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Zhou, Xiaojian
- Genomic Variation Mapping and Detection of Novel Genes Based on Genome-Wide Survey of an Elite Upland Cotton Hybrid (Gossypium hirsutum L.)
Abstract Views :204 |
PDF Views:72
Authors
Zhenyu Wang
1,
Wei Li
1,
Guanghui Xiao
2,
Xiaojian Zhou
1,
Xiaoyu Pei
1,
Yangai Liu
1,
Kehai Zhou
1,
Kunlun He
1,
Junfang Liu
1,
Ying Li
1,
Wensheng Zhang
1,
Zhongying Ren
1,
Qingqin Meng
1,
Haifeng Wang
1,
Xiongfeng Ma
1,
Daigang Yang
1
Affiliations
1 State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, CN
2 College of Life Sciences, Shaanxi Normal University, Xi’an 710119, CN
1 State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, CN
2 College of Life Sciences, Shaanxi Normal University, Xi’an 710119, CN
Source
Current Science, Vol 115, No 4 (2018), Pagination: 701-709Abstract
CCRI63, with the largest cultivated area among hybrids in China, is a successful promotion of elite up-land cotton (Gossypium hirsutum L.) hybrid cultivar. We have constructed a detailed genomic variation map of CCRI63 by aligning whole-genome shotgun sequencing reads from CCRI63 to the TM-1 reference genome. Genomic single nucleotide poly-morphism (SNP) and insertion-deletion (Indel) muta-tional hotspots were identified, most of which were located on chromosome D02, and associated with dis-ease resistance and lipid glycosylation and modification. The density of heterozygous SNP sites showed 73 quantitative trait loci overlapped with peak intervals of high-density heterozygous SNPs, suggesting that the heterozygous sites in the peak are important for improvement of CCRI63 yield and fibre quality. To avoid loss of genetic components, unmapped reads were used for de novo assembly of the missing regions in the reference genome, and 153 novel functional genes were obtained. The large-scale genetic variation and novel functional genes identified in the CCRI63 genome can facilitate future gene-phenotype studies and provide an additional resource for the improvement of cotton.Keywords
Cotton Hybrid, Genomic Variation Map, Mutational Hotspots, Novel Genes.Full Text
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