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ARS Home » Southeast Area » New Orleans, Louisiana » Southern Regional Research Center » Cotton Fiber Bioscience Research » Research » Publications at this Location » Publication #376357
Research Project: Molecular Characterization and Phenotypic Assessments of Cotton Fiber Quality Traits

Location: Cotton Fiber Bioscience Research

Title: Mapping and validation of a fiber length QTL on chromosome D11 using two independent F2 populations of upland cotton

Author
item Naoumkina, Marina
item Zeng, Linghe
item Fang, David
item WANG, MAOJUN - Huazhong Agricultural University
item Thyssen, Gregory
item Florane, Christopher
item Li, Ping
item Delhom, Christopher

Submitted to: Molecular Breeding
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 2/13/2020
Publication Date: 3/9/2020
Citation: Naoumkina, M.A., Zeng, L., Fang, D.D., Wang, M., Thyssen, G.N., Florane, C.B., Li, P., Delhom, C.D. 2020. Mapping and validation of a fiber length QTL on chromosome D11 using two independent F2 populations of upland cotton. Molecular Breeding. 40:31. https://doi.org/10.1007/s11032-020-01111-1.
DOI: https://doi.org/10.1007/s11032-020-01111-1

Interpretive Summary: A quantitative trait locus (QTL) for fiber length was identified on chromosome D11 of Upland cotton genome. This study conducted genetic mapping using two diverse populations to confirm the stability of a major fiber length QTL. One of the populations was developed from a cross between the longest and the shortest recombinant inbred lines of the multi-parent advanced generation inter cross (MAGIC) population, whereas the second was from a cross between two cotton lines Acala 1517-80 and JJ1145ne that are not relevant to the eleven MAGIC parental lines. Mapping analysis confirmed the major fiber length QTL on chromosome D11 in both populations. This confirmation also suggested that associated with fiber length molecular markers are potentially useful to improve fiber length in a cotton breeding program through the utilization of marker-assisted selection method.

Technical Abstract: The analysis of association between genotypic markers and phenotypic traits allows identification of quantitative trait loci (QTLs), which can be applied through marker-assisted selection in breeding programs to improve the quality of crops. However, success in these applications depends primarily on the stability and dominance of the QTL. We previously identified a significant fiber length (FL) QTL on chromosome (Chr.) D11 based on the genome-wide association study (GWAS) of a multi-parent advanced generation intercross (MAGIC) population in upland cotton. In this report, we conducted mapping studies with two biparental populations to confirm the stability of the FL QTL on Chr. D11 and determine the magnitude of its effect on the fiber length phenotype. One of the F2 populations was developed from a cross between the longest fiber and the shortest fiber recombinant inbred lines (RILs) of the MAGIC population originally used for GWAS, whereas the second F2 population was created from a cross between two cotton lines Acala 1517–80 and JJ1145ne, which were not among the eleven MAGIC parental lines. The populations were grown in different environmental conditions. Genetic mapping of these populations confirmed the stability of the FL QTL on Chr. D11. The highest LOD scores of association with fiber length in both populations showed three SNP markers that resided within 360 kb of the QTL region on Chr. D11. Ten genes possessing non synonymous SNPs (nsSNPs) in their protein coding regions were identified in this region. RNAseq analysis detected activity in developing fiber tissue for seven of these candidate genes.