Comparative transcriptome analysis of Triticum aestivum in response to nitrogen stress


Citar

Texto integral

Acesso aberto Acesso aberto
Acesso é fechado Acesso está concedido
Acesso é fechado Somente assinantes

Resumo

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.

Sobre autores

Z. Shi

Shijiazhuang Academy of Agriculture and Forestry Sciences

Email: liym315@126.com
República Popular da China, Shijiazhuang

X. Fu

Shijiazhuang Academy of Agriculture and Forestry Sciences

Email: liym315@126.com
República Popular da China, Shijiazhuang

R. Di

Shijiazhuang Academy of Agriculture and Forestry Sciences

Email: liym315@126.com
República Popular da China, Shijiazhuang

Y. Li

College of Agronomy

Email: liym315@126.com
República Popular da China, Baoding

S. Zhang

College of Agronomy; Shijiazhuang Academy of Agriculture and Forestry Sciences

Autor responsável pela correspondência
Email: liym315@126.com
República Popular da China, Baoding; Shijiazhuang

M. Li

Shijiazhuang Academy of Agriculture and Forestry Sciences

Email: liym315@126.com
República Popular da China, Shijiazhuang

J. Guo

Shijiazhuang Academy of Agriculture and Forestry Sciences

Email: liym315@126.com
República Popular da China, Shijiazhuang

Arquivos suplementares

Arquivos suplementares
Ação
1. JATS XML

Declaração de direitos autorais © Pleiades Publishing, Ltd., 2016