Transcriptome profiling of early developing cotton fiber by deep-sequencing reveals significantly differential expression of genes in a fuzzless/lintless mutant
文献类型: 外文期刊
作者: Wang, Qin Qin 1 ; Liu, Fei 1 ; Chen, Xu Sheng 2 ; Ma, Xiao Jie 2 ; Zeng, Hou Qing 1 ; Yang, Zhi Min 1 ;
作者机构: 1.Nanjing Agr Univ, Dept Biochem & Mol Biol, Coll Life Sci, Nanjing 210095, Peoples R China
2.Jiangsu Acad Agr Sci, Ind Crop Inst, Lab Cotton Breeding, Nanjing, Peoples R China
关键词: Gossypium hirsutum;Fiber;Transcriptome;Deep-sequencing;MicroRNA target gene
期刊名称:GENOMICS ( 影响因子:5.736; 五年影响因子:4.939 )
ISSN: 0888-7543
年卷期: 2010 年 96 卷 6 期
页码:
收录情况: SCI
摘要: Cotton fiber as a single-celled trichome is a biological model system for studying cell differentiation and elongation. However, the complexity of its gene expression and regulatory mechanism allows only marginal progress. Here, we report the high-throughput tag-sequencing (Tag-seq) analysis using Solexa Genome Analyzer platform on transcriptome of -2 to 1 (fiber initiation, stage I) and 2-8 (fiber elongation, stage II) days post anthesis (DPA) cotton (Gossypium hirsutum) ovules (wild type: WT; Xuzhou 142 and its mutant: fuzzless/lintless or fl M, in the same background). To this end, we sequenced 3.5-3.8 million tags representing 0.7-1.0 million unique transcripts for each library (WT1, WT2, M1, and M2). After removal of low quality tags, we obtained a total of 2,973,104, 3,139,306, 2,943,654, and 3,392,103 clean sequences that corresponded to 357,852, 280,787, 372,952, and 382,503 distinct tags for WT1, WT2, M1. and M2, respectively. All clean tags were aligned to the publicly available cotton transcript database (TIGR, http://www.tigr.org). About 15% of the distinct tags were uniquely mapped to the reference genes, and 31.4% of existing genes were matched by tags. The tag mapping to the database sequences generated 23,854, 24,442, 23,497, and 19,957 annotated genes for WT1, WT2, M1, and M2 libraries, respectively. Analyses of differentially expressed genes revealed the substantial changes in gene type and abundance between the wild type and mutant libraries. Among the 20 most differentially expressed genes in WT1/M1 and WT2/M2 libraries were cellulose synthase, phosphatase, and dehydrogenase, all of which are involved in the fiber cell development. Overall, the deep-sequencing analyses demonstrate the high degree of transcriptional complexity in early developing fibers and represent a major improvement over the microarrays for analyzing transcriptional changes on a large scale. (C) 2010 Elsevier Inc. All rights reserved.
- 相关文献
作者其他论文 更多>>
-
Cu0-Functionalized, ZIF-8-Derived, Nitrogen-Doped Carbon Composites for Efficient Iodine Elimination in Solution
作者:Chen, Jiuyu;Gao, Chensheng;Liu, Zhiwen;Chen, Jingwen;Liu, Fei
关键词:ZIF-8; Cu-0 nanoparticles; iodine; adsorption; DFT studies
-
Three-mode ratiometric biosensor based on integrated DNA-driven magnetic beads for Clostridium perfringens detection
作者:Wang, Wenzhuo;Lin, Tingting;Sun, Zhilan;Wang, Daoying;Liu, Fang;Wang, Wenzhuo;Yuan, Wei;Lin, Tingting;Sun, Zhilan;Wang, Daoying;Liu, Fang;Wang, Wenzhuo;Liu, Fei;Yuan, Wei
关键词:Clostridium perfringens; Three-mode biosensor; Ratiometric biosensor; G-quadruplex; RCA
-
Development of a Portable Rapid Detection Method for Porcine Epidemic Diarrhea Virus Using Reverse Transcription-Recombinase-Aided Amplification Technology
作者:Zhao, Yiran;Yi, Weijie;Yang, Qicheng;Shan, Yanke;Liu, Fei;Li, Jiahao
关键词:porcine epidemic diarrhea virus; isothermal amplification technology; reverse transcription-recombinase-aided amplification; point-of-care detection
-
Mechanistic insight into confined Fenton system in the MXene layer (MXene-Fe@PES) for enhanced aquatic contaminant removal
作者:Liu, Fei;You, Jikang;Xu, Huacheng;Xue, Dingming;Zhang, Yayun;Chen, Jingwen
关键词:Confinement strategy; Two-dimensional materials; MXene-Fe@PES; Fenton-like; Contaminant removal; Dissolved organic matter
-
Identification and characterization of halotolerant multifunctional GH6 endoglucanases ZFEG1605 and ZFEG1663 from Mt. Everest soil metagenome
作者:Rono, Justice K.;Yang, Zhi Min;Rono, Justice K.;Zhang, Qingyun;He, Yong;Zhao, Leqi;Wang, Shaochen;Lyu, Yunbin;Feng, Zhiyang;Li, Chunyang;Ngigi, Anastasiah N.
关键词:Konjac glucommanan; Soil metagenome; Endo-beta-1; 4-glucanase; Cellulose; Halotolerance; Glucoside hydrolase
-
Rapid and simultaneous detection of antibodies against three feline viruses using colloidal gold immunochromatographic assay with smartphone integration
作者:Ji, Jingjing;Li, Jiahao;Wu, Minghui;Wang, Bin;Lu, Yu-nan;Zhang, Chuhan;Shan, Yanke;Liu, Fei;Li, Jiahao;Wang, Bin;Lu, Yu-nan
关键词:Feline viruses; Multiplex antibody detection; Colloidal gold immunochromatographic assay; Smartphone-based portable reader; Point-of-care testing
-
Rapid and quantitative on-site detection of SARS-CoV-2, influenza A, and influenza B viruses using latex microspheres-based immunochromatography with smartphone integration
作者:Li, Peng;Jin, Lan;Zhao, Yuting;Liu, Fei;Shan, Yanke;Li, Jiahao;Wu, Xuping
关键词:Multiple respiratory viruses; Immunochromatography test strip; Latex microspheres; Differential diagnosis; Point-of-care testing; Smartphone-assisted detection



