Favorable haplotypes and associated genes for flowering time

发布时间：2021-09-06 04:45

　　On the basis of growing environment, maize can largely be classified into temperate and tropical groups, leaving extensive genetic variation and evolutionary signatures in the maize genome. To identify candidate genes governing flowering time and photoperiod sensitivity, selective signature analysis and SNP-and haplotype-based GWAS were performed using 39,350 high-quality SNP markers in temperate and tropical maize groups consisting of 410 inbred lines phenotyped in three representative experime... 

【文章来源】：The Crop Journal. 2020,8(02)SCICSCD

【文章页数】：16 页

【文章目录】：
1. Introduction
2. Materials and methods
    2.1. Plant materials and data generation
    2.2. Field trial and phenotyping
    2.3. Population structure analysis
    2.4. Linkage disequilibrium analysis
    2.5. Calculation of FST,θπ,and Tajima's D statistic
    2.6. Identification of putative selective regions
    2.7. Functional enrichment analysis of candidate genes
    2.8. SNP-based GWAS
    2.9. Haplotype construction and haplotype-based GWAS
3. Results
    3.1. Genetic variation in flowering time and photoperiod sensitivity
    3.2. Phylogenetic relationship and LD revealed by SNPs
    3.3. Selective signatures and associated candidate genes revealed by GO analysis
    3.4. Selective-sweep regions associated with flowering time and photoperiod sensitivity
    3.5. Haplotype-based GWAS and favorable haplotypes identified
4. Discussion
    4.1. Importance of tropical germplasm resources
    4.2. Photoperiod sensitivity as a barrier for the use of tropical germplasm
    4.3. Combined use of FSTandθπratio to detect selective signatures
    4.4. Advantages of haplotype-based GWAS
    4.5. Combined use of selective signature analysis and GWAS in genetic studies
    4.6. Rapid LD decay in tropical maize
    4.7. Prospects for improving adaptability of tropical maize
5. Conclusions
Declaration of competing interest
Appendix A.Supplementary data


【参考文献】：
期刊论文
[1]The Genetic Architecture of Flowering Time and Photoperiod Sensitivity in Maize as Revealed by QTL Review and Meta Analysis[J]. Jie Xu1,2,Yaxi Liu3,Jian Liu1,2,Moju Cao1,2,Jing Wang1,2,Hai Lan1,2,Yunbi Xu4,5,Yanli Lu1,2,Guangtang Pan1,2 and Tingzhao Rong1,2 1Maize Research Institute,Sichuan Agricultural University,Wenjiang 611130,Sichuan,China 2Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region,Ministry of Agriculture,China 3Triticeae Research Institute,Sichuan Agricultural University,Wenjiang 611130,Sichuan,China 4Institute of Crop Sciences,National Key Facilities for Crop Genetic Resources and Improvement,Chinese Academy of Agricultural Sciences,Beijing 100081,China 5International Maize and Wheat Improvement Center(CIMMYT),El Bata’n 56130,Texcoco,Mexico.  Journal of Integrative Plant Biology. 2012(06)
[2]温热玉米杂交种基本营养生长期遗传的初步研究[J]. 陈彦惠,常胜合,吴连成.  华北农学报. 2000(02)



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