title: Characterization of Genome-Wide Variation in Four-Row Wax, a Waxy Maize Landrace with a Reduced Kernel Row Phenotype.
abstract: In southwest China, some maize landraces have long been isolated geographically, and have phenotypes that differ from those of widely grown cultivars. These landraces may harbor rich genetic variation responsible for those phenotypes. Four-row Wax is one such landrace, with four rows of kernels on the cob. We resequenced the genome of Four-row Wax, obtaining 50.46 Gb sequence at 21.87× coverage, then identified and characterized 3,252,194 SNPs, 213,181 short InDels (1-5 bp) and 39,631 structural variations (greater than 5 bp). Of those, 312,511 (9.6%) SNPs were novel compared to the most detailed haplotype map (HapMap) SNP database of maize. Characterization of variations in reported kernel row number (KRN) related genes and KRN QTL regions revealed potential causal mutations in fea2, td1, kn1, and te1. Genome-wide comparisons revealed abundant genetic variations in Four-row Wax, which may be associated with environmental adaptation. The sequence and SNP variations described here enrich genetic resources of maize, and provide guidance into study of seed numbers for crop yield improvement.
authors.affiliation: College of Life Science, Sichuan Agricultural University Ya'an, China.
authors.forename: Hanmei
authors.initials: H
authors.lastname: Liu
authors.affiliation: Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming China.
authors.forename: Xuewen
authors.initials: X
authors.lastname: Wang
authors.affiliation: Maize Research Institute, Sichuan Agricultural University, Chengdu China.
authors.forename: Bin
authors.initials: B
authors.lastname: Wei
authors.affiliation: Maize Research Institute, Sichuan Agricultural University, Chengdu China.
authors.forename: Yongbin
authors.initials: Y
authors.lastname: Wang
authors.affiliation: Maize Research Institute, Sichuan Agricultural University, Chengdu China.
authors.forename: Yinghong
authors.initials: Y
authors.lastname: Liu
authors.affiliation: College of Life Science, Sichuan Agricultural University Ya'an, China.
authors.forename: Junjie
authors.initials: J
authors.lastname: Zhang
authors.affiliation: College of Agronomy, Sichuan Agricultural University, Chengdu China.
authors.forename: Yufeng
authors.initials: Y
authors.lastname: Hu
authors.affiliation: College of Agronomy, Sichuan Agricultural University, Chengdu China.
authors.forename: Guowu
authors.initials: G
authors.lastname: Yu
authors.affiliation: Seed Station of Xishuangbanna, Jinghong China.
authors.forename: Jian
authors.initials: J
authors.lastname: Li
authors.affiliation: Seed Station of Xishuangbanna, Jinghong China.
authors.forename: Zhanbin
authors.initials: Z
authors.lastname: Xu
authors.affiliation: Maize Research Institute, Sichuan Agricultural University, ChengduChina; College of Agronomy, Sichuan Agricultural University, ChengduChina.
authors.forename: Yubi
authors.initials: Y
authors.lastname: Huang
keywords: Four-row Wax; SNPs; genome-wide variations; kernel row number; landraces of Chinese waxy maize