ArticleBMC genomics2014
Genome mining for ribosomally synthesized and post-translationally modified peptides (RiPPs) in anaerobic bacteria.
Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 55 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
55 citing papers in PubMed.
- Transposon insertion sequencing identifies novel genes involved in product synthesis in gas-fermentingSynthetic and systems biotechnology · 2026Article
- Diversity and Classification of the Actinopeptins: A New Family of Lanthipeptides Within the Genomes from the Phylum Actinomycetota.Antibiotics (Basel, Switzerland) · 2026Article
- Leaderless RiPPs expand the repertoire of fungal secondary metabolites.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Large protein-like leader peptides engage differently with RiPP halogenases and lanthionine synthetases.Nature communications · 2025Article
- Probiogenomics of Leuconostoc Mesenteroides Strains F-21 and F-22 Isolated from Human Breast Milk Reveal Beneficial Properties.Probiotics and antimicrobial proteins · 2025Article
- Utilization of Crab Shell Waste for Value-Added Bioplastics byInternational journal of molecular sciences · 2025Article
- New approaches to secondary metabolite discovery from anaerobic gut microbes.Applied microbiology and biotechnology · 2025Review
- Mining metagenomic data to gain a new insight into the gut microbial biosynthetic potential in placental mammals.Microbiology spectrum · 2024Article
- Cell-Free Systems: Ideal Platforms for Accelerating the Discovery and Production of Peptide-Based Antibiotics.International journal of molecular sciences · 2024Review
- Discovery and engineering of ribosomally synthesized and post-translationally modified peptide (RiPP) natural products.RSC chemical biology · 2024Review
- Genome Mining Uncovers NRPS and PKS Clusters inAntibiotics (Basel, Switzerland) · 2023Article
- The Pangenome of Gram-Negative Environmental Bacteria Hides a Promising Biotechnological Potential.Microorganisms · 2023Article
- The Lanthipeptide Synthetase-like Protein CA_C0082 Is an Effector of Agr Quorum Sensing inMicroorganisms · 2023Article
- Antibiotic profiling of wild-type bacilli led to the discovery of new lanthipeptide subtilin-producing Bacillus spizizenii strains whose 16S rDNA sequences differ from the B. spizizenii typing strain.International microbiology : the official journal of the Spanish Society for Microbiology · 2022Article
- Comparative genomics ofMicrobial genomics · 2022Article
- Deep-Sea Sediments from the Southern Gulf of Mexico Harbor a Wide Diversity of PKS I Genes.Antibiotics (Basel, Switzerland) · 2022Article
- Article
- Whole-Genome Sequencing and Comparative Genomic Analysis of Antimicrobial ProducingMicroorganisms · 2022Article
- Biosynthetic gene cluster profiling predicts the positive association between antagonism and phylogeny in Bacillus.Nature communications · 2022Article
- Biocontrol properties from phyllospheric bacteria isolated from Solanum lycopersicum and Lactuca sativa and genome mining of antimicrobial gene clusters.BMC genomics · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundRibosomally synthesized and post-translationally modified peptides (RiPPs) are a diverse group of biologically active bacterial molecules. Due to the conserved genomic arrangement of many of the genes involved in their synthesis, these secondary metabolite biosynthetic pathways can be predicted from genome sequence data. To date, however, despite the myriad of sequenced genomes covering many branches of the bacterial phylogenetic tree, such an analysis for a broader group of bacteria like anaerobes has not been attempted.
resultsWe investigated a collection of 211 complete and published genomes, focusing on anaerobic bacteria, whose potential to encode RiPPs is relatively unknown. We showed that the presence of RiPP-genes is widespread among anaerobic representatives of the phyla Actinobacteria, Proteobacteria and Firmicutes and that, collectively, anaerobes possess the ability to synthesize a broad variety of different RiPP classes. More than 25% of anaerobes are capable of producing RiPPs either alone or in conjunction with other secondary metabolites, such as polyketides or non-ribosomal peptides.
conclusionAmongst the analyzed genomes, several gene clusters encode uncharacterized RiPPs, whilst others show similarity with known RiPPs. These include a number of potential class II lanthipeptides; head-to-tail cyclized peptides and lactococcin 972-like RiPP. This study presents further evidence in support of anaerobic bacteria as an untapped natural products reservoir.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.