Alterations in Growth Habit to Channel End-of-Season Perennial Reserves towards Increased Yield and Reduced Regrowth after Defoliation in Upland Cotton (<i>Gossypium hirsutum</i> L.)
Cotton (<i>Gossypium</i> spp.) is the primary source of natural textile fiber in the U.S. and a major crop in the Southeastern U.S. Despite constant efforts to increase the cotton fiber yield, the yield gain has stagnated. Therefore, we undertook a novel approach to improve the cotton fi...
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| Format: | Article |
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MDPI AG
2023-09-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/24/18/14174 |
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| author | Salman Naveed Nitant Gandhi Grant Billings Zachary Jones B. Todd Campbell Michael Jones Sachin Rustgi |
| author_facet | Salman Naveed Nitant Gandhi Grant Billings Zachary Jones B. Todd Campbell Michael Jones Sachin Rustgi |
| author_sort | Salman Naveed |
| collection | DOAJ |
| description | Cotton (<i>Gossypium</i> spp.) is the primary source of natural textile fiber in the U.S. and a major crop in the Southeastern U.S. Despite constant efforts to increase the cotton fiber yield, the yield gain has stagnated. Therefore, we undertook a novel approach to improve the cotton fiber yield by altering its growth habit from perennial to annual. In this effort, we identified genotypes with high-expression alleles of five floral induction and meristem identity genes (<i>FT</i>, <i>SOC1</i>, <i>FUL</i>, <i>LFY</i>, and <i>AP1</i>) from an Upland cotton mini-core collection and crossed them in various combinations to develop cotton lines with annual growth habit, optimal flowering time, and enhanced productivity. To facilitate the characterization of genotypes with the desired combinations of stacked alleles, we identified molecular markers associated with the gene expression traits via genome-wide association analysis using a 63 K SNP Array. Over 14,500 SNPs showed polymorphism and were used for association analysis. A total of 396 markers showed associations with expression traits. Of these 396 markers, 159 were mapped to genes, 50 to untranslated regions, and 187 to random genomic regions. Biased genomic distribution of associated markers was observed where more trait-associated markers mapped to the cotton D sub-genome. Many quantitative trait loci coincided at specific genomic regions. This observation has implications as these traits could be bred together. The analysis also allowed the identification of candidate regulators of the expression patterns of these floral induction and meristem identity genes whose functions will be validated. |
| first_indexed | 2024-03-10T22:39:03Z |
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| institution | Directory Open Access Journal |
| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-10T22:39:03Z |
| publishDate | 2023-09-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | International Journal of Molecular Sciences |
| spelling | doaj.art-40a725bacd2e4143addd2ae125157fc52023-11-19T11:09:01ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672023-09-0124181417410.3390/ijms241814174Alterations in Growth Habit to Channel End-of-Season Perennial Reserves towards Increased Yield and Reduced Regrowth after Defoliation in Upland Cotton (<i>Gossypium hirsutum</i> L.)Salman Naveed0Nitant Gandhi1Grant Billings2Zachary Jones3B. Todd Campbell4Michael Jones5Sachin Rustgi6Department of Plant and Environmental Sciences, Clemson University Pee Dee Research and Education Center, Florence, SC 29506, USADepartment of Plant and Environmental Sciences, Clemson University Pee Dee Research and Education Center, Florence, SC 29506, USADepartment of Crop & Soil Sciences, North Carolina State University, Raleigh, NC 27695, USADepartment of Plant and Environmental Sciences, Clemson University Pee Dee Research and Education Center, Florence, SC 29506, USAUSDA-ARS Coastal Plains Soil, Water, and Plant Research Center, Florence, SC 29501, USADepartment of Plant and Environmental Sciences, Clemson University Pee Dee Research and Education Center, Florence, SC 29506, USADepartment of Plant and Environmental Sciences, Clemson University Pee Dee Research and Education Center, Florence, SC 29506, USACotton (<i>Gossypium</i> spp.) is the primary source of natural textile fiber in the U.S. and a major crop in the Southeastern U.S. Despite constant efforts to increase the cotton fiber yield, the yield gain has stagnated. Therefore, we undertook a novel approach to improve the cotton fiber yield by altering its growth habit from perennial to annual. In this effort, we identified genotypes with high-expression alleles of five floral induction and meristem identity genes (<i>FT</i>, <i>SOC1</i>, <i>FUL</i>, <i>LFY</i>, and <i>AP1</i>) from an Upland cotton mini-core collection and crossed them in various combinations to develop cotton lines with annual growth habit, optimal flowering time, and enhanced productivity. To facilitate the characterization of genotypes with the desired combinations of stacked alleles, we identified molecular markers associated with the gene expression traits via genome-wide association analysis using a 63 K SNP Array. Over 14,500 SNPs showed polymorphism and were used for association analysis. A total of 396 markers showed associations with expression traits. Of these 396 markers, 159 were mapped to genes, 50 to untranslated regions, and 187 to random genomic regions. Biased genomic distribution of associated markers was observed where more trait-associated markers mapped to the cotton D sub-genome. Many quantitative trait loci coincided at specific genomic regions. This observation has implications as these traits could be bred together. The analysis also allowed the identification of candidate regulators of the expression patterns of these floral induction and meristem identity genes whose functions will be validated.https://www.mdpi.com/1422-0067/24/18/14174cottondeterminate/indeterminate growthfloral inductionmeristem identity genesannual/perennial growth habitexpression QTL (eQTL) |
| spellingShingle | Salman Naveed Nitant Gandhi Grant Billings Zachary Jones B. Todd Campbell Michael Jones Sachin Rustgi Alterations in Growth Habit to Channel End-of-Season Perennial Reserves towards Increased Yield and Reduced Regrowth after Defoliation in Upland Cotton (<i>Gossypium hirsutum</i> L.) International Journal of Molecular Sciences cotton determinate/indeterminate growth floral induction meristem identity genes annual/perennial growth habit expression QTL (eQTL) |
| title | Alterations in Growth Habit to Channel End-of-Season Perennial Reserves towards Increased Yield and Reduced Regrowth after Defoliation in Upland Cotton (<i>Gossypium hirsutum</i> L.) |
| title_full | Alterations in Growth Habit to Channel End-of-Season Perennial Reserves towards Increased Yield and Reduced Regrowth after Defoliation in Upland Cotton (<i>Gossypium hirsutum</i> L.) |
| title_fullStr | Alterations in Growth Habit to Channel End-of-Season Perennial Reserves towards Increased Yield and Reduced Regrowth after Defoliation in Upland Cotton (<i>Gossypium hirsutum</i> L.) |
| title_full_unstemmed | Alterations in Growth Habit to Channel End-of-Season Perennial Reserves towards Increased Yield and Reduced Regrowth after Defoliation in Upland Cotton (<i>Gossypium hirsutum</i> L.) |
| title_short | Alterations in Growth Habit to Channel End-of-Season Perennial Reserves towards Increased Yield and Reduced Regrowth after Defoliation in Upland Cotton (<i>Gossypium hirsutum</i> L.) |
| title_sort | alterations in growth habit to channel end of season perennial reserves towards increased yield and reduced regrowth after defoliation in upland cotton i gossypium hirsutum i l |
| topic | cotton determinate/indeterminate growth floral induction meristem identity genes annual/perennial growth habit expression QTL (eQTL) |
| url | https://www.mdpi.com/1422-0067/24/18/14174 |
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