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Author Nie D.M., Ouyang Y.D., Wang X., Zhou W., Hu C.G., Yao J.
Title Genome-wide analysis of endosperm-specific genes in rice.
Abstract:
The endosperm of the cereal crop is an important nutrient source for humans. It also acts as a critical integrator of plant seed growth and development. Despite its importance, the comprehensive understanding in regulating of endosperm development in rice remains elusive. Here, we performed a genomic survey comprising the identification and functional characterization of the endosperm-specific genes (OsEnS) in rice using Affymetrix microarray data and Gene Ontology (GO) analysis. A total of 151 endosperm-specific genes were identified, and the expression patterns of 13 selected genes were confirmed by qRT-PCR analysis. Promoter regions of the endosperm-specific expression genes were analyzed by PLACE Signal Scan Search. The results indicated that some motifs were involved in endosperm-specific expression regulation, and some cis-elements were responsible for hormone regulation. The bootstrap analysis indicated that the RY repeat (CATGCA box) was over-represented in promoter regions of endosperm-specific expression genes. GO analysis indicated that these genes could be classified into 12 groups, namely, transcription factor, stress/defense, seed storage protein (SSP), carbohydrate and energy metabolism, seed maturation, protein metabolism, lipid metabolism, transport, cell wall related, hormone related, signal transduction, and one unclassified group. Taken together, our results provide informative clues for further functional characterization of the endosperm-specific genes, which facilitate the understanding of the molecular mechanism in rice endosperm development.
Journal Gene
Country China
Volume 530(2)
Pages 236-47
Year 2013
PubMed ID 23948082
PubMed Central ID -
DOI 10.1016/j.gene.2013.07.088
URL -
Relation
Gene ALAAT5 AMY3A BGAL14 BT1-1 C3H1 C3H10 CYP71X12 DHN6 ENODL6 ERF115 ERF44 FIE1 GELP78 GLB1 GLP8-2 GLUA1 GLUA2 GLUA3 GLUBX GLUC GLUD1 GLYI10 GSTF12 HAP2I HAP3D HAP3K HAP5I HAP5L HSFA7 HSP70 IAA29 ICL LEA14 LEA3 LEA30 LEA32 LEA33 NAC127 NAC25 NAC26 OSCA2.5 PME20 PYL/RCAR13 PYL/RCAR7 RISBZ1 RLCK192 RPBF RSUS3 SCP27 TIP3;1 TIP3;2 TMS5 _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
INSD -
Strain Wild Core Collection -
Induced Mutation Lines(NIG Collection) -
Sterile Seed Strain -
Lethal Embryo
Mutantion Strain
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Stages in Each Organ
- Muant Lines (Gene)
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Cultivated Varieties(NIG Collection) -
Stages in Each Organ -
/rice/oryzabase