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Analysis of anther transcriptomes to identify genes contributing to meiosis and male gametophyte development in rice
Sanjay Kapoor, University of Delhi South Campus, Department of Plant Molecular Biology, New Delhi, India (kapoors@genomeindia.org)
Experiment design (12 hybridizations)
developmental stage name
•pre-meiotic anther •meiotic anther •anther(single celled pollen) •anther(trinucleate pollen)

This experiment has been imported by PLEXdb from NCBI GEO (GSE27726)

Series_summary:
Background – In flowering plants, the anther i...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Analysis of anther transcriptomes to identify genes contributing to meiosis and male gametophyte development in rice
Accession No: OS62
Microarray: Rice57k
Visibility: public
Experiment Type:
Experiment Factor(s):
developmental stage name
•pre-meiotic anther   •meiotic anther   •anther(single celled pollen)   •anther(trinucleate pollen)
Quality Control: biological replicates
Treatment summary:
 developmental stage name  # replicates
 pre-meiotic anther  3
 meiotic anther  3
 anther(single celled pollen)  3
 anther(trinucleate pollen)  3
Total hybridizations: 12
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE27726)

Series_summary:
Background – In flowering plants, the anther is the site of male gametophyte development. Two major events in the development of the male germline are meiosis and the asymmetric division in the male gametophyte that gives rise to the vegetative and generative cells, and the following mitotic division in the generative cell that produces two sperm cells. Anther transcriptomes have been analyzed at progressive stages of development by using microarray and sequence by synthesis technologies to identify genes that regulate anther development. Here we have carried out a comprehensive analysis of rice anther transcriptomes at four distinct stages of development with a focus to identify regulatory components contributing to male meiosis and germline development. Further, these transcriptomes have been compared with transcriptomes of 10 stages of rice vegetative and seed development to identify genes that express specifically during anther development. Results - To understand the molecular processes that lead to male gametophyte development, transcriptome profiling of four stages of anther development in rice [pre-meiotic (PMA), meiotic (MA), anthers at single-celled (SCP) and tri-nucleate pollen (TPA)] was conducted. Around 22,000 genes were found to be expressed in at least one of the anther developmental stages, with the highest number in MA (18,090) and lowest (15,465) in TPA. Comparison of these transcriptome profiles to an in-house generated microarray-based transcriptomics database comprising of 10 stages/tissues of vegetative as well as reproductive development in rice resulted in the identification of 1,000 genes that are specifically expressed in anther stages. Of them the expression of 453 genes was found to be specific to TPA, whereas 78 and 184 genes were expressed specifically in MA and SCP. Gene ontology and pathway analysis of specifically expressed genes revealed that transcription factors and protein folding, sorting and degradation pathway genes dominated in MA, whereas in TPA, those coding for cell structure and signal transduction components were in abundance. Interestingly, about 50% of the genes with anther-specific expression have not been annotated so far. Conclusions - These data not only provide the transcriptome constituents of four landmark stages of anther development but also identify genes that express exclusively in these stages and therefore may contribute to specific aspects of anther and/or male gametophyte development in rice. Moreover, these gene sets assist in building a deeper understanding of underlying regulatory networks and in selecting candidates for gene function validation.

Series_overall_design:
Overall twelve samples were analyzed representing four anther development stages, with three replicates of each stage.
Publication: 'Analysis of anther transcriptomes to identify genes contributing to meiosis and male gametophyte development in rice', Deveshwar P, Bovill WD, Sharma R, Able JA, Kapoor S.
BMC Plant Biol 2011 May 9;11:78.
pubmed: 21554676
Created: 2011-07-13 13:55:07
Last Update: 2011-07-13 16:11:10
Released: 2011-07-13
GEO Accession GSE27726
Submitter: PLEXdb Curator
Name: Sanjay Kapoor
Institution: University of Delhi South Campus, Department of Plant Molecular Biology, New Delhi, India
Head of Laboratory: Sanjay Kapoor
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