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棉花学报  2013 

棉花纤维发育早期RNA-Seq转录组分析

DOI: 1002-7807(2013)03-0189-08, PP. 189-196

Keywords: 棉纤维发育早期,RNA-Seq,qRT-PCR

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Abstract:

为了揭示棉花纤维发育早期基因表达变化情况,本研究以纤维长度存在显著差异的两个陆海回交近交系NMGA-062(32.58mm)和NMGA-105(27.06mm)为材料,利用IlluminaHiSeqTM2000对0、3DPA(Dayspostanthesis)的胚珠及10DPA的纤维进行RNA-Seq测序。六个文库进行拼接,共得到长度大于200bp的Unigene98464个,总长度约为88.2Mb。对10DPA的纤维转录组数据进行差异表达分析,共筛选到1931个差异表达基因,1536个Unigene上调,395个Unigene下调。GO(Geneontology)功能显著性富集和Pathway显著性富集分析发现,差异表达基因富集在脂质转移活性(Lipidtransportactivity)分子功能组和脂质代谢通路(Lipidmetabolismpathway),由此推测脂类相关基因可能在纤维伸长发育过程中起重要作用。通过对棉纤维发育10DPA基因转录水平差异比较分析,为深入开展纤维伸长相关功能基因的克隆和功能验证提供了丰富的资源,并为揭示棉花纤维伸长的机制打下了坚实的基础。

References

[1]  徐楚年,余炳生,张 仪,等.棉花四个栽培种纤维发育早期扫描电镜的比较研究[J].北京农业大学学报,1987,13(3):255-262. XU Chu-nian,Yu Bing-sheng,Zhang Yi,et al.The comparative studies on early of fiber development of four cultivated cotton species with the scanning electron microscope[J].Journal of China Agricultural University,1987,13(3): 255-262.
[2]  BASRA A S,Malik C P.Development of the cotton fiber[J].Int Rev Cytol,1984(89): 65-113.
[3]  ARPAT A B,Waugh M,Sullivan J P,et al.Functional genomics of cell elongation in developing cotton fibers[J].Plant Molecular Biology,2004,54(6): 911-929.
[4]  UDALL J A,Swanson J M,Haller K,et al.A global assembly of cotton ESTs[J].Genome Research,2006,16(3): 441-450.
[5]  LEE J J,Hassan O S ,Gao W,et al.Developmental and gene expression analyses of a cotton naked seed mutant[J].Planta,2006,223(3): 418-432.
[6]  SHI Yong-hui,Zhu Sheng-wei,Mao Xi-zeng,et al.Transcriptome profiling,molecular biological,and physiological studies reveal a major role for ethylene in cotton fiber cell elongation[J].Plant Cell,2006,18(3): 651-664.
[7]  WILKINS T A,Apart A B.The cotton fibre transcriptome[J]. Physiologia Plantarum,2005,124(3): 295-300.
[8]  WU Y R,Machado A C,White R G,et al.Expression profiling identifies genes expressed early during lint fibre initiation in cotton[J].Plant Cell Physiology,2006,47(1): 107-127.
[9]  WU Y R,Llewellyn D J,White R,et al.Laser capture microdissection and cDNA microarrays used to generate gene expression profiles of the rapidly expanding fibre initial cells on the surface of cotton ovules[J].Planta,2007,226(6): 1475-1490.
[10]  AL-GHAZI Y,Bouro S,Arioli T,et al.Transcript profiling during fiber development identifies pathways in secondary metabolism and cell wall structure that may contribute to cotton fiber quality[J].Plant Cell Physiology,2009,50(7): 1364- 1381.
[11]  WANG Z,Gerstein M,Snyder M.RNA-Seq: a revolutionary tool for transcriptomics[J].Nature Reviews Genetics,2009,10(1): 57-63.
[12]  WANG Qin-qin,Liu Fei,Chen Xu-sheng,et al.Transcriptome profiling of early developing cotton fiber by deep-sequencing reveals significantly differential expression of genes in a fuzzless/lintless mutant[J].Genomics,2010,96(6): 369-376.
[13]  PANG M X,Percy R G,Stewart J M,et al.Comparative transcriptome analysis of Pima and Acala cotton during boll development using 454 pyrosequencing technology[J].Molecular Breeding,2012,30(2): 1143-1152.
[14]  LACAPE J M,Claverie M,Vidal R O,et al.Deep sequencing reveals differences in the transcriptional landscapes of fibers from two cultivated species of cotton[J].PLoS ONE,2012,7(11): e48855. doi:10.1371/journal.pone.0048855.
[15]  GRABHERR M G,Haas B J,Yassour M,et al.Full-length transcriptome assembly from RNA-Seq data without a reference genome[J].Nature Biotechnology,2011,29(7): 644-652.
[16]  WANG Kun-bo,Wang Zhi-wen,Li Fu-guang,et al.The draft genome of a diploid cotton Gossypium raimondii[J].Nature Genetics,2012,44(10): 1098-1103.
[17]  HOVAV R,Udall J A,Hovav E,et al.A majority of cotton genes are expressed in single-celled fiber[J].Planta,2008,227(2): 319-329.
[18]  JOSHI P C,Wadhwani A M,Johri B M.Morphological and embryological studies of Gossypium L[J].Proc Nat Inst Sci India,1967(33): 37-93.
[19]  STEWART J M.Fiber initiation on the cotton ovule (Gossypium hirsutum)[J].Am J Bot,1975,62(7): 723-730.
[20]  CHEN Xiang-dong,Guo Wang-zhen,Liu Bing-liang,et al. Molecular mechanisms of fiber differential development between G. barbadense and G. hirsutum revealed by genetical genomics[J].PLoS ONE,2012,7(1): e30056. doi:10.1371/journal.pone.0030056.
[21]  QIN Yong-mei,Zhu Yu-xian.How cotton fibers elongate: a tale of linear cell-growth mode[J].Current Opinion in Plant Biology,2011,14(1): 106-111.
[22]  JONES A M,Im K H,Savka M A,et al.Auxin-dependent cell expansion mediated by overexpressed auxin-binding protein 1[J].Science,1998,282(5391): 1114-1117.
[23]  JI Sheng-jian,Lu Ying-chun,Feng Jian-xun,et al.Isolation and analyses of genes preferentially expressed during early cotton fiber development by subtractive PCR and cDNA array[J].Nucleic Acids Research,2003,31(10): 2534-2543.
[24]  孙建波,崔百明,刘德兵,等.棉花生长素结合蛋白ABP1基因cDNA的克隆及序列分析[J].棉花学报,2007,19(4): 243-247. SUN Jian-bo,Cui Bai-ming,Liu De-bing,et al.Cloning and analysis of auxin-binding protein1 cDNA genes in Gossypium hirsutum[J].Cotton Science,2007,19(4): 243-247.
[25]  MA D P,Liu H C,Tan H,et al.Cloning and characterization of a cotton lipid transfer protein gene specifically expressed in fiber cells[J].Biochimica et Biophysica Acta,1997,1344(2): 111-114.
[26]  ORFORD S J,Timmis J N.Expression of a lipid transfer protein gene family during cotton fibre development[J].Biochimica et Biophysica Acta,2000,1483(2): 275-284.

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