scholarly journals Detection of Favorable QTL Alleles and Candidate Genes for Lint Percentage by GWAS in Chinese Upland Cotton

2016 ◽  
Vol 7 ◽  
Author(s):  
Junji Su ◽  
Shuli Fan ◽  
Libei Li ◽  
Hengling Wei ◽  
Caixiang Wang ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Upland Cotton ◽  
Lint Percentage

scholarly journals Genome-wide Association Study Reveals Novel Quantitative Trait Loci and Candidate Genes of Lint Percentage in Upland Cotton Based on the CottonSNP80K Array

2021 ◽  
Author(s):  
Yu Chen ◽  
Yang Gao ◽  
Pengyun Chen ◽  
Juan Zhou ◽  
Chuanyun Zhang ◽  
...  
Keyword(s):  
Association Study ◽  
Candidate Genes ◽  
Upland Cotton ◽  
Molecular Mechanisms ◽  
Genome Wide Association Study ◽  
Genome Wide Association ◽  
Oilseed Crop ◽  
Cotton Production ◽  
Lint Percentage ◽  
Genome Wide

Abstract Cotton (Gossypium spp.) is an important natural textile fiber and oilseed crop widely cultivated in the world. Lint percentage (LP, %) is one of the important yield factor, thus increasing lint percentage is a core goal of cotton breeding improvement. However, the underlying genetic and molecular mechanisms that control lint percentage in upland cotton remain largely unknown. Here, we performed a Genome-wide association study (GWAS) for LP based on phenotypic tests of 254 upland cotton accessions in four environments and BLUPs using the high-density CottonSNP80K array. A total of 41,413 high-quality single-nucleotide polymorphisms (SNPs) were screened and 34 SNPs within 22 QTLs were identified as significantly associated with lint percentage trait in different environments. In total, 175 candidate genes were identified from two major genomic loci (GR1 and GR2) of upland cotton and 50 hub genes were identified through GO enrichment and WGCNA analysis. Furthermore, two candidate/causal genes, Gh_D01G0162 and Gh_D07G0463, which pleiotropically increased lint percentage were identified and further verified its function through LD blocks, haplotypes and qRT-PCR analysis. Co-expression network analysis showed that the candidate/causal and hub gene, Gh_D07G0463, was significantly related to another candidate gene, Gh_D01G0162, and the simultaneous pyramid of the two genes lays the foundation for a more efficient increase in cotton production. Our study provides crucial insights into the genetic and molecular mechanisms underlying variations of yield traits and serves as an important foundation for lint percentage improvement via marker-assisted breeding.

scholarly journals Fine mapping and identification of candidate genes for a QTL affecting Meloidogyne incognita reproduction in Upland cotton

BMC Genomics ◽  
2016 ◽  
Vol 17 (1) ◽  
Author(s):  
Pawan Kumar ◽  
Yajun He ◽  
Rippy Singh ◽  
Richard F. Davis ◽  
Hui Guo ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Fine Mapping ◽  
Meloidogyne Incognita ◽  
Upland Cotton

scholarly journals Correlations and selection of parents to technological traits of upland cotton

2019 ◽  
Vol 49 (6) ◽  
Author(s):  
Luiz Paulo de Carvalho ◽  
Francisco José Correia Farias ◽  
Josiane Isabela Silva Rodrigues ◽  
Katiane Secco Castro ◽  
Alan Mario Zuffo ◽  
...  
Keyword(s):  
Textile Industry ◽  
Upland Cotton ◽  
Fiber Strength ◽  
Diallel Analysis ◽  
Additive Effects ◽  
Lint Percentage ◽  
Medium Length ◽  
The Mean ◽  
Selection Of ◽  
Partial Diallel

ABSTRACT: Technological traits improvement of cotton fiber is a constant demand by textile industry. This research aimed to identify the potential of improved materials with high lint percentage to contribute with alleles that increase the lint percentage in Extra long staple fiber (ELS) upland cotton. Two contrasting materials for lint percentage (LP) and fiber length (FL) were used, one with long fiber and a low lint percentage (parent A) and another with high lint percentage and medium length (parent B). The following variables were evaluated: lint percentage (LP), upper half mean length (UHML), fiber uniformity (FU), fiber strength (FS), and elongation (EL). Diallel analysis was performed using the Griffing’s Method 4 adapted to partial diallel. Additive effects were predominant over non-additive effects. The mean LP was higher when using parent B. The opposite occurred for UHML. A negative correlation was detected between LP and UHML, showing the difficulty of obtaining genetic gain for both traits at the same time.

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