Research Project: Cotton Genetic Resource Management and Genetic Improvement

Location: Crop Germplasm Research

Publications (Clicking on the reprint icon will take you to the publication reprint.)

Impact of salinity stress on cotton and opportunity for improvement through conventional and biotechnological approches - (Review Article)
Chaudhary, M.T., Majeed, S., Rana, I.A., Zulfiqar, A., Jia, Y., Du, X., Hinze, L.L., Azhar, M.T. 2024. Impact of salinity stress on cotton and opportunity for improvement through conventional and biotechnological approches. BMC Plant Biology. Article e24:20. https://doi.org/10.1186/s12870-023-04558-4.

Discovery and analyses of caulimovirid-like sequences in upland cotton (Gossypium hirsutum) - (Peer Reviewed Journal)
Aboughanem-Sabanadzo, N., Allen, T.W., Frelichowski, J.E., Scheffler, J.A., Sabanadzovic, S. 2023. Discovery and analyses of caulimovirid-like sequences in upland cotton (Gossypium hirsutum). Viruses. 15(8). Article 1643. https://doi.org/10.3390/v15081643.

Comparative analysis of genome sequences of the two cultivated tetraploid cottons, Gossypium hirsutum (L. )and G. barbadense (L.) - (Peer Reviewed Journal)
Meng, Q., Gu, J., Xu, Z., Zhang, J., Tang, J., Wang, A., Wang, P., Liu, Z., Rong, Y., Xie, P., Hui, L., Udall, J.A., Grover, C.E., Wendell, J.C. 2023. Comparative analysis of genome sequences of the two cultivated tetraploid cottons, Gossypium hirsutum (L.) and G. barbadense (L.). Industrial Crops and Products. Article e116471. https://doi.org/10.1016/j.indcrop.2023.116471.

Homology-based identification of candidate genes for male sterility editing in Upland cotton (Gossypium hirsutum L.) - (Peer Reviewed Journal)
Morales, K., Bridgeland, A.H., Kater, H., Udall, J.A., Yu, J., Thompson, M. 2022. Homology-based identification of candidate genes for male sterility editing in Upland cotton (Gossypium hirsutum L.). Frontiers in Plant Science. Article e2022.1006264. https://doi.org/10.3389/fpls.2022.1006264.

Genetic analysis of mutagenesis that induces photoperiod insensitivity of wild cotton Gossypium hirsutum subsp. Purpurascens - (Peer Reviewed Journal)
Kushanov, F., Komilov, D., Turaev, O., Ernazarova, D., Amanboyeva, R., Gapparov, B., Yu, J. 2022. Genetic analysis of mutagenesis that induces photoperiod insensitivity of wild cotton Gossypium hirsutum subsp. Purpurascens. Plants. 11(22). https://www.mdpi.com/2223-7747/11/22/3012#.

Reforming cotton genes: From elucidation of DNA structure to genome editing - (Review Article)
Mubarik, M., Majeed, S., Khan, S., Du, X., Frelichowski, J.E., Hinze, L.L., Azhar, M. 2020. Reforming cotton genes: From elucidation of DNA structure to genome editing. Turkish Journal of Agriculture and Forestry. 45:691-703. https://doi.org/10.3906/tar-2012-64.

Intra-plant variability in Gossypium hirsutum L. for heat tolerance related attributes - (Peer Reviewed Journal)
Ur Rehman, A., Majeed, S., Chaudhary, M., Rana, I., Du, X., Hinze, L.L., Azhar, M. 2021. Intra-plant variability in Gossypium hirsutum L. for heat tolerance related attributes. Agronomy. 11(12). Article 2375. https://doi.org/10.3390/agronomy11122375.

Heat stress in cotton: an interactive review on predicted and unpredicted growth-yield anomalies and mitigating breeding strategies - (Review Article)
Majeed, S., Rana, I., Mubarik, M., Atif, R., Yang, S., Chung, G., Jia, Y., Du, X., Hinze, L.L., Azhar, M. 2021. Heat stress in cotton: An interactive review on predicted and unpredicted growth-yield anomalies and mitigating breeding strategies. Agronomy. https://www.mdpi.com/2073-4395/11/9/1825.

Genome-wide association study for tolerance to drought and salt tolerance and resistance to thrips at the seedling growth stage in US Upland cotton - (Peer Reviewed Journal)
Abdelraheem, A., Kuraparthy, V., Hinze, L.L., Stelly, D., Wedegaertner, T., Zhang, J. 2021. Genome-wide association study for tolerance to drought and salt tolerance and resistance to thrips at the seedling growth stage in US Upland cotton. Industrial Crops and Products. 169. Article 113645. https://doi.org/10.1016/j.indcrop.2021.113645.

Insight into abscisic acid perception and signaling to increase plant tolerance to abiotic stress - (Peer Reviewed Journal)
Rehman, A., Azhar, M., Hinze, L.L., Qayyum, A., Li, H., Peng, Z., Qin, G., Jia, Y., Pan, Z., He, S., Du, X. 2021. Insight into abscisic acid perception and signaling to increase plant tolerance to abiotic stress. Journal of Plant Interactions. 16(1):222-237. https://doi.org/10.1080/17429145.2021.1925759.

Evaluation and genome-wide association study of resistance to bacterial blight race 18 in US Upland cotton germplasm - (Peer Reviewed Journal)
Elassbli, H., Abdelraheem, A., Zhu, Y., Teng, Z., Wheeler, T., Kuraparthy, V., Hinze, L.L., Stelly, D., Wedegaertner, T., Zhang, J. 2021. Evaluation and genome-wide association study of resistance to bacterial blight race 18 in US Upland cotton germplasm. Molecular Genetics and Genomics. 296:719-729. https://doi.org/10.1007/s00438-021-01779-w.

Review of oxidative stress and antioxidative defense mechanisms in Gossypium hirsutum L. in response to extreme abiotic conditions - (Peer Reviewed Journal)
Qamer, Z., Chaudhary, M., Du, X., Hinze, L.L., Azhar, M. 2021. Review of oxidative stress and antioxidative defense mechanisms in Gossypium hirsutum L. in response to extreme abiotic conditions. Journal of Cotton Research. 4. Article 9. https://doi.org/10.1186/s42397-021-00086-4.

Parallel and intertwining threads of domestication in allopolyploid cotton - (Peer Reviewed Journal)
Yuan, D., Grover, C.E., Hu, G., Pan, M., Miller, E., Conover, J.L., Hunt, S., Udall, J.A., Wendel, J.F. 2021. Parallel and intertwining threads of domestication in allopolyploid cotton. Advanced Science. Article 2003634. https://doi.org/10.1002/advs.202003634.

Networks of physiological adjustments and defenses, and their synergy with sodium (Na+) homeostasis explain the hidden variation for salinity tolerance across the cultivated Gossypium hirsutum germplasm - (Peer Reviewed Journal)
Cushman, K., Pabuayon, I., Hinze, L.L., Sweeney, M., De Los Reyes, B. 2020. Networks of physiological adjustments and defenses, and their synergy with sodium (Na+) homeostasis explain the hidden variation for salinity tolerance across the cultivated Gossypium hirsutum germplasm. Frontiers in Plant Science. 11. Article 588854. https://doi.org/10.3389/fpls.2020.588854.

Status of the National Cotton Germplasm Collection - (Abstract Only)

Genome-wide identification and characterization of HSP70 gene family in four species of cotton - (Peer Reviewed Journal)
Rehman, A., Atif, R., Qayyum, A., Du, X., Hinze, L.L., Azhar, M. 2020. Genome-wide identification and characterization of HSP70 gene family in four species of cotton. Genomics. 112(6):4442-4453. https://doi.org/10.1016/j.ygeno.2020.07.039.

Assessing genetic variation for Fusarium wilt race 4 resistance in tetraploid cotton by screening over three thousand germplasm lines under greenhouse or controlled conditions - (Peer Reviewed Journal)
Zhang, J., Abdelraheem, A., Zhu, Y., Wheeler, T.A., Dever, J., Frelichowski, J.E., Love, J., Ulloa, M., Jenkins, J.N., McCarty Jr, J.C., Nichols, R., Wedegaertner, T. 2020. Assessing genetic variation for Fusarium wilt race 4 resistance in tetraploid cotton by screening over three thousand germplasm lines under greenhouse or controlled conditions. Euphytica. 216:108. https://doi.org/10.1007/s10681-020-02646-2.

Genetic analysis of the transition from wild to domesticated cotton (G. hirsutum L.) - (Peer Reviewed Journal)
Grover, C.E., Yoo, M., Lin, M., Murphy, M.D., Harker, D.B., Byers, R.L., Lipka, A.E., Hu, G., Yuan, D., Conover, J., Udall, J.A., Paterson, A.H., Gore, M.A., Wendel, J. 2020. Genetic analysis of the transition from wild to domesticated cotton (G. hirsutum L.). G3, Genes/Genomes/Genetics. 10(2):731-754. https://doi.org/10.1534/g3.119.400909.

A genome-wide association study uncovers consistent quantitative trait loci for resistance to Verticillium wilt and Fusarium wilt race 4 in the US Upland cotton - (Peer Reviewed Journal)
Abdelraheem, A., Elassbli, H., Zhu, Y., Kuraparthy, V., Hinze, L.L., Stelly, D., Wedegaertner, T., Zhang, J. 2019. A genome-wide association study uncovers consistent quantitative trait loci for resistance to Verticillium wilt and Fusarium wilt race 4 in the US Upland cotton. Theoretical and Applied Genetics. 133:563-577. https://doi.org/10.1007/s00122-019-03487-x.

The first genetic map for yellow lupin enables genetic dissection of adaptation traits in an orphan grain legume crop - (Peer Reviewed Journal)
Munir Iqbal, M., Huynh, M., Udall, J.A., Kilian, A., Adhikari, K.N., Berger, J.D., Erskine, W., Nelson, M.N. 2019. The first genetic map for yellow lupin enables genetic dissection of adaptation traits in an orphan grain legume crop. BioMed Central (BMC) Genetics. 20:68. https://doi.org/10.1186/s12863-019-0767-3.

Role of SNPs in determining QTLs for major traits in cotton - (Peer Reviewed Journal)
Majeed, S., Rana, I., Atif, R., Ali, Z., Hinze, L.L., Azhar, M. 2019. Role of SNPs in determining QTLs for major traits in cotton. Journal of Cotton Research. 2:5. https://doi.org/10.1186/s42397-019-0022-5.

Insights into the evolution of the New World diploid cottons (Gossypium, subgenus Houzingenia) based on genome sequencing - (Peer Reviewed Journal)
Grover, C.E., Arick, M.A., Thrash, A., Conover, J.L., Sanders, W.S., Peterson, D.G., Frelichowski, J.E., Scheffler, J.A., Scheffler, B.E., Wendel, J.F. 2018. Insights into the evolution of the New World diploid cottons (Gossypium, subgenus Houzingenia) based on genome sequencing. Genome Biology and Evolution. 11(1):53-71. https://doi.org/10.1093/gbe/evy256.

Survey of cotton (Gossypium sp.) for non-polar, extractable hydrocarbons for use as petrochemicals and liquid fuels - (Peer Reviewed Journal)
Adams, R., Frelichowski, J.E., Hinze, L.L., Ulloa, M. 2018. Survey of cotton (Gossypium sp.) for non-polar, extractable hydrocarbons for use as petrochemicals and liquid fuels. Phytologia. 100(1):37-44.