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ARS Home » Plains Area » College Station, Texas » Southern Plains Agricultural Research Center » Crop Germplasm Research » Research » Research Project #424746

Research Project: Developing Genomic and Genetic Tools for Exploiting Cotton Genetic Variation

Location: Crop Germplasm Research

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

Resequencing of cv CRI-12 family reveals haplotype block inheritance and recombination of agronomically important genes in artificial selection Reprint Icon - (Peer Reviewed Journal)
Lu, X., Fu, X., Wang, D., Wang, J., Chen, X., Hao, M., Wang, J., Gervers, K.A., Guo, L., Wang, S., Yin, Z., Fan, W., Shi, C., Wang, X., Peng, J., Chen, C., Cui, R., Shu, N., Zhang, B., Han, M., Zhao, X., Mu, M., Yu, J., Ye, W. 2019. Resequencing of cv CRI-12 family reveals haplotype block inheritance and recombination of agronomically important genes in artificial selection. Plant Biotechnology Journal. 17(5):945-955. https://doi.org/10.1111/pbi.13030.

Map-based cloning of a recessive gene v1 for virescent leaf expression in cotton (Gossypium spp) Reprint Icon - (Peer Reviewed Journal)
Zhang, Y., Wang, Q., Zuo, D., Cheng, H., Liu, K., Ashraf, J., Li, S., Feng, X., Yu, J., Song, G. 2018. Map-based cloning of a recessive gene v1 for virescent leaf expression in cotton (Gossypium spp). Journal of Cotton Research. 1:10. https://doi.org/10.1186/s42397-018-0009-7.

TAL effector driven induction of a SWEET gene confers susceptibility to bacterial blight of cotton - (Peer Reviewed Journal)
Cox, K.L., Meng, F., Wilkins, K.E., Li, F., Wang, P., Booher, N.J., Carpenter, S., Chen, L., Zheng, H., Gao, X., Zheng, Y., Fei, Z., Yu, J., Isakeit, T., Wheeler, T., Frommer, W.B., He, P., Bogdanove, A.J., Shan, L. 2017. TAL effector driven induction of a SWEET gene confers susceptibility to bacterial blight of cotton. Nature Communications. 8:15588.

Genome-wide divergence, haplotype distribution and population demographic histories for Gossypium hirsutum and Gossypium barbadense as revealed by genome-anchored SNPs - (Peer Reviewed Journal)
Reddy, U., Nimmakayala, P., Abburi, V., Reddy, C., Saminathan, T., Percy, R.G., Yu, J., Frelichowski, J.E., Udall, J., Page, J., Zhang, D., Shehzad, T., Paterson, A. 2017. Genome-wide divergence, haplotype distribution and population demographic histories for Gossypium hirsutum and Gossypium barbadense as revealed by genome-anchored SNPs. Nature Scientific Reports. 7:41285.

Development, genetic mapping and QTL association of cotton PHYA, PHYB, and HY5-specific CAPS and dCAPS markers - (Peer Reviewed Journal)
Kushanov, F.N., Pepper, A.E., Yu, J., Buriev, Z.T., Shermatov, S.E., Saha, S., Ulloa, M., Jenkins, J.N., Abdukarimov, A., Abdurakhmonov, I.Y. 2016. Development, genetic mapping and QTL association of cotton PHYA, PHYB, and HY5-specific CAPS and dCAPS markers. BioMed Central (BMC) Genetics. 17:141.

Recent developments and applications of cotton genomic resources for fiber improvement - (Abstract Only)
Yu, J. 2016. Recent developments and applications of cotton genomic resources for fiber improvement. World Cotton Research Conference Proceedings, May 2-6, 2016, Goiania, Goias, Brazil. p. 67.

Fine mapping and candidate gene analysis of the dominant glandless gene Gl^e2 in cotton (Gossypium spp.) - (Peer Reviewed Journal)
Cheng, H., Lu, C., Yu, J., Zou, C., Zhang, Y., Wang, Q., Huang, J., Feng, X., Jiang, P., Yang, W., Song, G. 2016. Fine mapping and candidate gene analysis of the dominant glandless gene Gl^e2 in cotton (Gossypium spp.). Theoretical and Applied Genetics. 129:1347-1355.

Unlocking the genetic potential of Upland cotton: Insights into TM-1 genome and its sub-genomes - (Abstract Only)
Yu, J. 2016. Unlocking the genetic potential of Upland cotton: Insights into TM-1 genome and its sub-genomes. In: Proceedings of the National Cotton Council Beltwide Cotton Conference, January 5-7, 2016, New Orleans, Louisiana. p. 595.

TAL effector-mediated susceptibility to bacterial blight of cotton - (Abstract Only)

Comparative analysis of genome-wide divergence, domestication footprints and genome-wide association study of root traits for Gossypium hirsutum and Gossypium barbadense - (Abstract Only)

Genome sequence of cultivated Upland cotton (Gossypium hirsutum TM-1) provides insights into genome evolution - (Peer Reviewed Journal)
Li, F., Fan, G., Lu, C., Xiao, G., Zou, C., Kohel, R.J., Ma, Z., Shang, H., Ma, X., Wu, J., Liang, X., Huang, G., Percy, R.G., Liu, K., Yang, W., Chen, W., Du, X., Shi, C., Yuan, Y., Ye, W., Liu, X., Zhang, X., Liu, W., Wei, H., Wei, S., Huang, G., Zhang, X., Zhu, S., Zhang, H., Sun, F., Wang, X., Liang, J., Wang, J., He, Q., Huang, L., Wang, J., Cui, J., Song, G., Wang, K., Xu, X., Yu, J., Zhu, Y., Yu, S. 2015. Genome sequence of cultivated Upland cotton (Gossypium hirsutum TM-1) provides insights into genome evolution. Nature Biotechnology. 33:524-530.

Distribution and evolution of cotton fiber development genes in the fibreless Gossypium raimondii genome - (Peer Reviewed Journal)
Xu, Z., Yu, J., Kohel, R.J., Percy, R.G., Beavis, W.D., Main, D., Yu, J. 2015. Distribution and evolution of cotton fiber development genes in the fibreless Gossypium raimondii genome. Genomics. 106:61-69.

SNP discovery in complex allotetraploid genomes (Gossypium spp., Malvaceae) using genotyping by sequencing - (Peer Reviewed Journal)
Logan-Young, C.J., Yu, J., Verma, S.K., Percy, R.G., Pepper, A.E. 2015. SNP discovery in complex allotetraploid genomes (Gossypium spp., Malvaceae) using genotyping by sequencing. Applications in Plant Sciences. 3(3):1400077.

Mapping genomic loci for cotton plant architecture, yield components, and fiber properties in an interspecific (Gossypium hirsutum L. x G. barbadense L.) RIL population - (Peer Reviewed Journal)
Yu, J., Ulloa, M., Hoffman, S.M., Kohel, R.J., Pepper, A.E., Fang, D.D., Percy, R.G., Burke, J.J. 2014. Mapping genomic loci for cotton plant architecture, yield components, and fiber properties in an interspecific (Gossypium hirsutum L. x G. barbadense L.) RIL population. Molecular Genetics and Genomics. 289:1347-1367.

Genomic landscape of fiber genes in fibered and non-fibered cottons - (Abstract Only)

Genomic exploitation of genetic variation for crop improvement - (Abstract Only)

Toward cotton molecular breeding: challenges and opportunities - (Abstract Only)

CottonGen: a genomics, genetics and breeding database for cotton research - (Peer Reviewed Journal)
Yu, J., Jung, S., Cheng, C., Ficklin, S.P., Lee, T., Zheng, P., Jones, D., Percy, R.G., Main, D. 2013. CottonGen: A genomics, genetics and breeding database for cotton research. Nucleic Acids Research. 42(Database):D1229-D1236.