Abstract
The ever-increasing metagenomic data necessitate appropriate cataloguing in a way that facilitates the comparison and better contextualization of the underlying investigations. To this extent, information associated with the sequencing data as well as the original sample and the environment where it was obtained from is crucial. To date, there are not any publicly available repositories able to capture environmental metadata pertaining to hydrocarbon-rich environments. As such, contextualization and comparative analysis among sequencing datasets derived from these environments is to a certain degree hindered or cannot be fully evaluated. The metagenomics data management system for hydrocarbon resources (MetaHCRs) enables the capturing of marker gene and whole metagenome sequencing data as well as over 300 contextual attributes associated with samples, organisms, environments and geological properties, among others. Moreover, MetaHCR implements the Minimum Information about any Sequence–hydrocarbon resource specification from the Genomic Standards Consortium; it integrates a user-friendly web interface and relational database model, and it enables the generation of complex custom search. MetaHCR has been tested with 36 publicly available metagenomic studies, and its modular architecture can be easily customized for other types of environmental and metagenomics studies.
Highlights
The amount of data produced from metagenomic studies has dramatically increased with the introduction of massively parallel sequencing technologies [1]
The MetaHCR data management system aims to be a platform for the cataloguing, data storage, sharing and searching for microorganisms from environmental samples that have been recovered from hydrocarbon resources (HCRs) and that are associated with hydrocarbon degradation, biogenic H2S production, microbiologically influenced corrosion (MIC) and methane emissions
The software presented here may be helpful for various tasks related to the management and investigation of complex metagenomics data and metadata for hydrocarbonrich environments
Summary
The amount of data produced from metagenomic studies has dramatically increased with the introduction of massively parallel sequencing technologies [1]. The need for the storage of metadata related to metagenomic and genomic projects has been addressed by different web platforms or portals and databases [12,13,14,15,16,17]. We describe metagenomics data management system for hydrocarbon resource (MetaHCR), a standalone and open-source software (OSS) that allows users to store, catalogue, share and analyze metadata and sequencing data originating from metagenomics projects related to hydrocarbon environments.
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