ArticleFrontiers in microbiology2016
Fungi Contribute Critical but Spatially Varying Roles in Nitrogen and Carbon Cycling in Acid Mine Drainage.
Article in Frontiers in microbiology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
25 citing papers in PubMed, 69 citations in OpenAlex.
- Composition and the predicted functions of fungal communities and the key drivers in acidic soils of Jiaodong Peninsula, China.Frontiers in microbiology · 2024Article
- Comparative genomics of the extremophileFrontiers in fungal biology · 2024Article
- Eukaryotic Community Structure and Interspecific Interactions in a Stratified Acidic Pit Lake Water in Anhui Province.Microorganisms · 2023Article
- Identification and Characterization of the Determinants of Copper Resistance in the Acidophilic FungusApplied and environmental microbiology · 2023Article
- Microbial diversity in extreme environments.Nature reviews. Microbiology · 2022Review
- Metabolomic Profile of the FungusFrontiers in microbiology · 2022Article
- Increased abundance of secreted hydrolytic enzymes and secondary metabolite gene clusters define the genomes of latent plant pathogens in the Botryosphaeriaceae.BMC genomics · 2021Article
- Genomic reconstruction of fossil and living microorganisms in ancient Siberian permafrost.Microbiome · 2021Article
- Physiological, Genomic and Transcriptomic Analyses Reveal the Adaptation Mechanisms ofFrontiers in microbiology · 2021Article
- Biofilm and planktonic microbial communities in highly acidic soil (pH < 3) in the Soos National Nature Reserve, Czech Republic.Extremophiles : life under extreme conditions · 2020Article
- Acid Mine Drainage as Habitats for Distinct Microbiomes: Current Knowledge in the Era of Molecular and Omic Technologies.Current microbiology · 2020Review
- Community Composition of Nitrite Reductase Gene Sequences in an Acid Mine Drainage Environment.Microbial ecology · 2020Article
- Accurate and complete genomes from metagenomes.Genome research · 2020Review
- The genome of opportunistic fungal pathogen Fusarium oxysporum carries a unique set of lineage-specific chromosomes.Communications biology · 2020Article
- Article
- Plant Genotype Influences Physicochemical Properties of Substrate as Well as Bacterial and Fungal Assemblages in the Rhizosphere of Balsam Poplar.Frontiers in microbiology · 2020Article
- Fungi, a neglected component of acidophilic biofilms: do they have a potential for biotechnology?Extremophiles : life under extreme conditions · 2019Review
- New insights on unspecific peroxygenases: superfamily reclassification and evolution.BMC evolutionary biology · 2019Article
- Genome-scale data resolve ancestral rock-inhabiting lifestyle in Dothideomycetes (Ascomycota).IMA fungus · 2019Article
- Hiding in plain sight: New virus genomes discovered via a systematic analysis of fungal public transcriptomes.PloS one · 2019Article
Corrections and comments
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Authors and funding
16 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The ecosystem roles of fungi have been extensively studied by targeting one organism and/or biological process at a time, but the full metabolic potential of fungi has rarely been captured in an environmental context. We hypothesized that fungal genome sequences could be assembled directly from the environment using metagenomics and that transcriptomics and proteomics could simultaneously reveal metabolic differentiation across habitats. We reconstructed the near-complete 27 Mbp genome of a filamentous fungus, Acidomyces richmondensis, and evaluated transcript and protein expression in floating and streamer biofilms from an acid mine drainage (AMD) system. A. richmondensis transcripts involved in denitrification and in the degradation of complex carbon sources (including cellulose) were up-regulated in floating biofilms, whereas central carbon metabolism and stress-related transcripts were significantly up-regulated in streamer biofilms. These findings suggest that the biofilm niches are distinguished by distinct carbon and nitrogen resource utilization, oxygen availability, and environmental challenges. An isolated A. richmondensis strain from this environment was used to validate the metagenomics-derived genome and confirm nitrous oxide production at pH 1. Overall, our analyses defined mechanisms of fungal adaptation and identified a functional shift related to different roles in carbon and nitrogen turnover for the same species of fungi growing in closely located but distinct biofilm 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.