Serial analysis of gene expression study of a hybrid rice strain (LYP9) and its parental cultivars.
Using the serial analysis of gene expression technique, we surveyed transcriptomes of three major tissues (panicles, leaves, and roots) of a super-hybrid rice (Oryza sativa) strain, LYP9, in comparison to its parental cultivars, 93-11 (indica) and PA64s (japonica). We acquired 465,679 tags from the serial analysis of gene expression libraries, which were consolidated into 68,483 unique tags. Focusing our initial functional analyses on a subset of the data that are supported by full-length cDNAs and the tags (genes) differentially expressed in the hybrid at a significant level (P<0.01), we identified 595 up-regulated (22 tags in panicles, 228 in leaves, and 345 in roots) and 25 down-regulated (seven tags in panicles, 15 in leaves, and three in roots) in LYP9. Most of the tag-identified and up-regulated genes were found related to enhancing carbon- and nitrogen-assimilation, including photosynthesis in leaves, nitrogen uptake in roots, and rapid growth in both roots and panicles. Among the down-regulated genes in LYP9, there is an essential enzyme in photorespiration, alanine:glyoxylate aminotransferase 1. Our study adds a new set of data crucial for the understanding of molecular mechanisms of heterosis and gene regulation networks of the cultivated rice.
Bao
JingYue
J
Beijing Genomics Institute, Chinese Academy of Sciences, Beijing 101300, China.
Lee
Sanggyu
S
Chen
Chen
C
Zhang
XiuQing
X
Zhang
Yu
Y
Liu
SiQi
S
Clark
Terry
T
Wang
Jian
J
Cao
MengLiang
M
Yang
HuanMing
H
Wang
San Ming
SM
Yu
Jun
J
D002874:Chromosome Mapping; D032461:Chromosomes, Plant; D020224:Expressed Sequence Tags; D020869:Gene Expression Profiling / Q000379:methods; D018506:Gene Expression Regulation, Plant; D018745:Genome, Plant; D006824:Hybridization, Genetic; D012275:Oryza / Q000145:classification / Q000235:genetics*; D013045:Species Specificity