ArticleThe ISME journal2015
SIP metagenomics identifies uncultivated Methylophilaceae as dimethylsulphide degrading bacteria in soil and lake sediment.
Article in The ISME journal, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed, 79 citations in OpenAlex.
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- A genomic view of Earth's biomes.Nature reviews. Genetics · 2026Review
- Succession of Particle-Attached and Free-Living Microbial Communities in Response to the Degradation of Algal Organic Matter in Lake Taihu, China.Environmental microbiology reports · 2025Article
- Methanomethylovorans are the dominant dimethylsulfide-degrading methanogens in gravel and sandy river sediment microcosms.Environmental microbiome · 2024Article
- Genome-resolved metagenomics identifies novel active microbes in biogeochemical cycling within methanol-enriched soil.Environmental microbiology reports · 2024Article
- Exploring the Impact of Coconut Peat and Vermiculite on the Rhizosphere Microbiome of Pre-Basic Seed Potatoes under Soilless Cultivation Conditions.Microorganisms · 2024Article
- DNA-, RNA-, and Protein-Based Stable-Isotope Probing for High-Throughput Biomarker Analysis of Active Microorganisms.Methods in molecular biology (Clifton, N.J.) · 2023Article
- HT-SIP: a semi-automated stable isotope probing pipeline identifies cross-kingdom interactions in the hyphosphere of arbuscular mycorrhizal fungi.Microbiome · 2022Article
- Microorganisms associated withFrontiers in microbiology · 2022Article
- Depth-dependent variability of biological nitrogen fixation and diazotrophic communities in mangrove sediments.Microbiome · 2021Article
- Functional genome-centric view of the CO-driven anaerobic microbiome.The ISME journal · 2021Article
- Holocene life and microbiome profiling in ancient tropical Lake Chalco, Mexico.Scientific reports · 2021Article
- Evidence for signatures of ancient microbial life in paleosols.Scientific reports · 2020Article
- Next-generation physiology approaches to study microbiome function at single cell level.Nature reviews. Microbiology · 2020Review
- DNA-Stable Isotope Probing Shotgun Metagenomics Reveals the Resilience of Active Microbial Communities to Biochar Amendment in Oxisol Soil.Frontiers in microbiology · 2020Article
- Improved metagenomic analysis with Kraken 2.Genome biology · 2019Article
- Comparative Characterization of Bacterial Communities in Moss-Covered and Unvegetated Volcanic Deposits of Mount Merapi, Indonesia.Microbes and environments · 2019Article
- A new family of uncultivated bacteria involved in methanogenesis from the ubiquitous osmolyte glycine betaine in coastal saltmarsh sediments.Microbiome · 2019Article
- Consistency in microbiomes in cultures of Alexandrium species isolated from brackish and marine waters.Environmental microbiology reports · 2019Article
- Deltaproteobacteria (Pelobacter) and Methanococcoides are responsible for choline-dependent methanogenesis in a coastal saltmarsh sediment.The ISME journal · 2019Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Dimethylsulphide (DMS) has an important role in the global sulphur cycle and atmospheric chemistry. Microorganisms using DMS as sole carbon, sulphur or energy source, contribute to the cycling of DMS in a wide variety of ecosystems. The diversity of microbial populations degrading DMS in terrestrial environments is poorly understood. Based on cultivation studies, a wide range of bacteria isolated from terrestrial ecosystems were shown to be able to degrade DMS, yet it remains unknown whether any of these have important roles in situ. In this study, we identified bacteria using DMS as a carbon and energy source in terrestrial environments, an agricultural soil and a lake sediment, by DNA stable isotope probing (SIP). Microbial communities involved in DMS degradation were analysed by denaturing gradient gel electrophoresis, high-throughput sequencing of SIP gradient fractions and metagenomic sequencing of phi29-amplified community DNA. Labelling patterns of time course SIP experiments identified members of the Methylophilaceae family, not previously implicated in DMS degradation, as dominant DMS-degrading populations in soil and lake sediment. Thiobacillus spp. were also detected in (13)C-DNA from SIP incubations. Metagenomic sequencing also suggested involvement of Methylophilaceae in DMS degradation and further indicated shifts in the functional profile of the DMS-assimilating communities in line with methylotrophy and oxidation of inorganic sulphur compounds. Overall, these data suggest that unlike in the marine environment where gammaproteobacterial populations were identified by SIP as DMS degraders, betaproteobacterial Methylophilaceae may have a key role in DMS cycling in terrestrial environments.
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