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

Lv, Duo; Wang, Gang; Chen, Yue; Xiong, Liang-Rong; Sun, Jiangtao; Guo, Chengjun; Yu, Yao; He, Hailong; Cai, Run; Pan, Junsong

doi:10.21203/rs.2.20023/v1

Cited by 5 publications

(4 citation statements)

References 34 publications

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“…It has been proposed that gene families may be generated by tandem duplication and segmental duplication during biological evolution (Lv et al 2020). To explore whether the SmTCP gene family had a duplication-based expansion, we analyzed the duplication events of SmTCP genes (Fig.…”

Section: Chromosomal Localization and Gene Duplication Event Of Smtcp...mentioning

confidence: 99%

Comparative genomic investigation of TCP gene family in eggplant (Solanum melongena L.) and expression analysis under divergent treatments

Tang

Dong³

et al. 2022

Plant Cell Rep

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The TCP (Teosinte branched1/Cycloidea/Proliferating cell factors), a family of plant-speci c transcription factors, plays paramount roles in a plethora of developmental and physiological processes. In the current study, we systematically characterized the putative TCP genes and their response to abiotic stress in eggplant. 30 SmTCP genes were categorized into two subfamilies based on the classical TCP conserved domains. Chromosomal location analysis illustrated the random distribution of putative SmTCP genes along 12 chromosomes of eggplant. Cis-acting elements and miRNAs target prediction showed that they could involve in gene transcriptional regulation of SmTCPs, and three miRNAs (miR319a, miR319b, and miR319c-3p) might be major regulators targeting SmTCPs. Tissue-expression pro les indicated divergent spatiotemporal expression patterns of SmTCPs. qRT-PCR assays showed different expression pro les of SmTCP genes under 4 ℃, drought and ABA treatments, suggesting the possible participation of SmTCP genes in multiple signaling pathways. Furthermore, RNA-Seq data of eggplant anthocyanin synthesis coupled with yeast one-hybrid and dual-luciferase assays suggested the involvement of the SmTCP genes (Smechr0202855.1 and Smechr0602431.1) in the mediation of anthocyanin synthesis. Our study will facilitate further investigation on the putative functional characterization of eggplant TCP genes and lay a solid foundation for the in-depth study of SmTCP genes in the regulation of anthocyanin synthesis. Key MessageThe putative TCP genes and their responses to abiotic stress in eggplant were comprehensively characterized, and the SmTCP genes (Smechr0202855.1 and Smechr0602431.1) may involve in anthocyanin synthesis.

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Section: Chromosomal Localization and Gene Duplication Event Of Smtcp...mentioning

confidence: 99%

Comparative genomic investigation of TCP gene family in eggplant (Solanum melongena L.) and expression analysis under divergent treatments

Tang

Dong³

et al. 2022

Plant Cell Rep

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“…We intercepted the upstream sequence (2.0kb) of each CsCYP450 gene annotation le in Cucurbitaceae database (http://cucurbitgenomics.org/) and scanned the cis-acting elements from those sequences. Cisacting elements prevalent in genes were identi ed including CAAT-box, TATC-box, TATA-box, and cisacting elements with speci c functions were only shown [27,51,52].…”

Section: Promoter Cis Element Analysismentioning

confidence: 99%

Genome-wide identification and expression analysis of CYP450 gene family in Cucumis sativus L.

wang

Wang

et al. 2021

Preprint

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The cytochrome P450 (CYP450) gene family plays a vital role in basic metabolism and enhances plant resistance to stress and pests. However, little information is available on the genome-wide characterization and evolutionary relationship of the CYP450 gene family in Cucumis sativus L. In the present study, a genome-wide bioinformatics analysis was performed, including gene structure, conserved motif, cis-acting promoter element, evolutionary analysis, collinearity, subcellular localization, and expression profile. The gene expression profile of CYP450 was verified using transcriptome sequencing and quantitative reverse transcription polymerase chain reaction. A total of 165 P450 genes were identified in the cucumber genome. These genes were classified into eight subfamilies and unevenly distributed on seven chromosomes. Subcellular localization predicted that most of P450 genes were located in chloroplasts and a few were located on the plasma membrane. CYP450 genes were differentially expressed in different tissues and in response to salicylic acid (SA) treatment. The sizes of all cucumber P450 proteins ranged from 317 to 1,056 aa, the theoretical isoelectric points ranged from 5.05 to 10.31, and the molecular weights ranged from 36,095 to 121,403 KD. This study provides a theoretical basis for further research on the biological functions of the P450 gene in cucumber plants.

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“…(3) LecRLKs (subfamily of RLK): In 2020, 46 putative Lectin receptor-like kinases were identi ed in the cucumber (Cucumis sativus L.) genome, and were classi ed into three groups including 23 G-type, 22 Ltype, and one C-type CsLecRLK gene. Analysis of promoter regulatory elements and expression patterns revealed that some CsLecRLKs were associated with phytohormones and stress responses [13]. In 2020, Singh et al identi ed 73 putative VrLecRLKs in mungbean (Vigna radiata L. Wilczek), and classi ed them into three families, such as G-type, L-type, and C-type VrLecRLKs [14].…”

Section: Introductionmentioning

confidence: 99%

Genome-wide evolutionary analysis and the expression patterns of RLK gene family in wheat and other plants

Yan

Meng

et al. 2023

Preprint

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Background: Receptor-like kinases (RLKs) gene family contains huge number of members in plants. They are membrane proteins with an extracellular receptor domain, and participate into abiotic and biotic stress responses. Results: In this study, we identified RLKs in 15 representative plants genomes including wheat, and classified them into 64 subfamilies by using four kinds of phylogenetic trees and HMM models. Conserved exon-intron structures with conserved exon phase in the kinase domain were found in many RLK subfamilies from Physcomitrella patens to Triticum aestivum. Domain distributions of RLKs were also diagrammed. Collinearity events and tandem gene clusters suggested that polyploidizations and tandem duplication events contributed to the member expansions of T. aestivum RLKs. Global expression pattern analysis of T. aestivum, Aegilops tauschii and Brachypodium distachyon RLKs under abiotic and biotic stresses were performed by using public transcriptome data. We also selected 9 RLKs to validate the prediction of transcriptome by using qRT-PCR under drought treatment and with infection of Fusarium graminearum. Conclusion: In this study, we performed the identification, classification, evolution, and expression patterns of RLKs in wheat and relative plants. Thus, our results will help researchers study evolutionary history and molecular mechanisms of wheat RLKs.

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

Cited by 5 publications

References 34 publications

Comparative genomic investigation of TCP gene family in eggplant (Solanum melongena L.) and expression analysis under divergent treatments

Comparative genomic investigation of TCP gene family in eggplant (Solanum melongena L.) and expression analysis under divergent treatments

Genome-wide identification and expression analysis of CYP450 gene family in Cucumis sativus L.

Genome-wide evolutionary analysis and the expression patterns of RLK gene family in wheat and other plants

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