AUTHOR=Qu Pingping , Wang Jiankang , Wen Weie , Gao Fengmei , Liu Jindong , Xia Xianchun , Peng Huiru , Zhang Luyan 

TITLE=Construction of Consensus Genetic Map With Applications in Gene Mapping of Wheat (Triticum aestivum L.) Using 90K SNP Array

JOURNAL=Frontiers in Plant Science

VOLUME=Volume 12 - 2021

YEAR=2021

URL=https://www.frontiersin.org/journals/plant-science/articles/10.3389/fpls.2021.727077

DOI=10.3389/fpls.2021.727077

ISSN=1664-462X

ABSTRACT=Wheat is one of the most important cereal crops worldwide. Consensus map combines genetic information from multiple populations, providing an effective alternative to improve the genome coverage and marker density. In this study, we constructed a consensus map from three populations of recombinant inbred lines (RILs) in wheat using 90K single nucleotide polymorphism (SNP) array. Phenotypic data on plant height (PH), spike length (SL) and thousand-kernel weight (TKW) was collected in six, four and four environments in the three populations, respectively, and then used for QTL mapping. The mapping results using the constructed consensus map were compared with previous results using individual maps and previous studies on other populations. Simulation experiment was also conducted to assess the performance of QTL mapping from consensus map. The constructed consensus map from the three populations spanned 4558.55 cM in length, with 25,667 SNPs, having high collinearity with physical map and individual maps. Based on the consensus map, 21, 27 and 19 stable QTLs were identified for PH, SL and TKW, respectively, much more than those detected from individual maps. Four PH QTLs and six SL QTLs were likely to be novel. A putative gene called TraesCS4D02G076400 encoding gibberellin regulated protein was identified to be the candidate gene for one major PH QTL located on 4DS, which may enrich the genetic resources in wheat semi-dwarfing breeding. Simulations results indicated that the length of confidence interval and standard errors of the detected QTLs using consensus map were much smaller than those using individual maps. Consensus map constructed in this study provides the underlying genetic information for systematic QTL mapping, QTL comparison and clustering, and gene discovery in wheat genetic study. QTLs detected in study with stable effects across environments can be used to improve the wide adaptation of wheat cultivars through marker-assisted breeding.