Genome-wide identification and characterization of GRAS transcription factors in sacred lotus ( Nelumbo nucifera )

PeerJ

article

Yu Wang¹  Shenglu Shi¹  Ying Zhou¹  Yu Zhou¹  Jie Yang²  Xiaoqing Tang¹ 

[1] College of Horticulture, Nanjing Agricultural University;Institute of Food Crops, Jiangsu Academy Agricultural Sciences

关键词: Genome-wide;    GRAS;    Nelumbo nucifera;    Expression profile;    Phylogeny;    Sacred lotus;   

DOI  :  10.7717/peerj.2388

学科分类：社会科学、人文和艺术（综合）

来源: Inra

【 摘 要 】

The GRAS gene family is one of the most important plant-specific gene families, which encodes transcriptional regulators and plays an essential role in plant development and physiological processes. The GRAS gene family has been well characterized in many higher plants such as Arabidopsis, rice, Chinese cabbage, tomato and tobacco. In this study, we identified 38 GRAS genes in sacred lotus (Nelumbo nucifera), analyzed their physical and chemical characteristics and performed phylogenetic analysis using the GRAS genes from eight representative plant species to show the evolution of GRAS genes in Planta. In addition, the gene structures and motifs of the sacred lotus GRAS proteins were characterized in detail. Comparative analysis identified 42 orthologous and 9 co-orthologous gene pairs between sacred lotus and Arabidopsis, and 35 orthologous and 22 co-orthologous gene pairs between sacred lotus and rice. Based on publically available RNA-seq data generated from leaf, petiole, rhizome and root, we found that most of the sacred lotus GRAS genes exhibited a tissue-specific expression pattern. Eight of the ten PAT1-clade GRAS genes, particularly NnuGRAS-05, NnuGRAS-10 and NnuGRAS-25, were preferentially expressed in rhizome and root. In summary, this is the first in silico analysis of the GRAS gene family in sacred lotus, which will provide valuable information for further molecular and biological analyses of this important gene family.

【 授权许可】

CC BY