QTL Mapping of Fiber Quality and Yield-Related Traits in an Intra-Specific Upland Cotton Using Genotype by Sequencing (GBS)

Publication Overview
TitleQTL Mapping of Fiber Quality and Yield-Related Traits in an Intra-Specific Upland Cotton Using Genotype by Sequencing (GBS)
AuthorsDiouf L, Magwanga RO, Gong W, He S, Pan Z, Jia YH, Kirungu JN, Du X
TypeJournal Article
Journal NameInternational journal of molecular sciences
Volume19
Issue2
Year2018
CitationDiouf L, Magwanga RO, Gong W, He S, Pan Z, Jia YH, Kirungu JN, Du X. QTL Mapping of Fiber Quality and Yield-Related Traits in an Intra-Specific Upland Cotton Using Genotype by Sequencing (GBS). International journal of molecular sciences. 2018 Feb 01; 19(2).

Abstract

Fiber quality and yield improvement are crucial for cotton domestication and breeding. With the transformation in spinning techniques and multiplicity needs, the development of cotton fiber quality and yield is of great importance. A genetic map of 5178 Single Nucleotide Polymorphism (SNP) markers were generated using 277 F2:3 population, from an intra-specific cross between two upland cotton accessions, CCRI35 a high fiber quality as female and Nan Dan Ba Di Da Hua (NH), with good yield properties as male parent. The map spanned 4768.098 cM with an average distance of 0.92 cM. A total of 110 Quantitative Traits Loci (QTLs) were identified for 11 traits, but only 30 QTLs were consistent in at least two environments. The highest percentage of phenotypic variance explained by a single QTL was 15.45%. Two major cluster regions were found, cluster 1 (chromosome17-D03) and cluster 2 (chromosome26-D12). Five candidate genes were identified in the two QTL cluster regions. Based on GO functional annotation, all the genes were highly correlated with fiber development, with functions such as protein kinase and phosphorylation. The five genes were associated with various fiber traits as follows: Gh_D03G0889 linked to qFM-D03_cb, Gh_D12G0093, Gh_D12G0410, Gh_D12G0435 associated with qFS-D12_cb and Gh_D12G0969 linked to qFY-D12_cb. Further structural annotation and fine mapping is needed to determine the specific role played by the five identified genes in fiber quality and yield related pathway.

Germplasm
This publication contains information about 2 stocks:
Stock NameGRIN IDSpeciesType
Nandan Badi Big FlowerGossypium hirsutumaccession
CCRI-35 x NH, F2:3Gossypium hirsutumpopulation
Features
This publication contains information about 5,441 features:
Feature NameUniquenameType
CCRI_SNP_mk10047_A13CCRI_SNP_mk10047_A13genetic_marker
CCRI_SNP_mk10048_A13CCRI_SNP_mk10048_A13genetic_marker
CCRI_SNP_mk10045_A13CCRI_SNP_mk10045_A13genetic_marker
CCRI_SNP_mk10046_A13CCRI_SNP_mk10046_A13genetic_marker
CCRI_SNP_mk18935CCRI_SNP_mk18935genetic_marker
CCRI_SNP_mk18934CCRI_SNP_mk18934genetic_marker
CCRI_SNP_mk10011_A13CCRI_SNP_mk10011_A13genetic_marker
CCRI_SNP_mk20377CCRI_SNP_mk20377genetic_marker
CCRI_SNP_mk10063_A13CCRI_SNP_mk10063_A13genetic_marker
CCRI_SNP_mk10062_A13CCRI_SNP_mk10062_A13genetic_marker
CCRI_SNP_mk10017_A13CCRI_SNP_mk10017_A13genetic_marker
CCRI_SNP_mk10067_A13CCRI_SNP_mk10067_A13genetic_marker
CCRI_SNP_mk10068_A13CCRI_SNP_mk10068_A13genetic_marker
CCRI_SNP_mk10042_A13CCRI_SNP_mk10042_A13genetic_marker
CCRI_SNP_mk10043_A13CCRI_SNP_mk10043_A13genetic_marker
CCRI_SNP_mk10044_A13CCRI_SNP_mk10044_A13genetic_marker
CCRI_SNP_mk18998CCRI_SNP_mk18998genetic_marker
CCRI_SNP_mk19007CCRI_SNP_mk19007genetic_marker
CCRI_SNP_mk10039_A13CCRI_SNP_mk10039_A13genetic_marker
CCRI_SNP_mk10007_A13CCRI_SNP_mk10007_A13genetic_marker
CCRI_SNP_mk10035_A13CCRI_SNP_mk10035_A13genetic_marker
CCRI_SNP_mk18994CCRI_SNP_mk18994genetic_marker
CCRI_SNP_mk18995CCRI_SNP_mk18995genetic_marker
CCRI_SNP_mk10021_A13CCRI_SNP_mk10021_A13genetic_marker
CCRI_SNP_mk10022_A13CCRI_SNP_mk10022_A13genetic_marker

Pages

Projects
This publication contains information about 1 projects:
Project NameDescription
CN-F2:3-2018
Featuremaps
This publication contains information about 1 maps:
Map Name
CCRI-35 x NH, F2:3 (2018)
Properties
Additional details for this publication include:
Property NameValue
Publication ModelElectronic
ISSN1422-0067
eISSN1422-0067
Publication Date2018 Feb 01
Journal AbbreviationInt J Mol Sci
PIIE441
Elocation10.3390/ijms19020441
DOI10.3390/ijms19020441
LanguageEnglish
Language Abbreng
Publication TypeJournal Article
Journal CountrySwitzerland