title: Identification and Fine Mapping of a Stably Expressed QTL for Cold Tolerance at the Booting Stage Using an Interconnected Breeding Population in Rice.
abstract: Cold stress is one of the major abiotic stresses that impede rice production. A interconnected breeding (IB) population consisted of 497 advanced lines developed using HHZ as the recurrent parent and eight diverse elite indica lines as the donors were used to identify stably expressed QTLs for CT at the booting stage. A total of 41,754 high-quality SNPs were obtained through re-sequencing of the IB population. Phenotyping was conducted under field conditions in two years and three locations. Association analysis identified six QTLs for CT on the chromosomes 3, 4 and 12. QTL qCT-3-2 that showed stable CT across years and locations was fine-mapped to an approximately 192.9 kb region. Our results suggested that GWAS applied to an IB population allows better integration of gene discovery and breeding. QTLs can be mapped in high resolution and quickly utilized in breeding.
authors.affiliation: Institute of Crop Sciences/National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.|Agricultural Genomics Institute, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.|Shenzhen Institute of Breeding and Innovation, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.
authors.forename: Yajun
authors.initials: Y
authors.lastname: Zhu
authors.affiliation: Institute of Crop Sciences/National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.|Agricultural Genomics Institute, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.|Shenzhen Institute of Breeding and Innovation, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.
authors.forename: Kai
authors.initials: K
authors.lastname: Chen
authors.affiliation: Agricultural Genomics Institute, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.
authors.forename: Xuefei
authors.initials: X
authors.lastname: Mi
authors.affiliation: Institute of Crop Sciences/National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
authors.forename: Tianxiao
authors.initials: T
authors.lastname: Chen
authors.affiliation: International Rice Research Institute, DAPO box 7777, Metro Manila, the Philippines.
authors.forename: Jauhar
authors.initials: J
authors.lastname: Ali
authors.affiliation: International Rice Research Institute, DAPO box 7777, Metro Manila, the Philippines.
authors.forename: Guoyou
authors.initials: G
authors.lastname: Ye
authors.affiliation: Institute of Crop Sciences/National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.|Agricultural Genomics Institute, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.|Shenzhen Institute of Breeding and Innovation, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.
authors.forename: Jianlong
authors.initials: J
authors.lastname: Xu
authors.affiliation: Institute of Crop Sciences/National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.|Shenzhen Institute of Breeding and Innovation, Chinese Academy of Agricultural Sciences, Shenzhen, 518120, China.
authors.forename: Zhikang
authors.initials: Z
authors.lastname: Li
mesh_terms: D002874:Chromosome Mapping; D058639:Cold-Shock Response / Q000235:genetics*; D018506:Gene Expression Regulation, Plant; D012275:Oryza / Q000235:genetics* / Q000502:physiology*; D000069600:Plant Breeding; D020641:Polymorphism, Single Nucleotide; D040641:Quantitative Trait Loci / Q000235:genetics*