Combination of multi-locus genome-wide association study and QTL mapping reveals genetic basis of tassel architecture in maize
Autor: | Fei Ge, Langlang Ma, Yao Yiming, Jie Chen, Xiaoxiang Zhang, Guangtang Pan, Zhongrong Guan, Yinchao Zhang, Yaou Shen, Chaoying Zou, Peng Liu, Huanwei Peng, Biao Zhang, Yanli Wang, Qian Zhang |
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Rok vydání: | 2019 |
Předmět: |
0106 biological sciences
0301 basic medicine Candidate gene Quantitative Trait Loci Population Tassel Genome-wide association study Single-nucleotide polymorphism Locus (genetics) Biology Quantitative trait locus Genes Plant Zea mays 01 natural sciences 03 medical and health sciences Genetics education Molecular Biology Alleles education.field_of_study General Medicine Phenotype 030104 developmental biology Doubled haploidy Gene-Environment Interaction Genome-Wide Association Study 010606 plant biology & botany |
Zdroj: | Molecular Genetics and Genomics. 294:1421-1440 |
ISSN: | 1617-4623 1617-4615 |
DOI: | 10.1007/s00438-019-01586-4 |
Popis: | Maize tassel architecture is a complex quantitative trait that is significantly correlated with biomass yield and grain yield. The present study evaluated the major trait of maize tassel architecture, namely, tassel branch number (TBN), in an association population of 359 inbred lines and an IBM Syn 10 population of 273 doubled haploid lines across three environments. Approximately 43,958 high-quality single nucleotide polymorphisms were utilized to detect significant QTNs associated with TBN based on new multi-locus genome-wide association study methods. There were 30, 38, 73, 40, 47, and 53 QTNs associated with tassel architecture that were detected using the FastmrEMMA, FastmrMLM, EM-BLASSO, mrMLM, pkWMEB, and pLARmEB models, respectively. Among these QTNs, 51 were co-identified by at least two of these methods. In addition, 12 QTNs were consistently detected across multiple environments. Furthermore, 19 QTLs distributed on chromosomes 1, 2, 3, 4, 6, and 7 were detected in 3 environments and the BLUP model based on 6618 bin markers, which explained 3.64-10.96% of the observed phenotypic variations in TBN. Of these, three QTLs were co-detected in two environments. One QTN associated with TBN was localized to one QTL. Approximately 55 candidate genes were detected by common QTNs and LD criteria. One candidate gene, Zm00001d016615, was identified as a putative target of the RA1 gene. Meanwhile, RA1 was previously validated to plays an important role in tassel development. In addition, the newly identified candidate genes Zm00001d003939, Zm00001d030212, Zm00001d011189, and Zm00001d042794 have been reported to involve in a spikelet meristem identity module. The findings of the present study improve our understanding of the genetic basis of tassel architecture in maize. |
Databáze: | OpenAIRE |
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