ArticleBMC bioinformatics2017
The prediction of a pathogenesis-related secretome of Puccinia helianthi through high-throughput transcriptome analysis.
Article in BMC bioinformatics, 2017. 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, 52 citations in OpenAlex.
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- In silico secretome analyses of the polyphagous root-knot nematode Meloidogyne javanica: a resource for studying M. javanica secreted proteins.BMC genomics · 2023Article
- Genome-Wide Characterization of Effector Protein-Encoding Genes inJournal of fungi (Basel, Switzerland) · 2023Article
- Genome-Wide Identification, Evolutionary and Functional Analyses of WRKY Family Members inGenes · 2023Article
- Genome-wide identification, evolutionary and functional analyses of KFB family members in potato.BMC plant biology · 2022Article
- Genome-wide identification of the pectin methylesterase inhibitor genes inFrontiers in plant science · 2022Article
- Comparative transcriptomic analysis of races 1, 2, 5 and 6 of Fusarium oxysporum f.sp. pisi in a susceptible pea host identifies differential pathogenicity profiles.BMC genomics · 2021Article
- Genomic Characterization Provides an Insight into the Pathogenicity of the Poplar Canker BacteriumGenes · 2021Article
- Smut fungi as a stratagem to characterize rust effectors: opportunities and challenges.World journal of microbiology & biotechnology · 2020Review
- Whole-genome and time-course dual RNA-Seq analyses reveal chronic pathogenicity-related gene dynamics in the ginseng rusty root rot pathogen Ilyonectria robusta.Scientific reports · 2020Article
- Long-Read-BasedFrontiers in genetics · 2020Article
- Gene Cloning, Expression, and Antifungal Activities of Permatin from Naked Oat (Avena nuda).Probiotics and antimicrobial proteins · 2019Article
- Exploitation of reverse vaccinology and immunoinformatics as promising platform for genome-wide screening of new effective vaccine candidates against Plasmodium falciparum.BMC bioinformatics · 2019Article
- Comparative Transcriptome Profiling ofFrontiers in microbiology · 2019Article
- Cloning and Characterization of Two Iridoid Synthase Homologs from Swertia Mussotii.Molecules (Basel, Switzerland) · 2017Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundMany plant pathogen secretory proteins are known to be elicitors or pathogenic factors,which play an important role in the host-pathogen interaction process. Bioinformatics approaches make possible the large scale prediction and analysis of secretory proteins from the Puccinia helianthi transcriptome. The internet-based software SignalP v4.1, TargetP v1.01, Big-PI predictor, TMHMM v2.0 and ProtComp v9.0 were utilized to predict the signal peptides and the signal peptide-dependent secreted proteins among the 35,286 ORFs of the P. helianthi transcriptome.
results908 ORFs (accounting for 2.6% of the total proteins) were identified as putative secretory proteins containing signal peptides. The length of the majority of proteins ranged from 51 to 300 amino acids (aa), while the signal peptides were from 18 to 20 aa long. Signal peptidase I (SpI) cleavage sites were found in 463 of these putative secretory signal peptides. 55 proteins contained the lipoprotein signal peptide recognition site of signal peptidase II (SpII). Out of 908 secretory proteins, 581 (63.8%) have functions related to signal recognition and transduction, metabolism, transport and catabolism. Additionally, 143 putative secretory proteins were categorized into 27 functional groups based on Gene Ontology terms, including 14 groups in biological process, seven in cellular component, and six in molecular function. Gene ontology analysis of the secretory proteins revealed an enrichment of hydrolase activity. Pathway associations were established for 82 (9.0%) secretory proteins. A number of cell wall degrading enzymes and three homologous proteins specific to Phytophthora sojae effectors were also identified, which may be involved in the pathogenicity of the sunflower rust pathogen.
conclusionsThis investigation proposes a new approach for identifying elicitors and pathogenic factors. The eventual identification and characterization of 908 extracellularly secreted proteins will advance our understanding of the molecular mechanisms of interactions between sunflower and rust pathogen and will enhance our ability to intervene in disease states.
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