摘要/Abstract

引用本文

使用本文

参考文献

相关文章 0

编辑推荐

Metrics