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Series GSE6893 Query DataSets for GSE6893
Status Public on May 17, 2007
Title Expression data for reproductive development in rice
Organism Oryza sativa
Experiment type Expression profiling by array
Summary Plants initially undergo a period of vegetative development, in which it produces leaves from shoot apical meristem (SAM) and roots from the root apical meristem. Later in development, the SAM undergoes a change in fate and enters reproductive development called as floral transition, producing flowers and seeds. Our understanding of the molecular and genetic mechanisms that underlie reproductive development in plants has increased tremendously in the past decade, essentially through the work on Arabidopsis. In this study, we have analyzed the spatial and temporal gene expression in various tissues/organs and developmental stages of rice using microarray technology to identify the genes differentially expressed during various stages of reproductive development.
Keywords: Development time course
 
Overall design Various rice tissues/organs (seedling root, mature leaf and Y leaf) and stages of reproductive (panicle and seed) development were used for RNA extraction and hybridization on Affymetrix microarrays. Three biological replicates of each sample were used for microarray analysis. We sought to obtain developmental and temporal gene expression profiles at each stage to identify the differentially expressed genes. Different stages of panicle and seed development have been categorized according to panicle length and days after pollination, respectively, based on landmark developmental events as follows: up to 0.5 mm, shoot apical meristem and rachis meristem (SAM); 0-3 cm, floral transition and floral organ development (P1); 3-10 cm, meiotic stage (P2 and P3); 10-15 cm, young microspore stage (P4); 15-22 cm, vacuolated pollen stage (P5); 22-30 cm, mature pollen stage (P6); 0-2 dap, early globular embryo (S1); 3-4 dap, middle and late globular embryo (S2); 5-10 dap, embryo morphogenesis (S3); 11-20 dap, embryo maturation (S4); 21-29, dormancy and desiccation tolerance (S5). These stage specifications are approximations based on information from Itoh et al., 2005, Plant Cell Physiol, 46, 23-47.
 
Contributor(s) Kapoor S, Tyagi AK, Khurana JP, Arora R, Agarwal P, Nijhawan A, Sharma P, Jain M
Citation(s) 17293439, 19490115, 19788421, 21554676, 24398598
Submission date Jan 29, 2007
Last update date Dec 27, 2017
Contact name Sanjay Kapoor
E-mail(s) kapoors@genomeindia.org
Phone 91 11 65171135
URL http://www.dpmb.ac.in/
Organization name University of Delhi South Campus
Department Department of Plant Molecular Biology
Street address Benito Juarez Road
City New Delhi
State/province Delhi
ZIP/Postal code 110021
Country India
 
Platforms (1)
GPL2025 [Rice] Affymetrix Rice Genome Array
Samples (45)
GSM159177 Root, 7-day-old Seedling, biological rep 1
GSM159178 Root, 7-day-old Seedling, biological rep 2
GSM159179 Root, 7-day-old Seedling, biological rep 3
Relations
BioProject PRJNA98537

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE6893_RAW.tar 199.4 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file

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