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_mk1499_A02CCRI_SNP_mk1499_A02genetic_marker
CCRI_SNP_mk20298CCRI_SNP_mk20298genetic_marker
CCRI_SNP_mk1458_A02CCRI_SNP_mk1458_A02genetic_marker
CCRI_SNP_mk1452_A02CCRI_SNP_mk1452_A02genetic_marker
CCRI_SNP_mk1453_A02CCRI_SNP_mk1453_A02genetic_marker
CCRI_SNP_mk1459_A02CCRI_SNP_mk1459_A02genetic_marker
CCRI_SNP_mk1482_A02CCRI_SNP_mk1482_A02genetic_marker
CCRI_SNP_mk1480_A02CCRI_SNP_mk1480_A02genetic_marker
CCRI_SNP_mk5050CCRI_SNP_mk5050genetic_marker
CCRI_SNP_mk1354_A02CCRI_SNP_mk1354_A02genetic_marker
CCRI_SNP_mk1345_A02CCRI_SNP_mk1345_A02genetic_marker
CCRI_SNP_mk1410_A02CCRI_SNP_mk1410_A02genetic_marker
CCRI_SNP_mk1448_A02CCRI_SNP_mk1448_A02genetic_marker
CCRI_SNP_mk1413_A02CCRI_SNP_mk1413_A02genetic_marker
CCRI_SNP_mk1472_A02CCRI_SNP_mk1472_A02genetic_marker
CCRI_SNP_mk1293_A02CCRI_SNP_mk1293_A02genetic_marker
CCRI_SNP_mk1294_A02CCRI_SNP_mk1294_A02genetic_marker
CCRI_SNP_mk1447_A02CCRI_SNP_mk1447_A02genetic_marker
CCRI_SNP_mk1493_A02CCRI_SNP_mk1493_A02genetic_marker
CCRI_SNP_mk20108CCRI_SNP_mk20108genetic_marker
CCRI_SNP_mk20270CCRI_SNP_mk20270genetic_marker
CCRI_SNP_mk20258CCRI_SNP_mk20258genetic_marker
CCRI_SNP_mk20255CCRI_SNP_mk20255genetic_marker
CCRI_SNP_mk20260CCRI_SNP_mk20260genetic_marker
CCRI_SNP_mk20316CCRI_SNP_mk20316genetic_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