Repositorium

What is a repositorium?

The repositorium is a searchable database that provides data on relevant articles from journals, company web pages and web pages of governmental agencies about studies/applications of genome-editing in model plants and agricultural crops in the period January 1996 to May 2018. Search options are article type, technique, plant, traits or free text. The repositorium is based on the systematic map of Dominik Modrzejewski et al., published in the journal environmental evidence. (Download article PDF).

Both maternally and paternally imprinted genes regulate seed development in rice


Typ / Jahr

Journal Article / 2017

Autoren

Yuan, Jingya; Chen, Sushu; Jiao, Wu; Wang, Longfei; Wang, Limei; Ye, Wenxue; Lu, Jie; Hong, Delin; You, Siliang; Cheng, Zhukuan; Yang, Dong-Lei; Chen, Z. Jeffrey

Abstract

Genetic imprinting refers to the unequal expression of paternal and maternal alleles of a gene in sexually reproducing organisms, including mammals and flowering plants. Although many imprinted genes have been identified in plants, the functions of these imprinted genes have remained largely uninvestigated. We report genome-wide analysis of gene expression, DNA methylation and small RNAs in the rice endosperm and functional tests of five imprinted genes during seed development using Clustered Regularly Interspaced Short Palindromic Repeats/CRISPR-associated gene9 (CRISPR/Cas9) gene editing technology. In the rice endosperm, we identified 162 maternally expressed genes (MEGs) and 95 paternally expressed genes (PEGs), which were associated with miniature inverted-repeat transposable elements, imprinted differentially methylated loci and some 21-22 small interfering RNAs (siRNAs) and long noncoding RNAs (lncRNAs). Remarkably, one-third of MEGs and nearly one-half of PEGs were associated with grain yield quantitative trait loci. Most MEGs and some PEGs were expressed specifically in the endosperm. Disruption of two MEGs increased the amount of small starch granules and reduced grain and embryo size, whereas mutation of three PEGs reduced starch content and seed fertility. Our data indicate that both MEGs and PEGs in rice regulate nutrient metabolism and endosperm development, which optimize seed development and offspring fitness to facilitate parental-offspring coadaptation. These imprinted genes and mechanisms could be used to improve the grain yield of rice and other cereal crops.

Keywords
DNA methylation, epigenetics, miniature inverted-repeat transposable element (MITE), noncoding RNA, rice, seed development.
Periodical
The New phytologist
Periodical Number
Page range
Volume
DOI
10.1111/nph.14510

Techniques

ID Corresponding Author
Country
Plant Species GE Technique
Sequence Identifier
Trait
Type of Alteration
Progress in Research
Key Topic
594 Chen, Jeffrey
China, USA
Oryza sativa CRISPR/Cas9
MEG2
Positive regulation of starch content and granule size
SDN1
Basic research
Basic research
595 Chen, Jeffrey
China, USA
Oryza sativa CRISPR/Cas9
MEG3
Positive regulation of starch content and granule size
SDN1
Basic research
Basic research
596 Chen, Jeffrey
China, USA
Oryza sativa CRISPR/Cas9
PEG1
grain yield, seed development regulation
SDN1
Market-oriented
Agronomic value
597 Chen, Jeffrey
China, USA
Oryza sativa CRISPR/Cas9
PEG2
grain yield, seed development regulation
SDN1
Market-oriented
Agronomic value
598 Chen, Jeffrey
China, USA
Oryza sativa CRISPR/Cas9
PEG3
grain yield, seed development regulation
SDN1
Market-oriented
Agronomic value