Transcriptomics

Dataset Information

299

Global Analysis of the developmental dynamics of Gossypium hirsutum based on strand-specific transcriptome


ABSTRACT: Cotton is the most important economic crop that provides natural fibre and by-products such as oil and protein. The global gene expression could provide insight into the biological processes underlying growth and development, which involving suites of genes expressed with temporal and spatial controls by regulatory networks. Improvement of cotton fiber in yield and quality is the main goal for molecular breeding, but many previous research have been largely focused on identifying genes only in fibres, so that we ignore seed which may play an important role in the development of fibers. In this study, we constructed and systematically analyzed twenty-one strand-specific RNA-Seq libraries on Gossypium hirsutum L. covering different tissues, organs and development stages, of which approximately 970 million reads were generated. In total, 5,6754 transcripts derived from 2,9541 unigenes were obtained to provide a global view of gene expression for cotton development. Hierarchical clustering of transcriptional profiles suggests that transcriptomes among tissues or organs corresponded well to their developmental relatedness. The organ (tissue)-specific gene expressions were investigated efficiently and provided further insight into the dynamic programming of the transcriptome, in particularly for coordinating development between fiber cell and seed (ovule). We identified series of transcription factors and seed-specific genes, which as the candidate genes should help elucidate key mechanisms and regulatory networks that underlie fiber and seed development. This report identified comprehensive transcriptome changes in different stage of cotton development and will serves as a valuable genome-wide transcriptome resource for cotton breeding. Examination of transcriptome of cotton

ORGANISM(S): Gossypium hirsutum  

SUBMITTER: Lei Ma   Ma Lei 

PROVIDER: E-GEOD-70369 | ArrayExpress | 2016-02-29

SECONDARY ACCESSION(S): GSE70369SRP059947PRJNA288462

REPOSITORIES: GEO, ArrayExpress, ENA

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Global analysis of the developmental dynamics of Gossypium hirsutum based on strand-specific transcriptome.

Ma Lei L   Wang Yanqin Y   Yan Gentu G   Wei Shoujun S   Zhou Dayun D   Kuang Meng M   Fang Dan D   Xu Shuangjiao S   Yang Weihua W  

Physiologia plantarum 20160406 1


Cotton is an economically important crop that provides both natural fiber and by-products such as oil and protein. Its global gene expression could provide insight into the biological processes underlying growth and development, which involve suites of genes expressed with temporal and spatial control by regulatory networks. Generally, the goal for cotton breeding is improvement of the fiber; thus, most previous research has focused on identifying genes specific to the fiber. However, seeds may  ...[more]

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