Prediction and validation of cis-regulatory elements in 5′ upstream regulatory regions of lectin receptor-like kinase gene family in rice

Abstract Background Lectin receptor-like kinases (LecRLKs) are a class of membrane proteins found in plants that are involved in diverse functions, including plant development and stress responses. Although LecRLK families have been identified in a variety of plants, a comprehensive analysis has not yet been undertaken in cucumber ( Cucumis sativus L.).Results In this study, 46 putative LecRLK genes were identified in cucumber genome, including 23 G-type, 22 L-type and 1 C-type LecRLK genes. They unequally distributed on all 7 chromosomes with a clustering trendency. Most of the genes in the cucumber LecRLK (Cs LecRLK) gene family lacked introns. In addition, there were many regulatory elements associated with phytohormone and stress on these genes’ promoters. Transcriptome data demonstrated that distinct expression patterns of CsLecRLK genes in various tissues. Furthermore, we found that each member of the CsLecRLK family had its own unique expression pattern under hormone and stress treatment by the quantitative real time PCR (qRT-PCR) analysis.Conclusion This study provides a better understanding of the evolution and function of LecRLK gene family in cucumber, and opens the possibility to explore the roles that LecRLK s might play in the life cycle of cucumber.

Download Full-text

Genome-wide identification and characterization of lectin receptor-like kinase gene family in cucumber and expression profiling analysis under different treatments

10.21203/rs.2.20023/v2 ◽

2020 ◽

Author(s):

Duo Lv ◽

Gang Wang ◽

Liang-Rong Xiong ◽

Jing-Xian Sun ◽

Yue Chen ◽

...

Keyword(s):

Gene Family ◽

Stress Responses ◽

Expression Patterns ◽

Regulatory Elements ◽

Pcr Analysis ◽

Kinase Gene ◽

Lectin Receptor ◽

Genome Wide ◽

Cucumber Genome ◽

And Function

Abstract Background: Lectin receptor-like kinases (LecRLKs) are a class of membrane proteins found in plants that are involved in diverse functions, including plant development and stress responses. Although LecRLK families have been identified in a variety of plants, a comprehensive analysis has not yet been undertaken in cucumber (Cucumis sativus L.). Results: In this study, 46 putative LecRLK genes were identified in cucumber genome, including 23 G-type, 22 L-type and 1 C-type LecRLK genes. They unequally distributed on all 7 chromosomes with a clustering trendency. Most of the genes in the cucumber LecRLK (CsLecRLK) gene family lacked introns. In addition, there were many regulatory elements associated with phytohormone and stress on these genes’ promoters. Transcriptome data demonstrated that distinct expression patterns of CsLecRLK genes in various tissues. Furthermore, we found that each member of the CsLecRLK family had its own unique expression pattern under hormone and stress treatment by the quantitative real time PCR (qRT-PCR) analysis.Conclusion: This study provides a better understanding of the evolution and function of LecRLK gene family in cucumber, and opens the possibility to explore the roles that LecRLKs might play in the life cycle of cucumber.

Download Full-text

Genome-Wide Identification and Characterization of Lectin Receptor-Like Kinase Gene Family in Cucumber and Expression Profiling Analysis under Different Treatments

Genes ◽

10.3390/genes11091032 ◽

2020 ◽

Vol 11 (9) ◽

pp. 1032 ◽

Cited By ~ 1

Author(s):

Duo Lv ◽

Gang Wang ◽

Liang-Rong Xiong ◽

Jing-Xian Sun ◽

Yue Chen ◽

...

Keyword(s):

Gene Family ◽

Stress Responses ◽

Expression Patterns ◽

Regulatory Elements ◽

Pcr Analysis ◽

Kinase Gene ◽

Cucumis Sativus L ◽

Lectin Receptor ◽

Genome Wide ◽

And Function

Lectin receptor-like kinases (LecRLKs) are a class of membrane proteins found in plants that are involved in diverse functions, including plant development and stress responses. Although LecRLK families have been identified in a variety of plants, a comprehensive analysis has not yet been undertaken in cucumber (Cucumis sativus L.). In this study, 46 putative LecRLK genes were identified in the cucumber genome, including 23 G-type and 22 L-type, and one C-type LecRLK gene. They were unequally distributed on all seven chromosomes, with a clustering tendency. Most of the genes in the cucumber LecRLK (CsLecRLK) gene family lacked introns. In addition, there were many regulatory elements associated with phytohormones and stress on these genes’ promoters. Transcriptome data demonstrated distinct expression patterns of CsLecRLK genes in various tissues. Furthermore, we found that each member of the CsLecRLK family had its own unique expression pattern under hormone and stress treatment by the quantitative real-time PCR (qRT-PCR) analysis. This study provides a better understanding of the character and function of the LecRLK gene family in cucumber and opens up the possibility to exploring the roles that LecRLKs might play in the life cycle of cucumber.

Download Full-text

Genome-wide identification and characterization of lectin receptor-like kinase gene family in cucumber and expression profiling analysis under different treatments

10.21203/rs.2.20023/v3 ◽

2020 ◽

Author(s):

Duo Lv ◽

Gang Wang ◽

Liang-Rong Xiong ◽

Jing-Xian Sun ◽

Yue Chen ◽

...

Keyword(s):

Gene Family ◽

Stress Responses ◽

Expression Patterns ◽

Regulatory Elements ◽

Pcr Analysis ◽

Kinase Gene ◽

Cucumis Sativus L ◽

Lectin Receptor ◽

Genome Wide ◽

And Function

Abstract Background Lectin receptor-like kinases (LecRLKs) are a class of membrane proteins found in plants that are involved in diverse functions, including plant development and stress responses. Although LecRLK families have been identified in a variety of plants, a comprehensive analysis has not yet been undertaken in cucumber ( Cucumis sativus L.). Results In this study, 46 putative LecRLK genes were identified in cucumber genome, including 23 G-type, 22 L-type and 1 C-type LecRLK genes. They unequally distributed on all 7 chromosomes with a clustering trendency. Most of the genes in the cucumber LecRLK ( Cs ecRLK ) gene family lacked introns. In addition, there were many regulatory elements associated with phytohormone and stress on these genes’ promoters. Transcriptome data demonstrated that distinct expression patterns of CsLecRLK genes in various tissues. Furthermore, we found that each member of the CsLecRLK family had its own unique expression pattern under hormone and stress treatment by the quantitative real time PCR (qRT-PCR) analysis. Conclusion This study provides a better understanding of the evolution and function of LecRLK gene family in cucumber, and opens the possibility to explore the roles that LecRLK s might play in the life cycle of cucumber.

Download Full-text

Rapid Induction by Wounding and Bacterial Infection of an S Gene Family Receptor-Like Kinase Gene in Brassica oleracea

The Plant Cell ◽

10.2307/3870370 ◽

1997 ◽

Vol 9 (1) ◽

pp. 49 ◽

Cited By ~ 1

Author(s):

Martine Pastuglia ◽

Dominique Roby ◽

Christian Dumas ◽

J. Mark Cock

Keyword(s):

Bacterial Infection ◽

Gene Family ◽

Brassica Oleracea ◽

Kinase Gene ◽

S Gene ◽

Rapid Induction ◽

Receptor Like Kinase ◽

S Gene Family

Download Full-text

Genomic profiling and expression analysis of the diacylglycerol kinase gene family in heterologous hexaploid wheat

PeerJ ◽

10.7717/peerj.12480 ◽

2021 ◽

Vol 9 ◽

pp. e12480

Author(s):

Xiaowei Jia ◽

Xuyang Si ◽

Yangyang Jia ◽

Hongyan Zhang ◽

Shijun Tian ◽

...

Keyword(s):

Gene Family ◽

Expression Analysis ◽

Gene Structure ◽

Catalytic Domain ◽

Diacylglycerol Kinase ◽

Regulatory Elements ◽

Amino Acid Sequences ◽

Developmental Expression ◽

Kinase Gene ◽

Chinese Spring Wheat

The inositol phospholipid signaling system mediates plant growth, development, and responses to adverse conditions. Diacylglycerol kinase (DGK) is one of the key enzymes in the phosphoinositide-cycle (PI-cycle), which catalyzes the phosphorylation of diacylglycerol (DAG) to form phosphatidic acid (PA). To date, comprehensive genomic and functional analyses of DGKs have not been reported in wheat. In this study, 24 DGK gene family members from the wheat genome (TaDGKs) were identified and analyzed. Each putative protein was found to consist of a DGK catalytic domain and an accessory domain. The analyses of phylogenetic and gene structure analyses revealed that each TaDGK gene could be grouped into clusters I, II, or III. In each phylogenetic subgroup, the TaDGKs demonstrated high conservation of functional domains, for example, of gene structure and amino acid sequences. Four coding sequences were then cloned from Chinese Spring wheat. Expression analysis of these four genes revealed that each had a unique spatial and developmental expression pattern, indicating their functional diversification across wheat growth and development processes. Additionally, TaDGKs were also prominently up-regulated under salt and drought stresses, suggesting their possible roles in dealing with adverse environmental conditions. Further cis-regulatory elements analysis elucidated transcriptional regulation and potential biological functions. These results provide valuable information for understanding the putative functions of DGKs in wheat and support deeper functional analysis of this pivotal gene family. The 24 TaDGKs identified and analyzed in this study provide a strong foundation for further exploration of the biological function and regulatory mechanisms of TaDGKs in response to environmental stimuli.

Download Full-text

Genome-wide identification, characterization and expression analysis of non-RD receptor like kinase gene family under Colletotrichum truncatum stress conditions in hot pepper

Genetica ◽

10.1007/s10709-020-00104-4 ◽

2020 ◽

Vol 148 (5-6) ◽

pp. 283-296

Author(s):

R. Srideepthi ◽

M. S. R. Krishna ◽

P. Suneetha ◽

R. Sai Krishna ◽

S. Karthikeyan

Keyword(s):

Gene Family ◽

Expression Analysis ◽

Stress Conditions ◽

Hot Pepper ◽

Colletotrichum Truncatum ◽

Kinase Gene ◽

Genome Wide ◽

Receptor Like Kinase

Download Full-text

Positively Selected Sites in the Arabidopsis Receptor-Like Kinase Gene Family

Journal of Molecular Evolution ◽

10.1007/s00239-004-0308-0 ◽

2005 ◽

Vol 61 (3) ◽

pp. 325-332 ◽

Cited By ~ 7

Author(s):

Errol Strain ◽

Spencer V. Muse

Keyword(s):

Gene Family ◽

Kinase Gene ◽

Receptor Like Kinase ◽

Positively Selected Sites

Download Full-text

Genome-Wide Identification, Characterization and Expression Analysis of Non-Arginine Aspartate Receptor like kinase gene family under Colletotrichum truncatum stress conditions in Hot pepper

10.1101/2020.01.23.916528 ◽

2020 ◽

Author(s):

R Srideepthi ◽

MSR Krishna ◽

P Suneetha ◽

R Sai Krishna ◽

S Karthikeyan

Keyword(s):

Disease Resistance ◽

Gene Family ◽

Expression Profiles ◽

Regulatory Elements ◽

Hot Pepper ◽

Colletotrichum Truncatum ◽

Kinase Gene ◽

Improvement Programs ◽

Arginine Aspartate ◽

Six Genes

AbstractReceptor Like kinases (RLKs) are conserved upstream signaling molecules that regulate several biological processes, including plant development and stress adaptation. Non arginine aspartate (non-RD) an important class of RLKs plays a vital role in disease resistance and apoptosis in plants. In present investigation, a comprehensive Insilco analysis for non-RD Kinase gene family including identification, sequence similarity, phylogeny, chromosomal localization, gene structures, gene duplication analysis, promoter analysis and transcript expression profiles were elucidated. In this study twenty six genes were observed on nine out of twelve chromosomes. All these genes were clustered into seven subfamilies under large monophyletic group termed as Interleukin-1 Receptor-Associated Kinase (IRAK) family. Structural diversity in genomic structure among non-RD kinase gene family were identified and presence of pathogen induced cis regulatory elements like STRE, MYC, MYB,W box were found. Expression profiles of genes involved in providing resistance to anthracnose pathogen Colletotrichum truncatum in hot pepper were analyzed at different infective stages in both resistant and susceptible genotypes. Among twenty six genes, CaRLK1 gene belonging to LRRXII subfamily was up regulated under severe stress after infection in resistant genotype PBC-80. This integrative approach has helped us to identify candidate genes involved in disease resistance which would be helpful in future crop improvement programs.

Download Full-text