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Series GSE133746 Query DataSets for GSE133746
Status Public on Jul 03, 2019
Title Ef-cd locus shortens rice maturity duration without yield penalty
Organism Oryza sativa
Experiment type Expression profiling by high throughput sequencing
Summary The contradiction between ‘high-yielding’ and ‘early-maturing’ hampers further improvement on annual rice yield. Here we reported the positional cloning of a major maturity duration-regulatory gene, Early flowering-completely dominant (Ef-cd), and demonstrated that natural variation in Ef-cd could be used to overcome the above contradictory. The Ef-cd locus gives rise to a long noncoding RNA (lncRNA) antisense transcript overlapping the OsSOC1 gene. Ef-cd lncRNA expression positively correlates with the expression of OsSOC1 and H3K36me3 deposition. Field test comparisons of early-maturing Ef-cd near-isogenic lines (NILs) with their wild types as well as the derivative early-maturing hybrids with their wild-type hybrids conducted under different latitudes determined that early-maturing Ef-cd allele shortens maturity duration (ranging from 7 to 20 days) without a concomitant yield penalty. Ef-cd facilitates nitrogen utilization and also improves the photosynthesis rate. Analysis of 1,439 elite hybrid rice varieties revealed that the 16 homozygotes and 299 heterozygotes possessing Ef-cd matured significantly earlier. Therefore, Ef-cd could be a vital contributor of elite early-maturing hybrid varieties in balancing grain yield with maturity duration.
 
Overall design Total RNA was extracted from the fresh leaf blades of 40 d seedling of early-maturing NIL D248 (BC5F11) and its recurrent parent SH881 (Shuhui881) using TRIzol reagent (Invitrogen, USA). 2 biological replications were collected.
 
Contributor(s) Fang J, Zhang F, Deng X, Chu C
Citation(s) 31451662
Submission date Jul 02, 2019
Last update date Sep 01, 2019
Contact name Faming Chen
E-mail(s) chenfaming@picb.ac.cn
Organization name Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences
Department CAS-MPG Partner Institute for Computational Biology
Lab CAS Key Laboratory of Computational Biology
Street address 320 Yue Yang Road
City Shanghai
ZIP/Postal code 200031
Country China
 
Platforms (1)
GPL24983 BGISEQ-500 (Oryza sativa)
Samples (4)
GSM3926535 D248_rep1
GSM3926536 D248_rep2
GSM3926537 SH881_rep1
Relations
BioProject PRJNA552371
SRA SRP212809

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Supplementary file Size Download File type/resource
GSE133746_raw_counts.txt.gz 295.0 Kb (ftp)(http) TXT
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