Organ-specific silencing of duplicated genes in a newly synthesized cotton allotetraploid

¹ Unversity of British Columbia
² Iowa State University

^* To whom correspondence should be addressed. E-mail: keith.adams{at}ubc.ca.

Submitted on July 16, 2004
Revised on August 26, 2004
Accepted on 1 September 2004

	Abstract

Most eukaryotes have undergone genome doubling at least once during their evolutionary history. Hybridization followed by genome doubling (allopolyploidization) is a prominent mode of speciation in plants, leading to phenotypic novelty and changes in genome structure and gene expression. Molecular events that take place immediately after polyploid formation can be studied using newly synthesized allopolyploids. Here we studied the extent of gene silencing in a newly created and genomically stable allotetraploid cotton, of genotype AAGG, using an AFLP-cDNA display screen. Over 2000 transcripts were screened and about 5% of the duplicated genes in the allotetraploid were inferred to have been silenced or down-regulated. Sequencing of 24 AFLP-cDNA fragments revealed genes with a variety of functions. Analysis by RT-PCR showed silencing or a strong expression bias towards one copy for 9 of 13 genes examined. Comparisons of expression patterns among eight organs in the allopolyploid showed that silencing and preferential expression are organ-specific. Examination of silencing patterns in two other synthetic polyploids, of genotype AADD, showed that the same gene can be silenced independently in different genotypes. These results provide a detailed portrayal of gene silencing events that can occur following allopolyploidization and suggest epigenetic causal factors.

Key Words: cotton, gene duplication, gene silencing, molecular evolution, polyploidy

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