Saroha Ankit, Pal Deepa, Gomashe Sunil S, Kaur Vikender, Ujjainwal Shraddha, Rajkumar S, Aravind J, Radhamani J, Kumar Rajesh, Chand Dinesh, Sengupta Abhishek, Wankhede Dhammaprakash Pandhari
Division of Genomic Resources, Indian Council of Agricultural Research (ICAR)-National Bureau of Plant Genetic Resources, New Delhi, India.
Amity Institute of Biotechnology, Amity University, Noida, India.
Front Genet. 2022 Jun 14;13:811924. doi: 10.3389/fgene.2022.811924. eCollection 2022.
Early flowering, maturity, and plant height are important traits for linseed to fit in rice fallows, for rainfed agriculture, and for economically viable cultivation. Here, Multi-Locus Genome-Wide Association Study (ML-GWAS) was undertaken in an association mapping panel of 131 accessions, genotyped using 68,925 SNPs identified by genotyping by sequencing approach. Phenotypic evaluation data of five environments comprising 3 years and two locations were used. GWAS was performed for three flowering time traits including days to 5%, 50%, and 95% flowering, days to maturity, and plant height by employing five ML-GWAS methods: FASTmrEMMA, FASTmrMLM, ISIS EM-BLASSO, mrMLM, and pLARmEB. A total of 335 unique QTNs have been identified for five traits across five environments. 109 QTNs were stable as observed in ≥2 methods and/or environments, explaining up to 36.6% phenotypic variance. For three flowering time traits, days to maturity, and plant height, 53, 30, and 27 stable QTNs, respectively, were identified. Candidate genes having roles in flower, pollen, embryo, seed and fruit development, and xylem/phloem histogenesis have been identified. Gene expression of candidate genes for flowering and plant height were studied using transcriptome of an early maturing variety (IC0523807). The present study unravels QTNs/candidate genes underlying complex flowering, days to maturity, and plant height traits in linseed.
早熟、成熟和株高是亚麻籽适应水稻休耕、雨养农业以及实现经济可行种植的重要性状。在此，我们在一个由131份材料组成的关联作图群体中开展了多位点全基因组关联研究（ML-GWAS），利用测序基因分型方法鉴定的68,925个单核苷酸多态性（SNP）对该群体进行基因分型。使用了包含3年和2个地点的5个环境的表型评估数据。通过采用5种ML-GWAS方法：FASTmrEMMA、FASTmrMLM、ISIS EM-BLASSO、mrMLM和pLARmEB，对3个开花时间性状（包括5%、50%和95%开花天数）、成熟天数和株高进行了GWAS分析。在5个环境中，共鉴定出335个与5个性状相关的独特数量性状位点（QTN）。在≥2种方法和/或环境中观察到109个稳定的QTN，解释了高达36.6%的表型变异。对于3个开花时间性状、成熟天数和株高，分别鉴定出53个、30个和27个稳定的QTN。已鉴定出在花、花粉、胚、种子和果实发育以及木质部/韧皮部组织发生中起作用的候选基因。利用一个早熟品种（IC0523807）的转录组研究了开花和株高候选基因的表达。本研究揭示了亚麻籽复杂开花、成熟天数和株高性状潜在的QTN/候选基因。
