ArticleThe ISME journal2012
One millimetre makes the difference: high-resolution analysis of methane-oxidizing bacteria and their specific activity at the oxic-anoxic interface in a flooded paddy soil.
Article in The ISME journal, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers, 1 of them a synthesis that pooled it.
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Who cites it
52 citing papers in PubMed, 1 synthesis or guideline pooled it, 161 citations in OpenAlex.
- Effects of Water and Fertilizer Management Practices on Methane Emissions from Paddy Soils: Synthesis and Perspective.International journal of environmental research and public health · 2022Pooled it
- Article
- Uncovering hidden phylo- and ecogenomic diversity of the widespread methanotrophic genus Methylobacter.FEMS microbiology ecology · 2026Article
- Salinization alters microbial methane cycling in freshwater sediments.Environmental microbiome · 2025Article
- Genetic dissection of root traits in a rice 'global MAGIC' population for candidate traits to breed for reduced methane emission.Frontiers in plant science · 2025Article
- Straw type governs methane-cycling microbiomes and CHFrontiers in microbiology · 2025Article
- Methanobactins: Structures, Biosynthesis, and Microbial Diversity.Annual review of microbiology · 2024Review
- Metabolic versatility of aerobic methane-oxidizing bacteria under anoxia in aquatic ecosystems.Environmental microbiology reports · 2024Review
- Nitrous oxide respiration in acidophilic methanotrophs.Nature communications · 2024Article
- Resilience of aerobic methanotrophs in soils; spotlight on the methane sink under agriculture.FEMS microbiology ecology · 2024Article
- Linking methanotroph phenotypes to genotypes using a simple spatially resolved model ecosystem.The ISME journal · 2024Article
- Type-specific quantification of particulate methane monooxygenase gene of methane-oxidizing bacteria at the oxic-anoxic interface of a surface paddy soil by digital PCR.Environmental microbiology reports · 2023Article
- Asparagine Uptake: a Cellular Strategy ofApplied and environmental microbiology · 2023Article
- Interkingdom interaction: the soil isopod Porcellio scaber stimulates the methane-driven bacterial and fungal interaction.ISME communications · 2023Article
- Aerobic Methanotrophy and Co-occurrence Networks of a Tropical Rainforest and Oil Palm Plantations in Malaysia.Microbial ecology · 2022Article
- Microbial community structure is stratified at the millimeter-scale across the soil-water interface.ISME communications · 2022Article
- RNA Biomarker Trends across Type I and Type II Aerobic Methanotrophs in Response to Methane Oxidation Rates and Transcriptome Response to Short-Term Methane and Oxygen Limitation in Methylomicrobium album BG8.Microbiology spectrum · 2022Article
- The methane-driven interaction network in terrestrial methane hotspots.Environmental microbiome · 2022Article
- Trends in Microbial Community Composition and Function by Soil Depth.Microorganisms · 2022Review
- Methane-dependent selenate reduction by a bacterial consortium.The ISME journal · 2021Article
Corrections and comments
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Authors and funding
5 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Aerobic methane-oxidizing bacteria (MOB) use a restricted substrate range, yet >30 species-equivalent operational taxonomical units (OTUs) are found in one paddy soil. How these OTUs physically share their microhabitat is unknown. Here we highly resolved the vertical distribution of MOB and their activity. Using microcosms and cryosectioning, we sub-sampled the top 3-mm of a water-saturated soil at near in situ conditions in 100-μm steps. We assessed the community structure and activity using the particulate methane monooxygenase gene pmoA as a functional and phylogenetic marker by terminal restriction fragment length polymorphism (t-RFLP), a pmoA-specific diagnostic microarray, and cloning and sequencing. pmoA genes and transcripts were quantified using competitive reverse transcriptase PCR combined with t-RFLP. Only a subset of the methanotroph community was active. Oxygen microprofiles showed that 89% of total respiration was confined to a 0.67-mm-thick zone immediately above the oxic-anoxic interface, most probably driven by methane oxidation. In this zone, a Methylobacter-affiliated OTU was highly active with up to 18 pmoA transcripts per cell and seemed to be adapted to oxygen and methane concentrations in the micromolar range. Analysis of transcripts with a pmoA-specific microarray found a Methylosarcina-affiliated OTU associated with the surface zone. High oxygen but only nanomolar methane concentrations at the surface suggested an adaptation of this OTU to oligotrophic conditions. No transcripts of type II methanotrophs (Methylosinus, Methylocystis) were found, which indicated that this group was represented by resting stages only. Hence, different OTUs within a single guild shared the same microenvironment and exploited different niches.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.