Abstract
Interest in the Planctomycetes-Verrucomicrobia-Chlamydiae (PVC) bacterial superphylum is growing within the microbiology community. These organisms do not have a specialized web resource that gathers in silico predictions in an integrated fashion. Hence, we are providing the PVC community with PVCbase, a specialized web resource that gathers in silico predictions in an integrated fashion. PVCbase integrates protein function annotations obtained through sequence analysis and tertiary structure prediction for 39 representative PVC proteomes (PVCdb), a protein feature visualizer (Foundation) and a custom BLAST webserver (PVCBlast) that allows to retrieve the annotation of a hit directly from the DataTables. We display results from various predictors, encompassing most functional aspects, allowing users to have a more comprehensive overview of protein identities. Additionally, we illustrate how the application of PVCdb can be used to address biological questions from raw data. Database URL: PVCbase is freely accessible at www.pvcbacteria.org/pvcbase
Highlights
Interest in the Planctomycetes-Verrucomicrobia-Chlamydiae (PVC) bacterial superphylum is growing within the microbiology community
PVCbase integrates protein function annotations obtained through sequence analysis and tertiary structure prediction for 39 representative PVC proteomes (PVCdb), a protein feature visualizer (Foundation) and a custom BLAST webserver (PVCBlast) that allows to retrieve the annotation of a hit directly from the DataTables
The Planctomycetes-Verrucomicrobia-Chlamydiae (PVC) bacterial superphylum is composed of the three namegiving phyla and some additional ones, like Lentisphaerae, ‘Candidatus Omnitrophica’ and Kirimatiellaeota [1]
Summary
The Planctomycetes-Verrucomicrobia-Chlamydiae (PVC) bacterial superphylum is composed of the three namegiving phyla and some additional ones, like Lentisphaerae, ‘Candidatus Omnitrophica’ and Kirimatiellaeota [1]. Despite this diversity, it is accepted that they form a monophyletic group [2]. It is accepted that they form a monophyletic group [2] This bacterial superphylum draws interest because some species display characteristics not frequently observed in bacteria.
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