Genome-Wide Analysis of the Catharanthus roseus RLK1-Like in Soybean and GmCrRLK1L20 Responds to Drought and Salt Stresses

Abiotic stresses, such as drought and salinity, severely affects the growth, development and productivity of the plants. The Catharanthus roseus RLK1-like (CrRLK1L) protein kinase family is involved in several processes in the plant life cycle. However, there have been few studies addressing the functions of CrRLK1L proteins in soybean. In this study, 38 CrRLK1L genes were identified in the soybean genome (Glycine max Wm82.a2.v1). Phylogenetic analysis demonstrated that soybean CrRLK1L genes were grouped into clusters, cluster I, II, III. The chromosomal mapping demonstrated that 38 CrRLK1L genes were located in 14 of 20 soybean chromosomes. None were discovered on chromosomes 1, 4, 6, 7, 11, and 14. Gene structure analysis indicated that 73.6% soybean CrRLK1L genes were characterized by a lack of introns.15.7% soybean CrRLK1L genes only had one intron and 10.5% soybean CrRLK1L genes had more than one intron. Five genes were obtained from soybean drought- and salt-induced transcriptome databases and were found to be highly up-regulated. GmCrRLK1L20 was notably up-regulated under drought and salinity stresses, and was therefore studied further. Subcellular localization analysis revealed that the GmCrRLK1L20 protein was located in the cell membrane. The overexpression of the GmCrRLK1L20 gene in soybean hairy roots improved both drought tolerance and salt stresses and enhanced the expression of the stress-responsive genes GmMYB84, GmWRKY40, GmDREB-like, GmGST15, GmNAC29, and GmbZIP78. These results indicated that GmCrRLK1L20 could play a vital role in defending against drought and salinity stresses in soybean.

Download Full-text

Genome-wide identification and analysis of class III peroxidases in Betula pendula

BMC Genomics ◽

10.1186/s12864-021-07622-1 ◽

2021 ◽

Vol 22 (1) ◽

Author(s):

Kewei Cai ◽

Huixin Liu ◽

Song Chen ◽

Yi Liu ◽

Xiyang Zhao ◽

...

Keyword(s):

Stress Responses ◽

Betula Pendula ◽

Expression Patterns ◽

Class Iii ◽

Physiological Processes ◽

Plant Life ◽

Genome Wide ◽

Plant Life Cycle ◽

Class Iii Peroxidases ◽

And Function

Abstract Background Class III peroxidases (POD) proteins are widely present in the plant kingdom that are involved in a broad range of physiological processes including stress responses and lignin polymerization throughout the plant life cycle. At present, POD genes have been studied in Arabidopsis, rice, poplar, maize and Chinese pear, but there are no reports on the identification and function of POD gene family in Betula pendula. Results We identified 90 nonredundant POD genes in Betula pendula. (designated BpPODs). According to phylogenetic relationships, these POD genes were classified into 12 groups. The BpPODs are distributed in different numbers on the 14 chromosomes, and some BpPODs were located sequentially in tandem on chromosomes. In addition, we analyzed the conserved domains of BpPOD proteins and found that they contain highly conserved motifs. We also investigated their expression patterns in different tissues, the results showed that some BpPODs might play an important role in xylem, leaf, root and flower. Furthermore, under low temperature conditions, some BpPODs showed different expression patterns at different times. Conclusions The research on the structure and function of the POD genes in Betula pendula plays a very important role in understanding the growth and development process and the molecular mechanism of stress resistance. These results lay the theoretical foundation for the genetic improvement of Betula pendula.

Download Full-text

Genome-wide analysis of the Brachypodium distachyon (L.) P. Beauv. Hsp90 gene family reveals molecular evolution and expression profiling under drought and salt stresses

PLoS ONE ◽

10.1371/journal.pone.0189187 ◽

2017 ◽

Vol 12 (12) ◽

pp. e0189187 ◽

Cited By ~ 5

Author(s):

Ming Zhang ◽

Zhiwei Shen ◽

Guoqing Meng ◽

Yu Lu ◽

Yilei Wang

Keyword(s):

Molecular Evolution ◽

Gene Family ◽

Expression Profiling ◽

Brachypodium Distachyon ◽

Genome Wide Analysis ◽

Genome Wide ◽

Drought And Salt Stresses

Download Full-text

Reprogramming of 24nt siRNAs in rice gametes

10.1101/670463 ◽

2019 ◽

Author(s):

Chenxin Li ◽

Hengping Xu ◽

Fang-Fang Fu ◽

Scott D. Russell ◽

Venkatesan Sundaresan ◽

...

Keyword(s):

Small Rna ◽

Small Rnas ◽

Large Scale ◽

Dna Methyltransferases ◽

Critical Stage ◽

Vegetative Tissues ◽

Plant Life ◽

Genome Wide ◽

Strong Indicator ◽

Plant Life Cycle

ABSTRACTGametes constitute a critical stage of the plant life cycle, during which the genome undergoes reprogramming in preparation for embryogenesis. Here we characterized the small RNA transcriptomes of egg cells and sperm cells from rice to elucidate genome-wide distributions of 24nt siRNAs, which are a hallmark of RNA-directed DNA methylation (RdDM) in plants and are typically concentrated at boundaries of heterochromatin. We found that 24nt siRNAs were depleted from heterochromatin boundaries in both gametes, reminiscent of siRNA patterns in DDM1-type nucleosome remodeler mutants. In sperm, 24nt siRNAs were spread across broad heterochromatic regions, while in eggs, 24nt siRNAs were concentrated at a smaller number of heterochromatic loci throughout the genome, which were shared with vegetative tissues and sperm. In both gametes, patterns of CHH methylation, typically a strong indicator of RdDM, were similar to vegetative tissues, although lower in magnitude. These findings indicate that the small RNA transcriptome undergoes large-scale re-programming in both male and female gametes, which is not correlated with recruitment of DNA methyltransferases in gametes and suggestive of unexplored regulatory activities of gamete small RNAs in seeds after fertilization.

Download Full-text

Genome-Wide Analysis of the GRAS Gene Family and Functional Identification of GmGRAS37 in Drought and Salt Tolerance

Frontiers in Plant Science ◽

10.3389/fpls.2020.604690 ◽

2020 ◽

Vol 11 ◽

Author(s):

Ting-Ting Wang ◽

Tai-Fei Yu ◽

Jin-Dong Fu ◽

Hong-Gang Su ◽

Jun Chen ◽

...

Keyword(s):

Stress Responses ◽

Pcr Analysis ◽

Abiotic Stress Response ◽

Functional Identification ◽

Genome Wide ◽

Drought And Salt Tolerance ◽

Drought And Salt Stress ◽

Localization Analysis ◽

Duplication Events ◽

Drought And Salt Stresses

GRAS genes, which form a plant-specific transcription factor family, play an important role in plant growth and development and stress responses. However, the functions of GRAS genes in soybean (Glycine max) remain largely unknown. Here, 117 GRAS genes distributed on 20 chromosomes were identified in the soybean genome and were classified into 11 subfamilies. Of the soybean GRAS genes, 80.34% did not have intron insertions, and 54 pairs of genes accounted for 88.52% of duplication events (61 pairs). RNA-seq analysis demonstrated that most GmGRASs were expressed in 14 different soybean tissues examined and responded to multiple abiotic stresses. Results from quantitative real-time PCR analysis of six selected GmGRASs suggested that GmGRAS37 was significantly upregulated under drought and salt stress conditions and abscisic acid and brassinosteroid treatment; therefore, this gene was selected for further study. Subcellular localization analysis revealed that the GmGRAS37 protein was located in the plasma membrane, nucleus, and cytosol. Soybean hairy roots overexpressing GmGRAS37 had improved resistance to drought and salt stresses. In addition, these roots showed increased transcript levels of several drought‐ and salt-related genes. The results of this study provide the basis for comprehensive analysis of GRAS genes and insight into the abiotic stress response mechanism in soybean.

Download Full-text