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Acta Agron Sin ›› 2011, Vol. 37 ›› Issue (01): 95-104.doi: 10.3724/SP.J.1006.2011.00095

• CROP GENETICS & BREEDING·GERMPLASM RESOURCES·MOLECULAR GENETICS • Previous Articles     Next Articles

Identification of Fiber Length-Related Genes Using Cotton Oligonucleotide Microarrays

LI Long-Yun1,2,YU Ji-Wen1,*,ZHAI Hong-Hong1,HUANG Shuang-Ling1,LI Xing-Li1,ZHANG Hong-Wei1,ZHANG Jin-Fa3,YU Shu-Xun1,*   

  1. 1 Cotton Research Institute, Chinese Academy of Agricultural Sciences, Anyang 455000, China; 2 College of Agronomy, Northwest A&F University, Yangling 712100, China; 3 Department of Plant and Enviromental Science, New Mexico State University, Las Cruces 80003, New Mexico, USA
  • Received:2010-03-12 Revised:2010-08-05 Online:2011-01-12 Published:2010-10-09
  • Contact: YU Wen-wen,E-mail:yujw666@hotmail.com;YU Shu-xun,E-mail:yu@cricaas.com.cn,Tel:0372-2562275

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Abstract: Gossypium barbadense L. is known for its superior fiber quality including long fiber and their quantitative trait loci (QTL) have been reported. However, little is known about the molecular genetic basis of fiber quality traits. The objective of the present study was to identify differentially expressed genes in the rapid fiber elongation stage (10 days post-anthesis, 10 DPA) using a comparative microarray analysis between two backcross inbred lines (BIL) with contrasting fiber lengths. The two BIL lines, NMGA-062 (33.03 mm) and NMGA-140 (25.87 mm), were selected based on a 3-year field trial in four environments.  The Affymetrix Cotton GeneChip was then used to perform a transcriptome analysis of 24 029 transcripts in developing fibers (10 DPA). Among the transcripts 7 282 (30.31%) showed a significant differential expression (DE) and 3 993 (16.62%) showed 2-fold or higher levels of expression changes between the two BIL lines. Through quantitative RT-PCR analyses on different plant organs and developing fibers of 10 DPA, eight selected DE genes, including Ghi.10655.1.S1_s_at, ACO1, ARF1, SAHH, TUA6,TUA7, β-tub1, and β-tub10, all displayed similar results to theses of the microarray analysis. This indicated that the comparative microarray results were biologically reproducible. Quantitative RT-PCR analyses were also performed at five fiber development stages from 5 to 25 DPA on ARF1, β-tub1, and β-tub10. The results indicated that they were all highly expressed in a period of fast fiber elongation and primary cell wall synthesis (at 10–15 DPA), implicating their roles in fiber elongation. This study represents the first investigation using a microarray analysis to compare differential gene expressions between near-isogenic lines with contrasting fiber quality. It provided a list of putative candidate genes for further studies in identifying genes responsible for fiber traits and developing molecular markers for marker-assisted breeding.

Key words: Affymetrix microarray, Fiber length-related genes, Differential expressed genes, Quantitative RT-PCR

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