Differential aerobic and anaerobic oxidation of hydrocarbon gases discharged at mud volcanoes in the Nile deep-sea fan

Mastalerz, Vincent; Lange, Gert J. de; Dählmann, Anke

doi:10.1016/j.gca.2008.12.030

Cited by 52 publications

(52 citation statements)

References 57 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The occurrence of hydrocarbons (ϾC 4 ) other than natural gas is known for the Paclele Mici mud volcano (28), but for the Amon mud volcano and Nyegga methane seeps, there have been no assessments for the presence of hydrocarbons higher than C 4 to date (32,33,52). While the detection of putative assA homologues is expected for natural gas seepages due to the degradation of short-chain alkanes via fumarate addition (5,53), the discovery of only bssA genes related to Desulfobacula toluolica in Amon mud volcano sediments was unexpected.…”

Section: Discussionmentioning

confidence: 99%

“…The DNA was extracted with a Power soil RNA extraction kit and DNA elution accessory kit (MO BIO Laboratories, Carlsbad, CA). Sediment samples from the Amon mud volcano in the eastern Nile deep-sea fan (station 929, dive 240 [33]) and Guaymas Basin hydrocarbon seeps in the Gulf of California (dive 5473 [34]) were collected from below a microbial mat. The DNA was extracted as described by Kleindienst PCR amplification.…”

Section: Methodsmentioning

confidence: 99%

See 1 more Smart Citation

Enhanced Gene Detection Assays for Fumarate-Adding Enzymes Allow Uncovering of Anaerobic Hydrocarbon Degraders in Terrestrial and Marine Systems

Netzer

Pilloni

Kleindienst

et al. 2013

Appl Environ Microbiol

View full text Add to dashboard Cite

The detection of anaerobic hydrocarbon degrader populations via catabolic gene markers is important for the understanding of processes at contaminated sites. Fumarate-adding enzymes (FAEs; i.e., benzylsuccinate and alkylsuccinate synthases) have already been established as specific functional marker genes for anaerobic hydrocarbon degraders. Several recent studies based on pure cultures and laboratory enrichments have shown the existence of new and deeply branching FAE gene lineages, such as clostridial benzylsuccinate synthases and homologues, as well as naphthylmethylsuccinate synthases. However, established FAE gene detection assays were not designed to target these novel lineages, and consequently, their detectability in different environments remains obscure. Here, we present a new suite of parallel primer sets for detecting the comprehensive range of FAE markers known to date, including clostridial benzylsuccinate, naphthylmethylsuccinate, and alkylsuccinate synthases. It was not possible to develop one single assay spanning the complete diversity of FAE genes alone. The enhanced assays were tested with a range of hydrocarbon-degrading pure cultures, enrichments, and environmental samples of marine and terrestrial origin. They revealed the presence of several, partially unexpected FAE gene lineages not detected in these environments before: distinct deltaproteobacterial and also clostridial bssA homologues as well as environmental nmsA homologues. These findings were backed up by dual-digest terminal restriction fragment length polymorphism diagnostics to identify FAE gene populations independently of sequencing. This allows rapid insights into intrinsic degrader populations and degradation potentials established in aromatic and aliphatic hydrocarbon-impacted environmental systems.

show abstract

Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Enhanced Gene Detection Assays for Fumarate-Adding Enzymes Allow Uncovering of Anaerobic Hydrocarbon Degraders in Terrestrial and Marine Systems

Netzer

Pilloni

Kleindienst

et al. 2013

Appl Environ Microbiol

View full text Add to dashboard Cite

show abstract

“…Geochemical studies of anoxic deep-sea sediments provided the first indications that propane and butane are also degraded under anoxic conditions, suggesting a significant influence on the carbon and sulfur cycles in hydrocarbon-impacted environments. These data include the 13 C-enrichment of propane and butane in sediment interstitial waters atop gas hydrates (Sassen et al, 2004) or at deep sea mud volcanoes (Mastalerz et al, 2009), sulfate-reduction rates much higher than could be accounted for by anaerobic oxidation of methane in hydrothermal sediments or at cold seeps Kallmeyer and Boetius, 2004;Orcutt et al 2004Orcutt et al , 2010Kleindienst et al, 2012), or the apparent consumption of shortchain alkanes at mud volcanoes (Niemann et al, 2006). In addition, oxidation of propane under anoxic conditions has been determined in sediments collected from marine gas seeps (Quistad and Valentine, 2011).…”

Section: Introductionmentioning

confidence: 99%

Anaerobic degradation of propane and butane by sulfate-reducing bacteria enriched from marine hydrocarbon cold seeps

et al. 2012

View full text Add to dashboard Cite

The short-chain, non-methane hydrocarbons propane and butane can contribute significantly to the carbon and sulfur cycles in marine environments affected by oil or natural gas seepage. In the present study, we enriched and identified novel propane and butane-degrading sulfate reducers from marine oil and gas cold seeps in the Gulf of Mexico and Hydrate Ridge. The enrichment cultures obtained were able to degrade simultaneously propane and butane, but not other gaseous alkanes. They were cold-adapted, showing highest sulfate-reduction rates between 16 and 20 1C. Analysis of 16S rRNA gene libraries, followed by whole-cell hybridizations with sequence-specific oligonucleotide probes showed that each enrichment culture was dominated by a unique phylotype affiliated with the Desulfosarcina-Desulfococcus cluster within the Deltaproteobacteria. These phylotypes formed a distinct phylogenetic cluster of propane and butane degraders, including sequences from environments associated with hydrocarbon seeps. Incubations with 13 C-labeled substrates, hybridizations with sequence-specific probes and nanoSIMS analyses showed that cells of the dominant phylotypes were the first to become enriched in 13 C, demonstrating that they were directly involved in hydrocarbon degradation. Furthermore, using the nanoSIMS data, carbon assimilation rates were calculated for the dominant cells in each enrichment culture.

show abstract

“…Each of these three fluxes would be substantially larger if not for microbial oxidation in the sediments and water column (68). Methane, ethane, and propane are subject to anaerobic oxidation in anoxic sediments and water columns (44,53,68) or to aerobic oxidation in oxic and suboxic water columns and oxygenated surface sediment (10,47,53,80). We focus here on aerobic oxidation.…”

mentioning

confidence: 99%

Identification of Novel Methane-, Ethane-, and Propane-Oxidizing Bacteria at Marine Hydrocarbon Seeps by Stable Isotope Probing

Redmond

Valentine

Sessions

2010

Appl Environ Microbiol

127

116

View full text Add to dashboard Cite

Marine hydrocarbon seeps supply oil and gas to microorganisms in sediments and overlying water. We used stable isotope probing (SIP) to identify aerobic bacteria oxidizing gaseous hydrocarbons in surface sediment from the Coal Oil Point seep field located offshore of Santa Barbara, California. After incubating sediment with 13 C-labeled methane, ethane, or propane, we confirmed the incorporation of 13 C into fatty acids and DNA. Terminal restriction fragment length polymorphism (T-RFLP) analysis and sequencing of the 16S rRNA and particulate methane monooxygenase (pmoA) genes in 13 C-DNA revealed groups of microbes not previously thought to contribute to methane, ethane, or propane oxidation. First, 13 C methane was primarily assimilated by Gammaproteobacteria species from the family Methylococcaceae, Gammaproteobacteria related to Methylophaga, and Betaproteobacteria from the family Methylophilaceae. Species of the latter two genera have not been previously shown to oxidize methane and may have been cross-feeding on methanol, but species of both genera were heavily labeled after just 3 days. pmoA sequences were affiliated with species of Methylococcaceae, but most were not closely related to cultured methanotrophs. Second, 13 C ethane was consumed by members of a novel group of Methylococcaceae. Growth with ethane as the major carbon source has not previously been observed in members of the Methylococcaceae; a highly divergent pmoA-like gene detected in the 13 C-labeled DNA may encode an ethane monooxygenase. Third, 13 C propane was consumed by members of a group of unclassified Gammaproteobacteria species not previously linked to propane oxidation. This study identifies several bacterial lineages as participants in the oxidation of gaseous hydrocarbons in marine seeps and supports the idea of an alternate function for some pmoA-like genes.

show abstract

Differential aerobic and anaerobic oxidation of hydrocarbon gases discharged at mud volcanoes in the Nile deep-sea fan

Cited by 52 publications

References 57 publications

Enhanced Gene Detection Assays for Fumarate-Adding Enzymes Allow Uncovering of Anaerobic Hydrocarbon Degraders in Terrestrial and Marine Systems

Enhanced Gene Detection Assays for Fumarate-Adding Enzymes Allow Uncovering of Anaerobic Hydrocarbon Degraders in Terrestrial and Marine Systems

Anaerobic degradation of propane and butane by sulfate-reducing bacteria enriched from marine hydrocarbon cold seeps

Identification of Novel Methane-, Ethane-, and Propane-Oxidizing Bacteria at Marine Hydrocarbon Seeps by Stable Isotope Probing

Contact Info

Product

Resources

About