Comparative transcriptome analysis of Triticum aestivum in response to nitrogen stress

Comparative transcriptome analysis of Triticum aestivum in response to nitrogen stress Nitrogen (N) is an essential macronutrient for plant growth and development. Insufficient supply of N leads to extensive physiological and biochemical changes in plant. However, the molecular mechanisms of response to N are still unknown. In this study, global transcriptome profiles of wheat (Triticum aestivum L.) leaf and root under limited and sufficient N conditions were generated using Illumina RNA-sequencing. Then SeqPrep and Sickle were used to filter the raw reads and genes were assembled and predicted using Trinity. The Gene Ontology (GO) terms and Kyoto Encyclopedia of Genes and Genomes (KEGG) for wheat transcripts were obtained from GO and KEGG databases, respectively. Clusters of orthologous group terms were obtained using Blastx 2.2.24+ in STRING 9.0. Differentially expressed genes (DEGs) were then screened using edgeR software with false discovery rate <0.05 and |log2FC| ≥ 1, followed by the protein–protein interaction (PPI) network construction for DEGs using Cytoscape. As a result, 126956 transcripts were obtained. Among them, 47590 transcripts were categorized into 56 GO terms, such as metabolic process; 25607 transcripts were assigned to 42 KEGG pathways, such as metabolic pathways; and 27194 unique sequences were classified into 25 COG categories, such as transcription. Moreover, 1267 (179 up-regulated and 1088 down-regulated) and 1996 DEGs (868 up-regulated and 1128 down-regulated) were obtained in leaf and root, respectively. In the PPI networks, BRADI1G77050.1, BRADI2G40600.1 and rpl2 were found to be the hub nodes. Thus, these screened DEGs might be associated with N metabolism and stress response in wheat, especially BRADI1G77050.1, BRADI2G40600.1 and rpl2. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Russian Journal of Plant Physiology Springer Journals

Comparative transcriptome analysis of Triticum aestivum in response to nitrogen stress

Loading next page...
 
/lp/springer_journal/comparative-transcriptome-analysis-of-triticum-aestivum-in-response-to-f9CWhWxSrq
Publisher
Pleiades Publishing
Copyright
Copyright © 2016 by Pleiades Publishing, Ltd.
Subject
Life Sciences; Plant Physiology; Plant Sciences
ISSN
1021-4437
eISSN
1608-3407
D.O.I.
10.1134/S1021443716020175
Publisher site
See Article on Publisher Site

References

You’re reading a free preview. Subscribe to read the entire article.


DeepDyve is your
personal research library

It’s your single place to instantly
discover and read the research
that matters to you.

Enjoy affordable access to
over 12 million articles from more than
10,000 peer-reviewed journals.

All for just $49/month

Explore the DeepDyve Library

Unlimited reading

Read as many articles as you need. Full articles with original layout, charts and figures. Read online, from anywhere.

Stay up to date

Keep up with your field with Personalized Recommendations and Follow Journals to get automatic updates.

Organize your research

It’s easy to organize your research with our built-in tools.

Your journals are on DeepDyve

Read from thousands of the leading scholarly journals from SpringerNature, Elsevier, Wiley-Blackwell, Oxford University Press and more.

All the latest content is available, no embargo periods.

See the journals in your area

Monthly Plan

  • Read unlimited articles
  • Personalized recommendations
  • No expiration
  • Print 20 pages per month
  • 20% off on PDF purchases
  • Organize your research
  • Get updates on your journals and topic searches

$49/month

Start Free Trial

14-day Free Trial

Best Deal — 39% off

Annual Plan

  • All the features of the Professional Plan, but for 39% off!
  • Billed annually
  • No expiration
  • For the normal price of 10 articles elsewhere, you get one full year of unlimited access to articles.

$588

$360/year

billed annually
Start Free Trial

14-day Free Trial