J Integr Plant Biol. ›› 2013, Vol. 55 ›› Issue (7): 631-642.DOI: 10.1111/jipb.12073

• Research Articles • Previous Articles     Next Articles

Transcriptome Profiling Reveals Auxin and Cytokinin Regulating Somatic Embryogenesis in Different Sister Lines of Cotton Cultivar CCRI24

Zhenzhen Xu, Chaojun Zhang, Xueyan Zhang, Chuanliang Liu, Zhixia Wu, Zuoren Yang, Kehai Zhou, Xiaojie Yang and Fuguang Li*   

  1. State Key Laboratory of Cotton Biology, The Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, People's Republic of China
  • Received:2013-03-21 Accepted:2013-05-15 Published:2013-07-01
  • About author:These authors contributed equally to this work.
    *Corresponding author Tel: +86 372 2562204; Fax: +86 372 2562256; E-mail: aylifug@163.com


To get a broader view on the molecular mechanisms underlying somatic embryogenesis (SE) in cotton (Gossypium hirsutum L.), global analysis of cotton transcriptome dynamics during SE in different sister lines was performed using RNA-Seq. A total of 204 349 unigenes were detected by de novo assembly of the 214 977 462 Illumina reads. The quantitative reverse transcription–polymerase chain reaction (qRT-PCR) measurements were positively correlated with the RNA-Seq results for almost all the tested genes (R2 = 0.841, correlation was significant at the 0.01 level). Different phytohormone (auxin and cytokinin) concentration ratios in medium and the endogenous content changes of these two phytohormones at two stages in different sister lines suggested the roles of auxin and cytokinin during cotton SE. On the basis of global gene regulation of phytohormone-related genes, numerous genes from all the differentially expressed transcripts were involved in auxin and cytokinin biosynthesis and signal transduction pathways. Analyses of differentially expressed genes that were involved in these pathways revealed the substantial changes in gene type and abundance between two sister lines. Isolation, cloning and silencing/overexpressing the genes that revealed remarkable up- or down-expression during cotton SE were important. Furthermore, auxin and cytokinin play a primary role in SE, but potential cross-talk with each other or other factors remains unclear.

Xu Z, Zhang C, Zhang X, Liu C, Wu Z, Yang Z, Zhou K, Yang X, Li F (2013) Transcriptome profiling reveals auxin and cytokinin regulating somatic embryogenesis in different sister lines of cotton cultivar CCRI24. J. Integr. Plant Biol. 55(7), 631–642.

Key words: Auxin, cotton, cytokinin, RNA-Seq, somatic embryogenesis

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