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Int. J. Mol. Sci. 2018, 19(2), 441; https://doi.org/10.3390/ijms19020441

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

1
State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, China
2
Senegalese River Valley Development Agency (SAED), Saint-Louis Bp74, Senegal
3
School of Physical and Biological Sciences (SPBS), Jaramogi Oginga Odinga University of Science and Technology (JOOUST), Main Campus, P.O. Box 210-40601, Bondo, Kenya
These authors contributed equally to this work.
*
Author to whom correspondence should be addressed.
Received: 20 December 2017 / Revised: 12 January 2018 / Accepted: 28 January 2018 / Published: 1 February 2018
(This article belongs to the Section Molecular Plant Sciences)
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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. View Full-Text
Keywords: QTL mapping; fiber quality; upland cotton; intra-specific; yield related traits; gene ontology; genotype by sequencing QTL mapping; fiber quality; upland cotton; intra-specific; yield related traits; gene ontology; genotype by sequencing
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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    Description: Figure S1 Total QTLs (110) found in this study, (***) asterisk means consistent QTLs

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Diouf, L.; Magwanga, R.O.; Gong, W.; He, S.; Pan, Z.; Jia, Y.H.; Kirungu, J.N.; Du, X. QTL Mapping of Fiber Quality and Yield-Related Traits in an Intra-Specific Upland Cotton Using Genotype by Sequencing (GBS). Int. J. Mol. Sci. 2018, 19, 441.

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