@article{gowda_fang_tyagi_bourland_dever_campbell_zhang_abdelraheem_sood_jones_et al._2024, title={Genome-wide association study of fiber quality traits in US upland cotton (<i>Gossypium hirsutum</i> L.)}, volume={137}, ISSN={["1432-2242"]}, DOI={10.1007/s00122-024-04717-7}, number={9}, journal={THEORETICAL AND APPLIED GENETICS}, author={Gowda, S. Anjan and Fang, Hui and Tyagi, Priyanka and Bourland, Fred and Dever, Jane and Campbell, Benjamin Todd and Zhang, Jinfa and Abdelraheem, Abdelraheem and Sood, Shilpa and Jones, Don C. and et al.}, year={2024}, month={Sep} }
 @article{pettit_gowda_shrestha_harris_bart_bourland_brown-guedira_jones_kuraparthy_2023, title={Development and validation of Kompetitive allele-specific PCR (KASP) markers for bacterial blight resistant locus BB-13 in Upland cotton (Gossypium hirsutum L.)}, volume={8}, ISSN={["1435-0653"]}, DOI={10.1002/csc2.21072}, abstractNote={AbstractCotton bacterial blight (CBB), caused by the pathogen Xanthomonas citri subsp. malvacearum (Xcm), can inflict significant damage to cotton (Gossypium hirsutum L.) production. Previously, we identified and mapped the broad‐spectrum CBB‐resistant locus BB‐13 on the long arm of chromosome D02 using array‐based single nucleotide polymorphisms (SNPs). In the current study, linked SNPs were converted into easily assayable Kompetitive Allele‐Specific PCR (KASP) markers to enable efficient detection and marker‐assisted selection of alleles at the BB‐13 locus. The KASP marker's efficiency in detecting the BB‐13 resistant gene was validated using an Upland cotton diversity panel of 72 accessions phenotyped with Xcm race 18. The KASP marker NCBB‐KASP4, derived from the CottonSNP63K array‐based marker i25755Gh that is closely associated with BB‐13, predicted the CBB response phenotypes with an error rate of 4.17% in the diversity panel. Additionally, two independent biparental recombinant inbred line populations segregating for resistance to Xcm race 18 were used for KASP marker validation and to test their utility in detecting the presence of the BB‐13 locus in the resistant accession CABD3CABCH‐1‐89. NCBB‐KASP4, validated across breeding populations and broad germplasm, is a reliable KASP marker for detection and testing of BB‐13 locus in cotton. Further, diagnostic array‐based SNP marker i25755Gh's allele pattern and the potential CBB response is described for 875 Gossypium accessions. These SNP‐based phenotypic predictions for 875 accessions along with disease response phenotypes to Xcm race 18 for 253 accessions provide a reference for CBB resistance in diverse cotton germplasm in the United States.}, journal={CROP SCIENCE}, author={Pettit, Nicole and Gowda, Satyanarayna Anjan and Shrestha, Navin and Harris, Taylor and Bart, Rebecca and Bourland, Fred and Brown-Guedira, Gina and Jones, Don C. and Kuraparthy, Vasu}, year={2023}, month={Aug} }
 @article{shrestha_zhang_gowda_abdelraheem_jones_kuraparthy_2023, title={Identification of quantitative trait loci for fiber quality, yield, and plant height traits in Upland cotton}, volume={3}, ISSN={["1435-0653"]}, DOI={10.1002/csc2.20937}, abstractNote={AbstractIn cotton, most agronomic traits are controlled by polygenes. In this study, 110 F6 recombinant inbred lines (RILs), derived from Upland cotton cross NC05AZ06 x NC11‐2100, were used to develop a linkage map and to identify quantitative trait loci (QTL) for six fiber quality traits, three yield traits, and plant height. These RILs were genotyped using the CottonSNP63K array and phenotyped for fiber quality, yield traits, and plant height in 2‐year field trials. Analysis of variance revealed significant (p < 0.05) differences among RILs for all traits studied, and the heritability estimates were moderate (30%–60%) to high (> 60%). Both positive and negative correlations were observed for fiber quality and yield traits. A total of 3,774 polymorphic SNP markers were used to develop a genetic map with an average marker density of 1.54 SNP/cM. Thirty QTL for fiber quality traits, yield traits, and plant height were detected on 15 different chromosomes, explaining 6.80%–20.02% of the phenotypic variance (PVE). Of these, 14 were major QTL (PVE > 10%), and three major QTL were detected in both years. Candidate gene analysis in the major QTL detected in both years and plant height QTL with PVE of 20.02% revealed five putative genes for fiber quality traits and one putative gene for plant height. The linkage map and identified QTL along with the candidate genes in the study could serve as additional breeding resources for Upland cotton genetic improvement.}, journal={CROP SCIENCE}, author={Shrestha, Navin and Zhang, Kuang and Gowda, S. Anjan and Abdelraheem, Abdelraheem and Jones, Don C. and Kuraparthy, Vasu}, year={2023}, month={Mar} }