Functional genomics of cell elongation in developing cotton fibers

A. Bulak Arpat, Mark Waugh, John P. Sullivan, Michael Gonzales, David Frisch, Dorrie Main, Todd Wood, Anna Leslie, Rod A Wing, Thea A. Wilkins

Research output: Contribution to journalArticle

198 Citations (Scopus)

Abstract

Cotton fibers are single-celled seed trichomes of major economic importance. Factors that regulate the rate and duration of cell expansion control fiber morphology and important agronomic traits. For genetic characterization of rapid cell elongation in cotton fibers, ∼ 14,000 unique genes were assembled from 46,603 expressed sequence tags (ESTs) from developmentally staged fiber cDNAs of a cultivated diploid species (Gossypium arboreum L.). Conservatively, the fiber transcriptome represents 35-40% of the genes in the cotton genome. In silico expression analysis revealed that rapidly elongating fiber cells exhibit significant metabolic activity, with the bulk of gene transcripts, represented by three major functional groups - cell wall structure and biogenesis, the cytoskeleton and energy/carbohydrate metabolism. Oligonucleotide microarrays revealed dynamic changes in gene expression between primary and secondary cell wall biogenesis showing that fiber genes in the dbEST are highly stage-specific for cell expansion - a conclusion supported by the absence of known secondary cell wall-specific genes from our fiber dbEST. During the developmental switch from primary to secondary cell wall syntheses, 2553 "expansion-associated" fiber genes are significantly down regulated. Genes (81) significantly up-regulated during secondary cell wall synthesis are involved in cell wall biogenesis and energy/carbohydrate metabolism, which is consistent with the stage of cellulose synthesis during secondary cell wall modification in developing fibers. This work provides the first in-depth view of the genetic complexity of the transcriptome of an expanding cell, and lays the groundwork for studying fundamental biological processes in plant biology with applications in agricultural biotechnology.

Original languageEnglish (US)
Pages (from-to)911-929
Number of pages19
JournalPlant Molecular Biology
Volume54
Issue number6
DOIs
StatePublished - Apr 2004

Fingerprint

Cotton Fiber
Cotton fibers
lint cotton
Genomics
Cell Wall
Elongation
cell growth
Genes
cell walls
genomics
Cells
Fibers
genes
Carbohydrate Metabolism
carbohydrate metabolism
Transcriptome
transcriptome
energy metabolism
Energy Metabolism
synthesis

Keywords

  • Cell expansion
  • ESTs
  • Oligonucleotide microarrays
  • Primary cell wall
  • Secondary cell wall

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Biochemistry

Cite this

Arpat, A. B., Waugh, M., Sullivan, J. P., Gonzales, M., Frisch, D., Main, D., ... Wilkins, T. A. (2004). Functional genomics of cell elongation in developing cotton fibers. Plant Molecular Biology, 54(6), 911-929. https://doi.org/10.1007/s11103-004-0392-y

Functional genomics of cell elongation in developing cotton fibers. / Arpat, A. Bulak; Waugh, Mark; Sullivan, John P.; Gonzales, Michael; Frisch, David; Main, Dorrie; Wood, Todd; Leslie, Anna; Wing, Rod A; Wilkins, Thea A.

In: Plant Molecular Biology, Vol. 54, No. 6, 04.2004, p. 911-929.

Research output: Contribution to journalArticle

Arpat, AB, Waugh, M, Sullivan, JP, Gonzales, M, Frisch, D, Main, D, Wood, T, Leslie, A, Wing, RA & Wilkins, TA 2004, 'Functional genomics of cell elongation in developing cotton fibers', Plant Molecular Biology, vol. 54, no. 6, pp. 911-929. https://doi.org/10.1007/s11103-004-0392-y
Arpat AB, Waugh M, Sullivan JP, Gonzales M, Frisch D, Main D et al. Functional genomics of cell elongation in developing cotton fibers. Plant Molecular Biology. 2004 Apr;54(6):911-929. https://doi.org/10.1007/s11103-004-0392-y
Arpat, A. Bulak ; Waugh, Mark ; Sullivan, John P. ; Gonzales, Michael ; Frisch, David ; Main, Dorrie ; Wood, Todd ; Leslie, Anna ; Wing, Rod A ; Wilkins, Thea A. / Functional genomics of cell elongation in developing cotton fibers. In: Plant Molecular Biology. 2004 ; Vol. 54, No. 6. pp. 911-929.
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