Prediction of protein architectures involved in the signaling-pathway initiating sporulation in Firmicutes
Por:
Martinez-Amador, Paola, Castañeda N., Loza, Antonio, Soto, Lizeth, Merino, Enrique, Gutierrez-Rios, Rosa Maria
Publicada:
23 oct 2019
Resumen:
Objectives Like many other proteins, those belonging to the signal
transduction cascade initiating sporulation (Spo0 pathway) have
conserved protein domains (Capra and Laub in Annu Rev Microbiol
66:325-47, 2012). Improvements in bioinformatics applications to
discover proteins involved in the initiation of the sporulating cascade
in newly sequenced genomes is an important task that requires rigorous
comparative genomic methods and manual curation to identify
endospore-forming bacteria. This note aims to present a collection of
predicted proteins involved in the Spo0 pathway found in the proteomes
of fully sequenced and manually curated endospore-forming Firmicutes
species. This collection may serve as a guide to conduct future
experiments in endospore formers in genomic and metagenomic projects.
Data description Similar to the report of Davidson et al. (PLoS Genet
14:1-33, 2018), we used Pfam profiles (El-Gebali et al. in Nucleic Acids
Res 47:D427-32, 2019) defining each protein and the genomic context
surrounding the query gene to predict probable orthologs of the Spo0
pathway in Firmicutes. We present in this note a collection of 325
Firmicutes species organized by phylogenetic class and classified as
spore formers, non-spore formers or unknown spore phenotype based on
published literature, for which we predicted probable orthologs defining
the signal transduction pathway initiating sporulation.
Filiaciones:
Martinez-Amador, Paola:
Departamento de Microbiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Apdo. Postal 510-3, Cuernavaca, Morelos 62250, Mexico
Castañeda N.:
Departamento de Microbiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Apdo. Postal 510-3, Cuernavaca, Morelos 62250, Mexico
Loza, Antonio:
Departamento de Microbiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Apdo. Postal 510-3, Cuernavaca, Morelos 62250, Mexico
Soto, Lizeth:
Departamento de Microbiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Apdo. Postal 510-3, Cuernavaca, Morelos 62250, Mexico
Merino, Enrique:
Departamento de Microbiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Apdo. Postal 510-3, Cuernavaca, Morelos 62250, Mexico
Gutierrez-Rios, Rosa Maria:
Departamento de Microbiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Apdo. Postal 510-3, Cuernavaca, Morelos 62250, Mexico
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