Presence and diversity of anammox bacteria in cold hydrocarbon-rich seeps and hydrothermal vent sediments of the Guaymas Basin

Russ, Lina; Kartal, Boran; Camp, Huub J. M. Op den; Sollai, Martina; Bruchec, Julie Le; Caprais, Jean‐Claude; Godfroy, Anne; Damsté, Jaap S. Sinninghe; Jetten, Mike S. M.

doi:10.3389/fmicb.2013.00219

Cited by 45 publications

(36 citation statements)

References 62 publications

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“…5). In fact, the a-subunit of the hydrazine synthase (hzsA) has been used as a molecular marker (phylomarker) to detect and quantify anammox bacteria (Harhangi et al 2012;Russ et al 2013), which highlights the high value of metagenomic studies for the development of further applications. Differences in gene repertories have been found too between the different anammox metagenomes.…”

Section: Metagenomics Enables Comparative Analysis Of Wastewater Micrmentioning

confidence: 99%

Meta-omics approaches to understand and improve wastewater treatment systems

Rodriguéz

García‐Encina

Stams

et al. 2015

Rev Environ Sci Biotechnol

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Biological treatment of wastewaters depends on microbial processes, usually carried out by mixed microbial communities. Environmental and operational factors can affect microorganisms and/or impact microbial community function, and this has repercussion in bioreactor performance. Novel highthroughput molecular methods (metagenomics, metatranscriptomics, metaproteomics, metabolomics) are providing detailed knowledge on the microorganisms governing wastewater treatment systems and on their metabolic capabilities. The genomes of uncultured microbes with key roles in wastewater treatment plants (WWTP), such as the polyphosphate-accumulating microorganism ''Candidatus Accumulibacter phosphatis'', the nitrite oxidizer ''Candidatus Nitrospira defluvii'' or the anammox bacterium ''Candidatus Kuenenia stuttgartiensis'' are now available through metagenomic studies. Metagenomics allows to genetically characterize full-scale WWTP and provides information on the lifestyles and physiology of key microorganisms for wastewater treatment. Integrating metagenomic data of microorganisms with metatranscriptomic, metaproteomic and metabolomic information provides a better understanding of the microbial responses to perturbations or environmental variations. Data integration may allow the creation of predictive behavior models of wastewater ecosystems, which could help in an improved exploitation of microbial processes. This review discusses the impact of meta-omic approaches on the understanding of wastewater treatment processes, and the implications of these methods for the optimization and design of wastewater treatment bioreactors.

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Section: Metagenomics Enables Comparative Analysis Of Wastewater Micrmentioning

confidence: 99%

Meta-omics approaches to understand and improve wastewater treatment systems

Rodriguéz

García‐Encina

Stams

et al. 2015

Rev Environ Sci Biotechnol

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“…Within the Planctomycetes , the ANAMMOX bacteria are the sole group known to be able to perform anaerobic oxidation of ammonium, (Jetten et al, 2005; Francis et al, 2007) where nitrite, one of the product of denitrification, serves as electron acceptor to form dinitrogen (gas) (Strous et al, 1999; Francis et al, 2007). Although the presence of sequences affiliated to Planctomycetes does not allow us to infer their function, ANAMMOX bacteria were known to be active in hydrothermal systems (Byrne et al, 2009) and were already detected in Guaymas basin sediment samples (Russ et al, 2013). Hence, all together, these results suggest that the anaerobic nitrogen cycle, denitrification, and ANAMMOX processes might all occur in our colonizer modules, and by extension, in the surrounding sediments.…”

Section: Discussionmentioning

confidence: 99%

Microbial colonization of basaltic glasses in hydrothermal organic-rich sediments at Guaymas Basin

Callac¹,

Rommevaux-Jestin²,

Rouxel³

et al. 2013

Front. Microbiol.

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Oceanic basalts host diverse microbial communities with various metabolisms involved in C, N, S, and Fe biogeochemical cycles which may contribute to mineral and glass alteration processes at, and below the seafloor. In order to study the microbial colonization on basaltic glasses and their potential biotic/abiotic weathering products, two colonization modules called AISICS (“Autonomous in situ Instrumented Colonization System”) were deployed in hydrothermal deep-sea sediments at the Guaymas Basin for 8 days and 22 days. Each AISICS module contained 18 colonizers (including sterile controls) filled with basaltic glasses of contrasting composition. Chemical analyses of ambient fluids sampled through the colonizers showed a greater contribution of hydrothermal fluids (maximum temperature 57.6°C) for the module deployed during the longer time period. For each colonizer, the phylogenetic diversity and metabolic function of bacterial and archaeal communities were explored using a molecular approach by cloning and sequencing. Results showed large microbial diversity in all colonizers. The bacterial distribution was primarily linked to the deployment duration, as well as the depth for the short deployment time module. Some 16s rRNA sequences formed a new cluster of Epsilonproteobacteria. Within the Archaea the retrieved diversity could not be linked to either duration, depth or substrata. However, mcrA gene sequences belonging to the ANME-1 mcrA-guaymas cluster were found sometimes associated with their putative sulfate-reducers syntrophs depending on the colonizers. Although no specific glass alteration texture was identified, nano-crystals of barite and pyrite were observed in close association with organic matter, suggesting a possible biological mediation. This study gives new insights into the colonization steps of volcanic rock substrates and the capability of microbial communities to exploit new environmental conditions.

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“…A study in the Guaymas Basin revealed that Ca. Scalindua species are more abundant in cold hydrocarbon-rich sediments than hydrothermal vents (Russ et al, 2013).…”

Section: Deep-sea and Other Environmentsmentioning

confidence: 99%

Reviews and syntheses: Processes and functional genes involved in nitrogen cycling in marine environments

Ramos

Pajares

2018

Preprint

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Abstract. Nitrogen is a key element for life in the oceans. It controls primary productivity in many parts of the global ocean, consequently playing a crucial role in the uptake of atmospheric carbon dioxide. The nitrogen cycle is driven by complex biogeochemical transformations mediated by microorganisms, including classical processes such as nitrogen fixation, 10 assimilation, nitrification, denitrification, and dissimilarity nitrate reduction to ammonia, as well as novel processes such as anaerobic ammonium oxidation, comammox and nitrite-driven anaerobic methane oxidation. The nitrogen cycle maintains the functioning of marine ecosystems and will be a crucial component in how the ocean responds to global environmental change. In this review, we summarize the current understanding of the marine microbial nitrogen cycle, its underlying biochemical and enzymatic reactions, the ecology and distribution of the microorganisms involved, and the main impacts of 15 anthropogenic activities.

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Presence and diversity of anammox bacteria in cold hydrocarbon-rich seeps and hydrothermal vent sediments of the Guaymas Basin

Cited by 45 publications

References 62 publications

Meta-omics approaches to understand and improve wastewater treatment systems

Meta-omics approaches to understand and improve wastewater treatment systems

Microbial colonization of basaltic glasses in hydrothermal organic-rich sediments at Guaymas Basin

Reviews and syntheses: Processes and functional genes involved in nitrogen cycling in marine environments

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