New insights into receptor-like protein functions in Arabidopsis

Lv, Yanting; Yang, Nan; Wu, Jin‐Bin; Liu, Zhijun; Pan, Lixia; Lv, Shuo; Wang, Guodong

doi:10.1080/15592324.2016.1197469

Cited by 6 publications

(5 citation statements)

References 27 publications

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“…Genes with superficial similarities to LRR‐RLKs, such as the leucine‐rich repeat receptor‐like proteins (LRR‐RLPs) are generally treated as separate gene families, despite their similarities to LRR‐RLKs (Fritz‐Laylin et al , ; Mondragon‐Palomino & Gaut, ; Fan et al , ; He et al , ; Jamieson et al , ). We asked if any genes recovered in our search encoded LRR‐RLPs and found 15 out of 57 (26.3%) A. thaliana LRR‐RLPs in our LRR‐RLK trees, many of which have orthologues in other species (Table S3; Fritz‐Laylin et al , ; Lv et al , ). We also looked for the 14 A. thaliana RLK‐only genes from our trees in others’ receptor‐like cytoplasmic kinase searches, but we found none (Table S3; Shiu et al , ; Fan et al , ).…”

Section: Resultsmentioning

confidence: 99%

Structural evolution drives diversification of the large LRR‐RLK gene family

2020

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Cells are continuously exposed to chemical signals that they must discriminate between and respond to appropriately. In embryophytes, the leucine-rich repeat receptor-like kinases (LRR-RLKs) are signal receptors critical in development and defense. LRR-RLKs have diversified to hundreds of genes in many plant genomes. Although intensively studied, a well-resolved LRR-RLK gene tree has remained elusive.To resolve the LRR-RLK gene tree, we developed an improved gene discovery method based on iterative hidden Markov model searching and phylogenetic inference. We used this method to infer complete gene trees for each of the LRR-RLK subclades and reconstructed the deepest nodes of the full gene family.We discovered that the LRR-RLK gene family is even larger than previously thought, and that protein domain gains and losses are prevalent. These structural modifications, some of which likely predate embryophyte diversification, led to misclassification of some LRR-RLK variants as members of other gene families. Our work corrects this misclassification.Our results reveal ongoing structural evolution generating novel LRR-RLK genes. These new genes are raw material for the diversification of signaling in development and defense. Our methods also enable phylogenetic reconstruction in any large gene family.

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Section: Resultsmentioning

confidence: 99%

Structural evolution drives diversification of the large LRR‐RLK gene family

2020

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“…Genes such as NIM1-interacting 2-like, glutamate receptor 2.9-like, receptor-like protein, and pathogenesis-related protein 5-like were found down-regulated in the DTR set. Although there have been reports that overexpression some of these genes have a positive effect on tolerance to abiotic stresses [55,56,57], but better-known function of all of them is resistance to disease and biotic stresses [58,59,60,61,62,63]. Based on the results, it seems likely that tolerant genotype at high drought levels downregulate the expression of some of the disease-related genes (not all) and thus spend their stored energy on producing other vital compounds to survive under severe drought stress.…”

Section: Gene Regulatory Networkmentioning

confidence: 99%

Transcription Factors and microRNA Genes Regulatory Network Construction Under Drought Stress in Sesame (Sesamum indicum L.)

Baghery

Kazemitabar

Dehestani

et al. 2020

Preprint

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Background: Drought is one of the most common environmental stresses affecting crops yield and quality. Sesame is an important oilseed crop that most likely faces drought during its growth due to growing in semi-arid and arid areas. Plants responses to drought controlled by regulatory mechanisms. Despite this importance, there is little information about Sesame regulatory mechanisms against drought stress. Results: 458 drought-related genes were identified using comprehensive RNA-seq data analysis of two susceptible and tolerant sesame genotypes under drought stress. These drought-responsive genes were included secondary metabolites biosynthesis-related Like F3H, sucrose biosynthesis-related like SUS2, transporters like SUC2, and protectives like LEA and HSP families. Interactions between identified genes and regulators including TFs and miRNAs were predicted using bioinformatics tools and related regulatory gene networks were constructed. Key regulators and relations of Sesame under drought stress were detected by network analysis. TFs belonged to DREB (DREB2D), MYB (MYB63), ZFP (TFIIIA), bZIP (bZIP16), bHLH (PIF1), WRKY (WRKY30) and NAC (NAC29) families were found among key regulators. mRNAs like miR399, miR169, miR156, miR5685, miR529, miR395, miR396, and miR172 also found as key drought regulators. Furthermore, a total of 117 TFs and 133 miRNAs that might be involved in drought stress were identified with this approach. Conclusions: Most of the identified TFs and almost all of the miRNAs are introduced for the first time as potential regulators of drought response in Sesame. These regulators accompany with identified drought-related genes could be valuable candidates for future studies and breeding programs on Sesame under drought stress. Keywords: Sesamum indicum, Drought stress, Regulatory networks, miRNA, Transcription Factors.

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“…Furthermore, a significant percentage of RLP coding genes in Arabidopsis were in the list of DEGs (Tables S7) (Fig. S5) (Wang et al ., 2008; Lv et al ., 2016). Most of LRR-RLK, CRK and RLP transcripts were up-regulated in response to elevated BIR1, but not in DEX-treated WT plants.…”

Section: Resultsmentioning

confidence: 99%

The receptor-like kinase BIR1 inhibits elicitor-induced plasmodesmata callose deposition and PTI gene expression and requires EDS1 and SOBIR1 to cause dose-dependent cell-death in Arabidopsis

Guzmán-Benito

Robinson

Hua

et al. 2023

Preprint

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The receptor-like kinase BIR1 functions as a negative regulator of cell death and defense in Arabidopsis. Previous studies showed that BIR1 expression is up-regulated during infections with microbes and viruses. However, the biological consequences of BIR1 induction remain unknown. Here, we use a DEX-inducible expression system in Arabidopsis to investigate the outputs associated with physiological and non-physiological levels of BIR1 expression. We show that BIR1 induction at physiological levels significantly interferes with gene expression and plasmodesmata callose deposition triggered by canonical PTI elicitors. We found that plants that accumulated non-physiological doses of BIR1 displayed morphological defects that concur with transcriptomic changes in multiple plant defense genes. We provide experimental evidence that EDS1 and SOBIR1 are required for the ETI-type cell death phenotypes associated to non-physiological levels of BIR1. Here we propose that BIR1 induction may represent a pathogen-triggered mechanism to modulate plant defenses during infection. Our model posits that when BIR1 regulation is lost, BIR1 integrity is sensed by one or several guarding resistance (R) proteins to initiate an ETI-like response, in which SOBIR1 cooperates with EDS1 to transduce signals downstream of R proteins.

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New insights into receptor-like protein functions in Arabidopsis

Cited by 6 publications

References 27 publications

Structural evolution drives diversification of the large LRR‐RLK gene family

Structural evolution drives diversification of the large LRR‐RLK gene family

Transcription Factors and microRNA Genes Regulatory Network Construction Under Drought Stress in Sesame (Sesamum indicum L.)

The receptor-like kinase BIR1 inhibits elicitor-induced plasmodesmata callose deposition and PTI gene expression and requires EDS1 and SOBIR1 to cause dose-dependent cell-death in Arabidopsis

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