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Experiment ID	GSE7951
Experiment Title	Genome-wide gene expression profiling of rice stigma
Number of Samples	13
Organism(s)	Oryza sativa
Summary	In angiosperms, stigma provides initial nutrients and guidance cues for pollen grain germination and tube growth. However, little is known about genes that regulate these processes in rice. Here we generate rice stigma-specific gene expression profiles through comparing genome-wide expression patterns of hand dissected unpollinated stigma at anthesis with seven tissues including seedling shoot, seedling root, mature anther, ovary at anthesis, seeds of five days after pollination, 10-day-old embryo, 10-day-old endosperm as well as suspension cultured cells by using 57K Affymetrix rice whole genome array. In total, we identified 665 probe sets (550 genes) to be expressed specifically or predominantly in the stigma papillar cells of rice. Real-Time quantitative RT-PCR analysis of 34 selected genes confirmed their stigma-specific expression. The expression of five selected genes was further validated by RNA in situ hybridization. Gene annotation shows that several auxin-signaling components, transporters and stress-related genes are significantly overrepresented in the rice stigma gene set. We also found that genes involved in cell wall metabolism and cellular communication appear to be conserved in the stigma between rice and Arabidopsis. Our results indicate that the stigmas appear to have conserved and novel molecular functions between rice and Arabidopsis. Keywords: rice (Oryza sativa L.), pollination and fertilization, stigma, molecular functions, signaling?¡ê??microarray, stress response
Overall design	We generate rice stigma-specific gene expression profiles through comparing genome-wide expression patterns of hand dissected unpollinated stigma at anthesis with seven tissues including seedling shoot, seedling root, mature anther, ovary at anthesis, seeds of five days after pollination, 10-day-old embryo, 10-day-old endosperm as well as suspension cultured cells by using 57K Affymetrix rice whole genome array.
Contributor(s)	Li M,Xu W,Yang W,Kong Z,Xue Y
Citation(s)	17556504

Submission date	29-May-07
Contact name	Wenying Xu
E-mail(s)	wyxu@genetics.ac.cn
Phone
Fax
URL
Organization name	Institute of Genetics and Developmental Biology of the Chinese Academy of Sciences
Department
Lab
Street address	Datun Road, Chaoyang District
City	Beijing
State/province
ZIP/Postal code	100101
Country	China

	ID	Platform	Sample Name
1.	GSM195218	Affymetrix	stigma 1, biological rep1
2.	GSM195219	Affymetrix	stigma 2, biological rep 2
3.	GSM195220	Affymetrix	stigma 3, biological rep 2
4.	GSM195221	Affymetrix	Ovary 1, biological rep 1
5.	GSM195222	Affymetrix	Ovary 2, biological rep 2
6.	GSM195223	Affymetrix	Ovary 3, biological rep 3
7.	GSM195224	Affymetrix	Suspension cell
8.	GSM195225	Affymetrix	Shoot
9.	GSM195226	Affymetrix	Root
10.	GSM195227	Affymetrix	Anther
11.	GSM195228	Affymetrix	Embryo
12.	GSM195229	Affymetrix	Endosperm
13.	GSM195230	Affymetrix	5d-seed