Featured Research

from universities, journals, and other organizations

Scientists reveal the genomic enigma of desert poplar

Date:
November 25, 2013
Source:
BGI Shenzhen
Summary:
Scientists have succeeded in unraveling the whole genome sequence of desert poplar, Populus euphratica, and the genetic bases underlying poplar to against salt stress. This work provides new insights for understanding the genetic basis of tree adaptation to salt stress and facilitating the genetic breeding of cultivated poplars for saline fields.

In a collaborative study, researchers from Lanzhou University, BGI and other institutes have succeeded in unraveling the whole genome sequence of desert poplar, Populus euphratica, and the genetic bases underlying poplar to against salt stress. This work provides new insights for understanding the genetic basis of tree adaptation to salt stress and facilitating the genetic breeding of cultivated poplars for saline fields.

The research results have been published online in Nature Communications.

Trees are the lungs of the earth for that they can fix CO2 -- the major greenhouse gas -- more efficiently. Forest trees rarely can grow in saline soils, but desert poplar is well-adapted to extreme desert environments and is an important species for studying the effects of salt stresses on trees. Notably, it maintains higher growth and photosynthetic rates than other poplar species at high salinity, and can survive concentrations of NaCl in nutrient solution up to 450mM. However, the knowledge of the genomic mechanisms of desert poplar under salt stress remains very limited.

Considering the limitation of next-generation sequencing for assembling complex genome and the high heterozygosity of desert poplar, researchers used a newly developed fosmid-pooling strategy to sequence and assemble the genome of this tree species. All the efforts yielded a high-quality genome sequence of desert poplar with high contiguity, coverage and accuracy, further demonstrating the feasibility of this fosmid-pooling approach for de novo sequencing and assembly of a complex heterozygous genome.

The genome of desert poplar is very similar to that of the closely related mesophytic congener, P. trichocarpa. Researchers investigated the differences between the two genomes and suggested that P. euphratica diverged from P. trichocarpa within the last 8 to 14 million years. Although both species shared at least two whole-genome duplication (WGDs) and exhibited extensive collinearity across the gene space, species-specific genes involved in stress tolerance, such as "ion transport," "ATPase activity," "transcript factor activity" and "oxidoreductase activity," were selectively expanded and/or positively selected in the P. euphratica genome.

When studying the adaptation mechanisms to against salt stress, researchers found that several gene families likely to be involved in tolerance to salt stress contain significantly more gene copies in the P. euphratica lineage. They also compared the P. euphratica in response to salt stress with salt-sensitive poplar (P. tomentosa), and found some genes involved in ion transport and homeostasis, such as NhaD1, KUP3 and NCL, were distinctly upregulated under salt stress.

"The complete genome sequencing of desert poplar revealed the underlying genetic mechanisms of poplar to against salt stress, laying a solid foundation for accelerating the genetic breeding of cultivated poplars for saline and desert fields." said Junyi Wang, Project Manager at BGI, "Our work also demonstrate that trans-omic approach to study salt-tolerant plants is applicable on both herbaceous plant and woody plant, providing new insights into the comprehensive understanding of plants' salt tolerance and drought resistance."


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. Tao Ma, Junyi Wang, Gongke Zhou, Zhen Yue, Quanjun Hu, Yan Chen, Bingbing Liu, Qiang Qiu, Zhuo Wang, Jian Zhang, Kun Wang, Dechun Jiang, Caiyun Gou, Lili Yu, Dongliang Zhan, Ran Zhou, Wenchun Luo, Hui Ma, Yongzhi Yang, Shengkai Pan, Dongming Fang, Yadan Luo, Xia Wang, Gaini Wang, Juan Wang, Qian Wang, Xu Lu, Zhe Chen, Jinchao Liu, Yao Lu, Ye Yin, Huanming Yang, Richard J. Abbott, Yuxia Wu, Dongshi Wan, Jia Li, Tongming Yin, Martin Lascoux, Stephen P. DiFazio, Gerald A. Tuskan, Jun Wang, Liu Jianquan. Genomic insights into salt adaptation in a desert poplar. Nature Communications, 2013; 4 DOI: 10.1038/ncomms3797

Cite This Page:

BGI Shenzhen. "Scientists reveal the genomic enigma of desert poplar." ScienceDaily. ScienceDaily, 25 November 2013. <www.sciencedaily.com/releases/2013/11/131125101157.htm>.
BGI Shenzhen. (2013, November 25). Scientists reveal the genomic enigma of desert poplar. ScienceDaily. Retrieved April 23, 2014 from www.sciencedaily.com/releases/2013/11/131125101157.htm
BGI Shenzhen. "Scientists reveal the genomic enigma of desert poplar." ScienceDaily. www.sciencedaily.com/releases/2013/11/131125101157.htm (accessed April 23, 2014).

Share This



More Plants & Animals News

Wednesday, April 23, 2014

Featured Research

from universities, journals, and other organizations


Featured Videos

from AP, Reuters, AFP, and other news services

Monkeys Are Better At Math Than We Thought, Study Shows

Monkeys Are Better At Math Than We Thought, Study Shows

Newsy (Apr. 23, 2014) A Harvard University study suggests monkeys can use symbols to perform basic math calculations. Video provided by Newsy
Powered by NewsLook.com
Raw: Leopard Bites Man in India

Raw: Leopard Bites Man in India

AP (Apr. 22, 2014) A leopard caused panic in the city of Chandrapur on Monday when it sprung from the roof of a house and charged at rescue workers. (April 22) Video provided by AP
Powered by NewsLook.com
Iowa College Finds Beauty in Bulldogs

Iowa College Finds Beauty in Bulldogs

AP (Apr. 22, 2014) Drake University hosts 35th annual Beautiful Bulldog Contest. (April 21) Video provided by AP
Powered by NewsLook.com
805-Pound Shark Caught Off The Coast Of Florida

805-Pound Shark Caught Off The Coast Of Florida

Newsy (Apr. 22, 2014) One Florida fisherman caught a 805-pound shark off the coast of Florida earlier this month. Video provided by Newsy
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:
from the past week

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