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ARS Home » Southeast Area » Mississippi State, Mississippi » Crop Science Research Laboratory » Genetics and Sustainable Agriculture Research » Research » Publications at this Location » Publication #216977
Title: Identification of differentially expressed genes associated with cotton fiber development in a chromosomal substitution line (CS-B22sh)

Author
item WU, ZHENGDAO - ALABAMA A&M UNIVERSITY
item SOLIMAN, KHAIRY - ALABAMA A&M UNIVERSITY
item Bolton, James
item Saha, Sukumar
item Jenkins, Johnie

Submitted to: Genomics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 11/14/2007
Publication Date: 5/1/2008
Citation: Wu, Z., Soliman, K.M., Bolton, J.J., Saha, S., Jenkins, J.N. 2008. Identification of differentially expressed genes associated with cotton fiber development in a chromosomal substitution line (CS-B22sh). Genomics. 8:166-174.

Interpretive Summary: Very little information is available at the molecular level about genes controlling fiber development in cotton. Availability of interspecific chromosome arm substitution line CS-B22sh (chromosome 22 short arm substitution from 3-79 (Gossypium barbadense) into a TM-1 (G. hirsutum genetic background)) provides a novel opportunity to study fiber-associated genes because previous studies revealed that this line was associated with some superior fiber quality traits compared to TM-1. An integrated approach of molecular techniques of suppression subtractive hybridization (SSH), microarray and real-time reverse transcription-polymerase chain reaction (RT-PCR) technologies were used to identify the potential genes associated with fiber development. The SSH cDNA library of 15-dpa fiber was then screened using microarrays. Thirty-six genes were differentially expressed in CS-B22sh 15-dpa fiber compared to TM-1 as confirmed by real time RT-PCR. We discovered some fiber associated important genes including 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. The discovery of these genes will have potential impact in understanding cotton fiber development and thereby in the genetic manipulation of the cotton fiber improvement program.

Technical 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 (G. 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 then 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 metbolisms. This is one of the few reports on identification of differentially expressed genes in cotton using chromosomal substation line.