ArticleFrontiers in plant science2022
NLRexpress-A bundle of machine learning motif predictors-Reveals motif stability underlying plant Nod-like receptors diversity.
Article in Frontiers in plant science, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed.
- Whole Genome Sequencing of the Moruga Hill Rice (Biotech (Basel (Switzerland)) · 2026Article
- Machine learning empowers precise discovery of disease-resistance genes in plants.Plant physiology · 2026Article
- An improved Solanum verrucosum genome provides insight into potato centromeres and epigenetic regulation.G3 (Bethesda, Md.) · 2026Article
- Phased potato genome assembly and association genetics enable delineation of the H1 resistance locus against potato cyst nematodes.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Accelerating Resistance Breeding: Emerging Methods to Identify and Validate Plant Immunity Genes.Plants (Basel, Switzerland) · 2026Review
- Ancient pangenomic origins of noncanonical NLR genes underlying the recent evolutionary rescue of a staple crop.Science advances · 2025Article
- Assessment of Self-Activation and Inhibition of Wheat Coiled-Coil Domain Containing NLR Immune Receptor Yr10Plants (Basel, Switzerland) · 2025Article
- Lessons from Deep Learning Structural Prediction of Multistate Multidomain Proteins-The Case Study of Coiled-Coil NOD-like Receptors.International journal of molecular sciences · 2025Article
- NOD-like receptors in fish: evolution, structure, immune signaling, and targeting for aquaculture vaccine adjuvants.Frontiers in immunology · 2025Review
- Resistify: A Novel NLR Classifier That Reveals Helitron-Associated NLR Expansion in Solanaceae.Bioinformatics and biology insights · 2025Article
- Comparative analysis on natural variants of fire blight resistance protein FB_MR5 indicates distinct effector recognition mechanisms.Molecules and cells · 2024Article
- Article
- The Hypersensitive Response to Plant Viruses.Viruses · 2023Review
- NLRscape: an atlas of plant NLR proteins.Nucleic acids research · 2023Article
- Tsw - A case study on structure-function puzzles in plant NLRs with unusually large LRR domains.Frontiers in plant science · 2022Article
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4 authors.
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Abstract
Examination of a collection of over 80,000 Plant Nod-like receptors (NLRs) revealed an overwhelming sequence diversity underlying functional specificity of pathogen detection, signaling and cooperativity. The NLR canonical building blocks-CC/TIR/RPW8, NBS and LRR-contain, however, a number of conserved sequence motifs showing a significant degree of invariance amongst different NLR groups. To identify these motifs we developed NLRexpress-a bundle of 17 machine learning (ML)-based predictors, able to swiftly and precisely detect CC, TIR, NBS, and LRR motifs while minimizing computing time without accuracy losses-aimed as an instrument scalable for screening overall proteomes, transcriptomes or genomes for identifying integral NLRs and discriminating them against incomplete sequences lacking key motifs. These predictors were further used to screen a subset of ∼34,000 regular plant NLR sequences. Motifs were analyzed using unsupervised ML techniques to assess the structural correlations hidden underneath pattern variabilities. Both the NB-ARC switch domain which admittedly is the most conserved region of NLRs and the highly diverse LRR domain with its vastly variable lengths and repeat irregularities-show well-defined relations between motif subclasses, highlighting the importance of structural invariance in shaping NLR sequence diversity. The online NLRexpress webserver can be accessed at https://nlrexpress.biochim.ro.
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