Global identification of genes associated with xylan biosynthesis in cotton fiber
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Journal of Cotton Research
RESEARCH
Open Access
Global identification of genes associated with xylan biosynthesis in cotton fiber CHEN Feng1, GUO Yanjun1, CHEN Li1, GAN Xinli1, LIU Min1, LI Juan1 and XU Wenliang1,2*
Abstract Background: Mature cotton fiber secondary cell wall comprises largely of cellulose (> 90%) and small amounts of xylan and lignin. Little is known about the cotton fiber xylan biosynthesis by far. Results: To comprehensively survey xylan biosynthetic genes in cotton fiber, we identified five IRX9, five IRX10, one IRX14, six IRX15, two FRA8, one PARVUS, eight GUX, four GXM, two RWA, two AXY9, 13 TBL genes by using phylogenetic analysis coupled with expression profile analysis and co-expression analyses. In addition, we also identified two GT61 members, two GT47 members, and two DUF579 family members whose homologs in Arabidopsis were not functionally characterized. These 55 genes were regarded as the most probable genes to be involved in fiber xylan biosynthesis. Further complementation analysis indicated that one IRX10 like and two FRA8 related genes were able to partially recover the irregular xylem phenotype conferred by the xylan deficiency in their respective Arabidopsis mutant. We conclude that these genes are functional orthologs of respective genes that are implicated in GX biosynthesis. Conclusion: The list of 55 cotton genes presented here provides not only a solid basis to uncover the biosynthesis of xylan in cotton fiber, but also a genetic resource potentially useful for future studies aiming at fiber improvement via biotechnological approaches. Keywords: Cotton fiber, Secondary cell wall, Xylan biosynthesis, Expression profile, Co-expression
Background Mature cotton fiber secondary cell wall (SCW) is composed mainly of cellulose (> 90%) and small amounts of noncellulosic polymers, such as xylan and lignin (Haigler et al. 2012; Han et al. 2013). Fiber cell wall composition not only defines fiber morphogenesis but also affects fiber quality and quantity (Haigler et al. 2012). For instance, the xyloglucan endo-transglycosylase/hydrolase (XTH) proteins are capable of degrading xyloglucan irreversibly, and cleaving and transferring chain ends between molecules. Transgenic cotton plants overexpressing GhXTH1 exhibited approximately two-fold higher XET activity and 15% ~ 20% longer fiber compared with * Correspondence: [email protected] 1 Hubei Key Laboratory of Genetic Regulation and Integrative Biology, School of Life Sciences, Central China Normal University, Wuhan 430079, China 2 Zhengzhou Research Base, State Key Laboratory of Cotton Biology, Zhengzhou University, Zhengzhou 450001, China
wild type cotton (Lee et al. 2010). In addition, Avci et al. (2013) found that 14 to 21 days post-anthesis (DPA) fibers of Gossypium barbadense barely contain looselybound xyloglucan whereas the Gossypium hirsutum fibers contain lots of xyloglucan via glycome profiling (Avci et al. 2013). Li et al. (2013) even speculated that xyloglucan might affect fiber elongation negatively by compa
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