Featured Research

from universities, journals, and other organizations

Whole genome sequencing of wild rice reveals the mechanisms underlying oryza genome evolution

Date:
March 13, 2013
Source:
BGI Shenzhen
Summary:
Whole genome sequencing of wild rice reveals the mechanisms underlying oryza genome evolution.

In a collaborative study published online March 13 in Nature Communications, researchers from Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, BGI-Shenzhen, and University of Arizona have completed the genome sequencing of wild rice Oryza brachyantha. This work provides new insights for researchers to understand the function and evolution of Oryza genomes.

The genus Oryza is an idea model system for studying plant comparative genomics, evolutionary biology and functional biology. There are two cultivated rice and more than twenty wild rice species. Among them, the wild relatives can provide invaluable genomic resources for rice improvement. As the most diverged wild relative of O. sativa (rice), O. Brachyantha has resistance against many rice pathogens and various stress environments. It was also proved to have the most compact genome in the genus Oryza, suggesting the genome may not experience many changes after the divergence of Oryza species.

In this study, researchers generated a high-quality reference genome sequence of O. brachyantha (~261Mb), and 96% genome sequences are anchored on 12 chromosomes based upon BAC-based physical map. After the comprehensive analysis, they found that the compact genome of O. brachyantha was caused by the silencing of LTR (Long terminal Repeats) retrotransposons and massive internal deletions of ancient elements.

Compared with the rice genome, the team found that many gene families were expanded in rice, where tandem duplications and gene movements mediated by double-strand break repair are responsible for the amplification of these genes. Researchers also observed that segmental and tandem duplications, further expanded by transposable element insertions, contributed to transition from euchromatin to heterochromatin in the rice genome, reflecting the dynamic nature of the Oryza genomes.

Quanfei Huang, Project Manager from BGI, said "This work revealed many important genomic mechanisms underlying Oryza genome, such as the genome size variation, gene movement and transition of euchromatin to heterochromatin. In the near future, I believe there will be more genomes of Oryza species to be cracked, enabling the genus Oryza be an unparalleled system for functional and evolutionary studies in plants."


Story Source:

The above story is based on materials provided by BGI Shenzhen. Note: Materials may be edited for content and length.


Journal Reference:

  1. Jinfeng Chen, Quanfei Huang, Dongying Gao, Junyi Wang, Yongshan Lang, Tieyan Liu, Bo Li, Zetao Bai, Jose Luis Goicoechea, Chengzhi Liang, Chengbin Chen, Wenli Zhang, Shouhong Sun, Yi Liao, Xuemei Zhang, Lu Yang, Chengli Song, Meijiao Wang, Jinfeng Shi, Geng Liu, Junjie Liu, Heling Zhou, Weili Zhou, Qiulin Yu, Na An, Yan Chen, Qingle Cai, Bo Wang, Binghang Liu, Jiumeng Min, Ying Huang, Honglong Wu, Zhenyu Li, Yong Zhang, Ye Yin, Wenqin Song, Jiming Jiang, Scott A. Jackson, Rod A. Wing, Jun Wang, Mingsheng Chen. Whole-genome sequencing of Oryza brachyantha reveals mechanisms underlying Oryza genome evolution. Nature Communications, 2013; 4: 1595 DOI: 10.1038/ncomms2596

Cite This Page:

BGI Shenzhen. "Whole genome sequencing of wild rice reveals the mechanisms underlying oryza genome evolution." ScienceDaily. ScienceDaily, 13 March 2013. <www.sciencedaily.com/releases/2013/03/130313112525.htm>.
BGI Shenzhen. (2013, March 13). Whole genome sequencing of wild rice reveals the mechanisms underlying oryza genome evolution. ScienceDaily. Retrieved October 1, 2014 from www.sciencedaily.com/releases/2013/03/130313112525.htm
BGI Shenzhen. "Whole genome sequencing of wild rice reveals the mechanisms underlying oryza genome evolution." ScienceDaily. www.sciencedaily.com/releases/2013/03/130313112525.htm (accessed October 1, 2014).

Share This



More Plants & Animals News

Wednesday, October 1, 2014

Featured Research

from universities, journals, and other organizations


Featured Videos

from AP, Reuters, AFP, and other news services

Attacking Superbugs

Attacking Superbugs

Ivanhoe (Oct. 1, 2014) — Two weapons hospitals can use to attack superbugs. Scientists in Ireland created a new gel resistant to superbugs, and a robot that can disinfect a room in minutes. Video provided by Ivanhoe
Powered by NewsLook.com
Cultural Learning In Wild Chimps Observed For The First Time

Cultural Learning In Wild Chimps Observed For The First Time

Newsy (Oct. 1, 2014) — Cultural transmission — the passing of knowledge from one animal to another — has been caught on camera with chimps teaching other chimps. Video provided by Newsy
Powered by NewsLook.com
Earth Has Lost Half Its Vertebrate Wildlife Since 1970: WWF

Earth Has Lost Half Its Vertebrate Wildlife Since 1970: WWF

Newsy (Sep. 30, 2014) — A new study published by the World Wide Fund for Nature found that more than half of the world's wildlife population has declined since 1970. Video provided by Newsy
Powered by NewsLook.com
Annual Dog Surfing Competition Draws California Crowds

Annual Dog Surfing Competition Draws California Crowds

AFP (Sep. 30, 2014) — The best canine surfers gathered for Huntington Beach's annual dog surfing competition, "Surf City, Surf Dog." Duration: 01:15 Video provided by AFP
Powered by NewsLook.com

Search ScienceDaily

Number of stories in archives: 140,361

Find with keyword(s):
 
Enter a keyword or phrase to search ScienceDaily for related topics and research stories.

Save/Print:
Share:  

Breaking News:

Strange & Offbeat Stories

 

Plants & Animals

Earth & Climate

Fossils & Ruins

In Other News

... from NewsDaily.com

Science News

Health News

Environment News

Technology News



Save/Print:
Share:  

Free Subscriptions


Get the latest science news with ScienceDaily's free email newsletters, updated daily and weekly. Or view hourly updated newsfeeds in your RSS reader:

Get Social & Mobile


Keep up to date with the latest news from ScienceDaily via social networks and mobile apps:

Have Feedback?


Tell us what you think of ScienceDaily -- we welcome both positive and negative comments. Have any problems using the site? Questions?
Mobile iPhone Android Web
Follow Facebook Twitter Google+
Subscribe RSS Feeds Email Newsletters
Latest Headlines Health & Medicine Mind & Brain Space & Time Matter & Energy Computers & Math Plants & Animals Earth & Climate Fossils & Ruins