Functional & Integrative Genomics

, Volume 8, Issue 2, pp 165–174

Identification of differentially expressed genes associated with cotton fiber development in a chromosomal substitution line (CS-B22sh)

  • Zhengdao Wu
  • Khairy M. Soliman
  • James J. Bolton
  • Sukumar Saha
  • Johnie N. Jenkins
Original Paper

DOI: 10.1007/s10142-007-0064-5

Cite this article as:
Wu, Z., Soliman, K.M., Bolton, J.J. et al. Funct Integr Genomics (2008) 8: 165. doi:10.1007/s10142-007-0064-5

Abstract

One of the impediments in the genetic improvement of cotton fiber is the paucity of information about genes associated with fiber development. Availability of chromosome arm substitution line CS-B22sh (chromosome 22 short arm substitution from 3–79 (Gossypium barbadense) into a TM-1 (Gossypium hirsutum) background) provides a novel opportunity to study fiber-associated genes because previous studies revealed this line was associated with some superior fiber quality traits compared to TM-1. We used an integrated approach of suppression subtractive hybridization (SSH), microarray, and real-time reverse transcription-polymerase chain reaction (RT-PCR) technologies to identify the potential genes associated with fiber development. Utilizing mRNAs from 15 days post-anthesis (dpa) fibers, we constructed a SSH cDNA library with chromosome substitution line CS-B22sh as the tester and TM-1 as the driver. The SSH cDNA library was screened using microarrays. Microarray analysis showed that 36 genes were differentially expressed in CS-B22sh 15-dpa fiber compared to TM-1 as confirmed by real time RT-PCR. These genes include two beta-tubulins, an actin, a putative kinesin light chain, a cellulose synthase, glycosyl hydrolase family 3 protein, pyruvate decarboxylase, glycoside hydrolase family 5, GDP-mannose pyrophosphorylase, dynamin-like protein, annexin, and a number of genes involved in signal transduction, and protein, nucleic acid, and lipid metabolisms. To our knowledge, this is the first report on identification of differentially expressed fiber-associated genes in a cotton chromosomal substitution line.

Keywords

Cotton fiber geneSSHMicroarraysReal time RT-PCR

Copyright information

© Springer-Verlag 2007

Authors and Affiliations

  • Zhengdao Wu
    • 1
  • Khairy M. Soliman
    • 1
  • James J. Bolton
    • 1
  • Sukumar Saha
    • 2
  • Johnie N. Jenkins
    • 2
  1. 1.Department of Natural Resources and Environmental SciencesAlabama A&M UniversityNormalUSA
  2. 2.USDA/ARSCrop Science Research LaboratoryMississippi StateUSA