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ARS Home » Southeast Area » New Orleans, Louisiana » Southern Regional Research Center » Cotton Fiber Bioscience Research » Research » Research Project #435004
Research Project: Molecular Characterization and Phenotypic Assessments of Cotton Fiber Quality Traits

Location: Cotton Fiber Bioscience Research

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

Regulatory controls of duplicated gene expression during fiber development in allotetraploid cotton Reprint Icon - (Peer Reviewed Journal)
You, J., Liu, Z., Qi, Z., Ma, Y., Sun, M., Chen, X., Su, L., Niu, H., Peng, Y., Fang, D.D., Luo, X., Zhu, M., Huang, Y., Chang, X. 2023. Regulatory controls of duplicated gene expression during fiber development in allotetraploid cotton. Nature Genetics. https://doi.org/10.1038/s41588-023-01530-8.

Bridging molecular genetics and genomics for cotton fiber quality improvement Reprint Icon - (Peer Reviewed Journal)
Naoumkina, M.A., Kim, H.J. 2023. Bridging molecular genetics and genomics for cotton fiber quality improvement. Crop Science. 63:1794-1815. https://doi.org/10.1002/csc2.20987.

Comparative analyses of a maturity distributional parameter evaluating immature fibre contents by reference microscopic analysis and conventional fibre measurement methods. Reprint Icon - (Peer Reviewed Journal)
Kim, H.J., Delhom, C.D., Jones, D.C., Xu, B. 2023. Comparative analyses of a maturity distributional parameter evaluating immature fibre contents by reference microscopic analysis and conventional fibre measurement methods. Journal of Textile Institute. Article 2204460. https://doi.org/10.1080/00405000.2023.2204460.

Phenomics and transcriptomics analyses reveal deposition of suberin and lignin in the short fiber cell walls produced from a wild cotton species and two mutants Reprint Icon - (Peer Reviewed Journal)
Kim, H.J., Liu, Y., Thyssen, G.N., Naoumkina, M.A., Frelichowski, J.E. 2023. Phenomics and transcriptomics analyses reveal deposition of suberin and lignin in the short fiber cell walls produced from a wild cotton species and two mutants. PLOS ONE. 18. Article e0282799. https://doi.org/10.1371/journal.pone.0282799.

Overexpression of an actin Gh_D04G0865 gene in cotton reduced fineness of fiber Reprint Icon - (Peer Reviewed Journal)
Naoumkina, M.A., Florane, C.B., Kim, H.J., Santiago Cintron, M., Delhom, C.D. 2023. Overexpression of an actin Gh_D04G0865 gene in cotton reduced fineness of fiber. Crop Science. 63:740-749. https://doi.org/10.1002/csc2.20888.

Genomic confirmation of Gossypium barbadense introgression into G. hirsutum and a subsequent MAGIC population Reprint Icon - (Peer Reviewed Journal)
Fang, D.D., Thyssen, G.N., Wang, M.C., Jenkins, J.N., Mccarty Jr, J.C., Jones, D.C. 2022. Genomic confirmation of Gossypium barbadense introgression into G. hirsutum and a subsequent MAGIC population. Molecular Genetics and Genomics. 298:143-152. https://doi.org/10.1007/s00438-022-01974-3.

Genomic innovation and regulatory rewiring during evolution of the cotton genus Gossypium Reprint Icon - (Peer Reviewed Journal)
Wang, M., Li, J., Qi, Z., Long, Y., Pei, L., Huang, X., Grover, C.E., Du, X., Fang, D.D., Xia, C., Wang, P., Liu, Z., You, J., Tian, X., Ma, Y., Wang, R., Chen, X., He, X., Sun, Y., Tu, L., Jin, S., Zhu, L., Wendel, J.F., Zhang, X. 2022. Genomic innovation and regulatory rewiring during evolution of the cotton genus Gossypium. Nature Genetics. 54:1959-1971. https://doi.org/10.1038/s41588-022-01237-2.

A deletion/duplication in the Ligon-lintless-2 locus induces siRNAs that inhibits cotton fiber cell elongation Reprint Icon - (Peer Reviewed Journal)
Naoumkina, M.A., Thyssen, G.N., Fang, D.D., Florane, C.B., Li, P. 2022. A deletion/duplication in the Ligon-lintless-2 locus induces siRNAs that inhibits cotton fiber cell elongation. Plant Physiology. 190(3):1792-1805. https://doi.org/10.1093/plphys/kiac384.

A GWAS identified a major QTL for resistance to Fusarium wilt (Fusarium oxysporum f. sp. vasinfectum) race 4 in a MAGIC population of Upland cotton and a meta-analysis of QTLs for Fusarium wilt resistance Reprint Icon - (Peer Reviewed Journal)
Zhu, Y., Thyssen, G.N., Abdelraheem, A., Teng, Z., Fang, D.D., Jenkins, J.N., Mccarty Jr, J.C., Wedegaertner, T., Hake, K., Zhang, J. 2022. A GWAS identified a major QTL for resistance to Fusarium wilt (Fusarium oxysporum f. sp. vasinfectum) race 4 in a MAGIC population of Upland cotton and a meta-analysis of QTLs for Fusarium wilt resistance. Theoretical and Applied Genetics. 135:2297-2312. https://doi.org/10.1007/s00122-022-04113-z.

Dynamic 3D genome architecture of cotton fiber reveals subgenome-coordinated chromatin topology for 4-staged single-cell differentiation Reprint Icon - (Peer Reviewed Journal)
Pei, L., Huang, X., Liu, Z., Tian, X., You, J., Li, J., Fang, D.D., Lindsey, K., Zhu, L., Zhang, X., Wang, M. 2022. Dynamic 3D genome architecture of cotton fiber reveals subgenome-coordinated chromatin topology for 4-staged single-cell differentiation. Genome Biology. 23:45. https://doi.org/10.1186/s13059-022-02616-y.

Genomic interrogation of a MAGIC population highlights genetic factors controlling fiber quality traits in cotton Reprint Icon - (Peer Reviewed Journal)
Wang, M., Qi, Z., Thyssen, G.N., Naoumkina, M.A., Jenkins, J.N., McCarty, J.C., Xiao, Y., Li, J., Zhang, X., Fang, D.D. 2022. Genomic interrogation of a MAGIC population highlights genetic factors controlling fiber quality traits in cotton. Communications Biology. 5:60. https://doi.org/10.1038/s42003-022-03022-7.

Evidence for thermosensitivity of the cotton (Gossypium hirsutum L.) immature fiber (im) mutant via hypersensitive stomatal activity Reprint Icon - (Peer Reviewed Journal)
Kim, H.J., Kato, N., Ndathe, R., Thyssen, G.N., Jones, D.C., Ratnayaka, H. 2021. Evidence for thermosensitivity of the cotton (Gossypium hirsutum L.) immature fiber (im) mutant via hypersensitive stomatal activity. PLoS ONE. 16(12):e0259562. https://doi.org/10.1371/journal.pone.0259562.

Characterizations of a distributional parameter that evaluates contents of immature fibers within and among cotton samples Reprint Icon - (Peer Reviewed Journal)
Kim, H.J., Delhom, C.D., Liu, Y., Jones, D.C., Xu, B. 2021. Characterizations of a distributional parameter that evaluates contents of immature fibers within and among cotton samples. Cellulose. 28:9023-9038. https://doi.org/10.1007/s10570-021-04135-8.

Mapping-by-sequencing the locus of EMS-induced mutation responsible for tufted-fuzzless seed phenotype in cotton Reprint Icon - (Peer Reviewed Journal)
Naoumkina, M., Thyssen, G.N., Fang, D.D., Bechere, E., Li, P., Florane, C.B. 2021. Mapping-by-sequencing the locus of EMS-induced mutation responsible for tufted-fuzzless seed phenotype in cotton. Molecular Genetics and Genomics. https://doi.org/10.1007/s00438-021-01802-0.

Elucidation of sequence polymorphism in fuzzless-seed cotton lines Reprint Icon - (Peer Reviewed Journal)
Naoumkina, M.A., Thyssen, G.N., Fang, D.D., Li, P., Florane, C.B. 2020. Elucidation of sequence polymorphism in fuzzless-seed cotton lines. Molecular Genetics and Genomics. 296(1):193–206. https://doi.org/10.1007/s00438-020-01736-z.

GWAS reveals consistent QTL for drought and salt tolerance in a MAGIC population of 550 lines derived from intermating of 11 Upland cotton (Gossypium hirsutum) parents Reprint Icon - (Peer Reviewed Journal)
Abdelraheem, A., Thyssen, G.N., Fang, D.D., Jenkins, J.N., McCarty, J.C., Wedegaertner, T., Zhang, J. 2020. GWAS reveals consistent QTL for drought and salt tolerance in a MAGIC population of 550 lines derived from intermating of 11 Upland cotton (Gossypium hirsutum) parents. Molecular Genetics and Genomics. 296(1):119-129. https://doi.org/10.1007/s00438-020-01733-2.

GWAS reveals consistent QTL for drought and salt tolerance in a MAGIC population of 550 lines derived from intermating of eleven Upland cotton (Gossypium hirsutum) parents - (Peer Reviewed Journal)

Stability and transferability assessment of the cotton fiber strength QTL qFS-c7-1 on chromosome A07 Reprint Icon - (Peer Reviewed Journal)
Fang, D.D., Zeng, L., Thyssen, G.N., Delhom, C.D., Bechere, E., Jones, D.C., Li, P. 2021. Stability and transferability assessment of the cotton fiber strength QTL qFS-c7-1 on chromosome A07. The Crop Journal. 9(2):380-386. https://doi.org/10.1016/j.cj.2020.06.016.

Application of the cottonscope for determining fiber maturity and fineness of an upland cotton MAGIC population Reprint Icon - (Peer Reviewed Journal)
Kim, H.J., Delhom, C.D., Fang, D.D., Zeng, L., Jenkins, J.N., Mccarty Jr, J.C., Jones, D.C. 2020. Application of the cottonscope for determining fiber maturity and fineness of an upland cotton MAGIC population. Crop Science. 60(5):2266–2279. https://doi.org/10.1002/csc2.20197.

QTL analysis of agronomic, fiber quality, and abiotic stress tolerance traits using a pima cotton (Gossypium barbadense L.) recombinant inbred population Reprint Icon - (Peer Reviewed Journal)
Abdelraheem, A., Fang, D.D., Dever, J., Zhang, J. 2020. QTL analysis of agronomic, fiber quality, and abiotic stress tolerance traits using a pima cotton (Gossypium barbadense L.) recombinant inbred population. Crop Science. 60(4):1823-1843. https://doi.org/10.1002/csc2.20153.

Mapping and validation of a fiber length QTL on chromosome D11 using two independent F2 populations of upland cotton Reprint Icon - (Peer Reviewed Journal)
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.

Mapping and validation of a fiber length QTL on chromosome D11 using two independent F2 populations of upland cotton Reprint Icon - (Peer Reviewed Journal)
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.

Combined GWAS and eQTL analysis uncovers a genetic regulatory network orchestrating the initiation of secondary cell wall development in cotton Reprint Icon - (Peer Reviewed Journal)
Li, Z., Wang, P., You, C., Yu, J., Zhang, X., Yan, F., Ye, Z., Shen, C., Li, B., Guo, K., Liu, N., Thyssen, G.N., Fang, D.D., Lindsey, K., Zhang, X., Wang, M., Tu, L. 2020. Combined GWAS and eQTL analysis uncovers a genetic regulatory network orchestrating the initiation of secondary cell wall development in cotton. New Phytologist. 226:1738-1752. https://doi.org/10.1111/nph.16468.

Evaluation and genome-wide association study of Verticillium wilt resistance in a MAGIC population derived from intermating of eleven Upland cotton (Gossypium hirsutum) parents Reprint Icon - (Peer Reviewed Journal)
Zhang, J., Abdelraheem, A., Thyssen, G.N., Fang, D.D., Jenkins, J.N., McCarty Jr, J.C., Wedegaertner, T. 2019. Evaluation and genome-wide association study of Verticillium wilt resistance in a MAGIC population derived from intermating of eleven Upland cotton (Gossypium hirsutum) parents. Euphytica. 216:9. https://doi.org/10.1007/s10681-019-2547-6.

An EMS-induced mutation in a tetratricopeptide repeat-like superfamily protein gene (Ghir_A12G008870) on chromosome A12 is responsible for the liy short fiber phenotype in cotton Reprint Icon - (Peer Reviewed Journal)
Fang, D.D., Naoumkina, M.A., Thyssen, G.N., Bechere, E., Li, P., Florane, C.B. 2020. An EMS-induced mutation in a tetratricopeptide repeat-like superfamily protein gene (Ghir_A12G008870) on chromosome A12 is responsible for the liy short fiber phenotype in cotton. Journal of Theoretical and Applied Genetics. 133(1):271-282. https://doi.org/10.1007/s00122-019-03456-4.

Functional divergence of cellulose synthase orthologs in between wild Gossypium raimondii and domesticated G. arboreum diploid cotton species Reprint Icon - (Peer Reviewed Journal)
Kim, H.J., Thyssen, G.N., Song, X., Delhom, C.D., Liu, Y. 2019. Functional divergence of cellulose synthase orthologs in between wild Gossypium raimondii and domesticated G. arboreum diploid cotton species. Cellulose. 26:9483-9501. https://doi.org/10.1007/s10570-019-02744-y.

Evaluation of genomic selection methods for predicting fiber quality traits in upland cotton Reprint Icon - (Peer Reviewed Journal)
Islam, M.S., Fang, D.D., Jenkins, J.N., Guo, J., Mccarty Jr, J.C., Jones, D.C. 2019. Evaluation of genomic selection methods for predicting fiber quality traits in upland cotton. Molecular Genetics and Genomics. 295:67-69. https://doi.org/10.1007/s00438-019-01599-z.

Feasibility assessment of phenotyping cotton fiber maturity using infrared spectroscopy and algorithms for genotyping analyses Reprint Icon - (Peer Reviewed Journal)
Kim, H.J., Liu, Y., Fang, D.D., Delhom, C.D. 2019. Feasibility assessment of phenotyping cotton fiber maturity using infrared spectroscopy and algorithms for genotyping analyses. Journal of Cotton Research. 2:8. https://doi.org/10.1186/s42397-019-0027-0.

Gossypium barbadense and Gossypium hirsutum genomes provide insights into the origin and evolution of allotetraploid cotton Reprint Icon - (Peer Reviewed Journal)
Hu, Y., Chen, J., Fang, L., Zhang, Z., Ma, W., Niu, Y., Ju, R., Zhao, T., Fang, D.D., Zhang, T., Lian, J., Baruch, K., Liu, X., Ruan, Y. 2019. Gossypium barbadense and Gossypium hirsutum genomes provide insights into the origin and evolution of allotetraploid cotton. Nature Genetics. 51:739-748. https://doi.org/10.1038/s41588-019-0371-5.

Genetic and transcriptomic dissection of the fiber length trait from a cotton (Gossypium hirsutum L.) MAGIC population Reprint Icon - (Peer Reviewed Journal)
Naoumkina, M.A., Thyssen, G.N., Fang, D.D., Jenkins, J.N., McCarty, J.C., Florane, C.B. 2019. Genetic and transcriptomic dissection of the fiber length trait from a cotton (Gossypium hirsutum L.) MAGIC population. BMC Genomics. 20:112. https://doi.org/10.1186/s12864-019-5427-5.

Whole genome sequencing of a MAGIC population identified genomic loci and candidate genes for major fiber quality traits in upland cotton (Gossypium hirsutum L.) Reprint Icon - (Peer Reviewed Journal)
Thyssen, G.N., Jenkins, J.N., McCarty, J.C., Zeng, L., Campbell, B.T., Delhom, C.D., Islam, M.S., Li, P., Jones, D.C., Condon, B.D., Fang, D.D. 2018. Whole genome sequencing of a MAGIC population identified genomic loci and candidate genes for major fiber quality traits in upland cotton (Gossypium hirsutum L.). Journal of Theoretical and Applied Genetics. 132:989-999. https://doi.org/10.1007/s00122-018-3254-8.