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


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.


Cotton fiber gene SSH Microarrays Real time RT-PCR 


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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

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