ArticlePLoS computational biology2005
Inferring hypotheses on functional relationships of genes: Analysis of the Arabidopsis thaliana subtilase gene family.
Article in PLoS computational biology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 78 papers.
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Who cites it
78 citing papers in PubMed, 179 citations in OpenAlex.
- Genome-wide identification, characterization and expression analysis of the subtilisin-like protease gene family in Quercus ilex in response to Phytophthora cinnamomi.Scientific reports · 2026Article
- Comprehensive Analyses of Serine Protease-like Protease (SBT) in Regulating Yield Characters in Rapeseed (Plants (Basel, Switzerland) · 2026Article
- Plant subtilases as key initiators of peptide ligand-receptor signaling.The Plant journal : for cell and molecular biology · 2026Review
- A fungal pathogen manipulates phytocytokine signaling for plant infection.Nature communications · 2025Article
- Beware of Sealing Film of Petri Dishes!-Alters the Expression of a Large Number of Genes.International journal of molecular sciences · 2025Article
- Genome-wide identification and characterization of Subtilisin-like Serine protease encoding genes in Vigna radiata L. Wilczek.Scientific reports · 2025Article
- Subtilisin-like protease 4 regulates cold tolerance through cell wall modification in rice.Scientific reports · 2025Article
- Genome-Wide Identification, Functional Characterization, and Stress-Responsive Expression Profiling of Subtilase (International journal of molecular sciences · 2024Article
- Pull the fuzes: Processing protein precursors to generate apoplastic danger signals for triggering plant immunity.Plant communications · 2024Review
- Sulfated peptides: key players in plant development, growth, and stress responses.Frontiers in plant science · 2024Review
- Comparative Physiological and Transcriptome Analyses of Tolerant and Susceptible Cultivars Reveal the Molecular Mechanism of Cold Tolerance inInternational journal of molecular sciences · 2023Article
- Genome-Wide Identification, Phylogeny and Expression Analysis of Subtilisin (SBT) Gene Family under Wheat Biotic and Abiotic Stress.Plants (Basel, Switzerland) · 2023Article
- Genome-Wide Investigation and Co-Expression Network Analysis of SBT Family Gene inInternational journal of molecular sciences · 2023Article
- Genome-Wide Identification and Analysis of the Maize Serine Peptidase S8 Family Genes in Response to Drought at Seedling Stage.Plants (Basel, Switzerland) · 2023Article
- A putative SUBTILISIN-LIKE SERINE PROTEASE 1 (SUBSrP1) regulates anther cuticle biosynthesis and panicle development in rice.Journal of advanced research · 2022Article
- A secreted fungal subtilase interferes with rice immunity via degradation of SUPPRESSOR OF G2 ALLELE OF skp1.Plant physiology · 2022Article
- HYL1-CLEAVAGE SUBTILASE 1 (HCS1) suppresses miRNA biogenesis in response to light-to-dark transition.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Genome-wide analysis of the SBT gene family involved in drought tolerance in cotton.Frontiers in plant science · 2022Article
- Genome-Wide Comprehensive Survey of the Subtilisin-Like Proteases Gene Family Associated With Rice Caryopsis Development.Frontiers in plant science · 2022Article
- Identification of Cognate Protease/Substrate Pairs by Use of Class-Specific Inhibitors.Methods in molecular biology (Clifton, N.J.) · 2022Article
18 more citing papers are in PubMed but not listed here.
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The gene family of subtilisin-like serine proteases (subtilases) in Arabidopsis thaliana comprises 56 members, divided into six distinct subfamilies. Whereas the members of five subfamilies are similar to pyrolysins, two genes share stronger similarity to animal kexins. Mutant screens confirmed 144 T-DNA insertion lines with knockouts for 55 out of the 56 subtilases. Apart from SDD1, none of the confirmed homozygous mutants revealed any obvious visible phenotypic alteration during growth under standard conditions. Apart from this specific case, forward genetics gave us no hints about the function of the individual 54 non-characterized subtilase genes. Therefore, the main objective of our work was to overcome the shortcomings of the forward genetic approach and to infer alternative experimental approaches by using an integrative bioinformatics and biological approach. Computational analyses based on transcriptional co-expression and co-response pattern revealed at least two expression networks, suggesting that functional redundancy may exist among subtilases with limited similarity. Furthermore, two hubs were identified, which may be involved in signalling or may represent higher-order regulatory factors involved in responses to environmental cues. A particular enrichment of co-regulated genes with metabolic functions was observed for four subtilases possibly representing late responsive elements of environmental stress. The kexin homologs show stronger associations with genes of transcriptional regulation context. Based on the analyses presented here and in accordance with previously characterized subtilases, we propose three main functions of subtilases: involvement in (i) control of development, (ii) protein turnover, and (iii) action as downstream components of signalling cascades. Supplemental material is available in the Plant Subtilase Database (PSDB) (http://csbdb.mpimp-golm.mpg.de/psdb.html), as well as from the CSB.DB (http://csbdb.mpimp-golm.mpg.de).
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