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Metabolic network analysis reveals microbial community interactions in anammox granules.

ABSTRACT: Microbial communities mediating anaerobic ammonium oxidation (anammox) represent one of the most energy-efficient environmental biotechnologies for nitrogen removal from wastewater. However, little is known about the functional role heterotrophic bacteria play in anammox granules. Here, we use genome-centric metagenomics to recover 17 draft genomes of anammox and heterotrophic bacteria from a laboratory-scale anammox bioreactor. We combine metabolic network reconstruction with metatranscriptomics to examine the gene expression of anammox and heterotrophic bacteria and to identify their potential interactions. We find that Chlorobi-affiliated bacteria may be highly active protein degraders, catabolizing extracellular peptides while recycling nitrate to nitrite. Other heterotrophs may also contribute to scavenging of detritus and peptides produced by anammox bacteria, and potentially use alternative electron donors, such as H2, acetate and formate. Our findings improve the understanding of metabolic activities and interactions between anammox and heterotrophic bacteria and offer the first transcriptional insights on ecosystem function in anammox granules.

SUBMITTER: Lawson CE

PROVIDER: S-EPMC5460018 | biostudies-literature | 2017 May

REPOSITORIES: biostudies-literature

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Metabolic network analysis reveals microbial community interactions in anammox granules.

Lawson Christopher E CE Wu Sha S Bhattacharjee Ananda S AS Hamilton Joshua J JJ McMahon Katherine D KD Goel Ramesh R Noguera Daniel R DR

Nature communications 20170531

Microbial communities mediating anaerobic ammonium oxidation (anammox) represent one of the most energy-efficient environmental biotechnologies for nitrogen removal from wastewater. However, little is known about the functional role heterotrophic bacteria play in anammox granules. Here, we use genome-centric metagenomics to recover 17 draft genomes of anammox and heterotrophic bacteria from a laboratory-scale anammox bioreactor. We combine metabolic network reconstruction with metatranscriptomic ...[more]

PMID: 28561030

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Project description:Anaerobic ammonium-oxidizing (anammox) bacteria are key players in the global nitrogen cycle and responsible for significant global nitrogen loss. Moreover, the anammox process is widely implemented for nitrogen removal from wastewaters as a cost-effective and environment-friendly alternative to conventional nitrification-denitrification systems. Currently, five genera of anammox bacteria have been identified, together forming a deep-branching order in the Planctomycetes-Verrucomicrobium-Chlamydiae superphylum. Members of all genera have been detected in wastewater treatment plants and have been enriched in lab-scale bioreactors, but genome information is not yet available for all genera. Here we report the metagenomic analysis of a granular sludge anammox reactor dominated (?50%) by "Candidatus Jettenia asiatica." The metagenome was sequenced using both Illumina and 454 pyrosequencing. After de novo assembly 37,432 contigs with an average length of 571?nt were obtained. The contigs were then analyzed by BLASTx searches against the protein sequences of "Candidatus Kuenenia stuttgartiensis" and a set of 25 genes essential in anammox metabolism were detected. Additionally all reads were mapped to the genome of an anammox strain KSU-1 and de novo assembly was performed again using the reads that could be mapped on KSU-1. Using this approach, a gene encoding copper-containing nitrite reductase NirK was identified in the genome, instead of cytochrome cd(1)-type nitrite reductase (NirS, present in "Ca. Kuenenia stuttgartiensis" and "Ca. Scalindua profunda"). Finally, the community composition was investigated through MetaCluster analysis, 16S rRNA gene analysis and read mapping, which showed the presence of other important community members such as aerobic ammonia-oxidizing bacteria, methanogens, and the denitrifying methanotroph "Ca. Methylomirabilis oxyfera", indicating a possible active methane and nitrogen cycle in the bioreactor under the prevailing operational conditions.

Dataset Information

Metabolic network analysis reveals microbial community interactions in anammox granules.

Publications

Metabolic network analysis reveals microbial community interactions in anammox granules.

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