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Browse RicePLEX Experiment Data

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genome-wide gene expression profiling of rice pollen in defferent developmetn stages
Liqin Wei, Institute of Botany, Chinese Academy of Sciences, Department of Research Center for Molecular & Developmental Biology, Beijing, China (weiliqin@ibcas.ac.cn)
Experiment design (24 hybridizations)
developmental stage name
•callus cell •leaf •root •uninucleate microspores •bicellular pollen •tricellular pollen •mature pollen •germinated pollen

This experiment has been imported by PLEXdb from NCBI GEO (GSE27988)

Series_summary:
Pollen development from the microspore involves ...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: genome-wide gene expression profiling of rice pollen in defferent developmetn stages
Accession No: OS63
Microarray: Rice57k
Visibility: public
Experiment Type:
Experiment Factor(s):
developmental stage name
•callus cell   •leaf   •root   •uninucleate microspores   •bicellular pollen   •tricellular pollen   •mature pollen   •germinated pollen
Quality Control: biological replicates
Treatment summary:
 developmental stage name  # replicates
 callus cell  3
 leaf  3
 root  3
 uninucleate microspores  3
 bicellular pollen  3
 tricellular pollen  3
 mature pollen  3
 germinated pollen  3
Total hybridizations: 24
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE27988)

Series_summary:
Pollen development from the microspore involves a series of coordinated cellular events, and the resultant mature pollen is specialized in function that it can quickly germinate and produces a polar-growth pollen tube derived from the vegetative cell to deliver two sperms for fertilization. Understanding the molecular program underlying pollen development and germination still remains a major challenge for plant biology. We used Affymetrix GeneChip Rice Genome Array to comprehensively analyzed the dynamic changes in the transcriptomes of rice pollen at five sequential developmental stages from microspores to germinated pollen. Among the 51,279 transcripts on the array, we found 25,062 pollen-preferential transcripts, among which 2,203 were development stage-enriched. The diversity of transcripts decreased greatly from microspores to mature and germinated pollen, whereas the number of stage-enriched transcripts displayed a U-type change, with the lowest at the bicellular pollen stage; and a transition of overrepresented stage-enriched transcript groups associated with different functional categories, which indicates a shift in gene expression program at the bicellular pollen stage. About 54% of the now-annotated rice F-box protein genes were expressed preferentially in pollen. The transcriptome profile of germinated pollen was significantly and positively correlated with that of mature pollen. Analysis of expression profiles and coexpressed features of the pollen-preferential transcripts related to cell cycle, transcription, the ubiquitin/26S proteasome system, phytohormone signalling, the kinase system and defense/stress response revealed five expression patterns, which are compatible with changes in major cellular events during pollen development and germination. A comparison of pollen transcriptomes between rice and Arabidopsis revealed that 56.6% of the rice pollen preferential genes had homologs in Arabidopsis genome, but 63.4% of these homologs were expressed, with a small proportion being expressed preferentially, in Arabidopsis pollen. Rice and Arabidopsis pollen had non-conservative transcription factors each. These results supply novel insights into the molecular program and key components of the regulatory network regulating pollen development and germination.
KEYWORDS: rice (Oryza sativa L.), pollination and fertilization, stigma, molecular functions, signaling, microarray, stress response

Series_overall_design:
we generate rice pollen gene expression profiles through comparing genome-wide expression patterns of 5 development-stage pollen grains (uninucleate microspores, bicellular pollen, immature tricellular pollen, mature pollen and germinated pollen grains ) with rice callus cells, roots and leaves by using 57K Affymetrix rice whole genome array.
Publication: 'Genome-scale analysis and comparison of gene expression profiles in developing and germinated pollen in Oryza sativa.', Wei LQ, Xu WY, Deng ZY, Su Z, Xue Y, Wang T.
BMC Genomics 2010 May 28;11:338.
pubmed: 20507633
Created: 2011-07-15 12:19:56
Last Update: 2011-07-18 15:31:56
Released: 2011-07-18
GEO Accession GSE27988
Submitter: PLEXdb Curator
Name: Liqin Wei
Institution: Institute of Botany, Chinese Academy of Sciences, Department of Research Center for Molecular & Developmental Biology, Beijing, China
Head of Laboratory: Tai Wang
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