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| Main Authors: | , , |
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| Format: | Artículo científico |
| Language: | en |
| Published: |
mBio
2025
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| Subjects: | |
| Online Access: | https://pubmed.ncbi.nlm.nih.gov/40387408/ |
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| _version_ | 1868266201733398529 |
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| author | Rahimlou, Saleh Amend, Anthony S James, Timothy Y |
| author_facet | Rahimlou, Saleh Amend, Anthony S James, Timothy Y Rahimlou, Saleh Amend, Anthony S James, Timothy Y |
| collection | PubMed - marine biology |
| contents | in environmental studies is derived from human inputs. Rahimlou, Saleh Amend, Anthony S James, Timothy Y Malassezia Humans Metagenomics Phylogeny Metagenome Environmental Microbiology Animals Genome, Fungal Seawater The fungus is the most prevalent member of the human skin mycobiota, known for its lipid dependence and inability to synthesize long-chain fatty acids. exhibits remarkable niche breadth, inhabiting soils, dust, as well as various marine environments from polar regions to deep-sea vents. The consistent presence of in marine habitats, including those associated with marine animals, suggests that the fungus is able to grow and play a fundamental role in marine ecosystems. In this study, we explored metagenomic sequences from the Sequence Read Archive database to investigate the presence, distribution, and origins of species within marine ecosystems, with the goal of assembling genomes. Using various search methods, we found that up to 10% of the shotgun and amplicon data sets analyzed contained sequences. However, the relative abundance of in each data set was low, and there was a strong correlation between human and sequences in marine environments, consistent with contamination. From the most -rich data sets, we attempted to generate metagenome-assembled genomes. However, contigs together showed low genome completeness levels, with a maximum of 2.2% in a sample. Phylogenetic analysis identified the contigs as closely related to human-associated and , along with and , which were the most prevalent species across all studied environments. Our data suggest that many observations of in the environment are derived from human sources and that widespread contamination confounds the exploration of diversity and ecological role in the marine environment. is the singular fungus most associated with humans. It colonizes mammalian skin and requires host-derived fatty acids to grow. Widespread sequencing of environmental DNA surprisingly showed that is also ubiquitous outside of mammalian hosts. is frequently found in marine habitats where it is associated with corals, deep sea vents, diatoms, and more. Given its widespread presence, we reasoned that public metagenomic data could be used to assemble a genome sequence of an uncultured marine . However, we found that was ubiquitous but never abundant in marine samples and that the few metagenomes we could assemble were consistent with recent human introduction. We also found that the presence of human DNA in sequencing data sets is strongly correlated with the presence of DNA, and while not ruling out the growth and survival of in marine habitats, they suggest widespread contamination of public data with . |
| format | Artículo científico |
| id | pubmed_40387408 |
| institution | PubMed |
| language | en |
| publishDate | 2025 |
| publisher | mBio |
| record_format | pubmed |
| spellingShingle | in environmental studies is derived from human inputs. Rahimlou, Saleh Amend, Anthony S James, Timothy Y Malassezia Humans Metagenomics Phylogeny Metagenome Environmental Microbiology Animals Genome, Fungal Seawater in environmental studies is derived from human inputs. Rahimlou, Saleh Amend, Anthony S James, Timothy Y Malassezia Humans Metagenomics Phylogeny Metagenome Environmental Microbiology Animals Genome, Fungal Seawater The fungus is the most prevalent member of the human skin mycobiota, known for its lipid dependence and inability to synthesize long-chain fatty acids. exhibits remarkable niche breadth, inhabiting soils, dust, as well as various marine environments from polar regions to deep-sea vents. The consistent presence of in marine habitats, including those associated with marine animals, suggests that the fungus is able to grow and play a fundamental role in marine ecosystems. In this study, we explored metagenomic sequences from the Sequence Read Archive database to investigate the presence, distribution, and origins of species within marine ecosystems, with the goal of assembling genomes. Using various search methods, we found that up to 10% of the shotgun and amplicon data sets analyzed contained sequences. However, the relative abundance of in each data set was low, and there was a strong correlation between human and sequences in marine environments, consistent with contamination. From the most -rich data sets, we attempted to generate metagenome-assembled genomes. However, contigs together showed low genome completeness levels, with a maximum of 2.2% in a sample. Phylogenetic analysis identified the contigs as closely related to human-associated and , along with and , which were the most prevalent species across all studied environments. Our data suggest that many observations of in the environment are derived from human sources and that widespread contamination confounds the exploration of diversity and ecological role in the marine environment. is the singular fungus most associated with humans. It colonizes mammalian skin and requires host-derived fatty acids to grow. Widespread sequencing of environmental DNA surprisingly showed that is also ubiquitous outside of mammalian hosts. is frequently found in marine habitats where it is associated with corals, deep sea vents, diatoms, and more. Given its widespread presence, we reasoned that public metagenomic data could be used to assemble a genome sequence of an uncultured marine . However, we found that was ubiquitous but never abundant in marine samples and that the few metagenomes we could assemble were consistent with recent human introduction. We also found that the presence of human DNA in sequencing data sets is strongly correlated with the presence of DNA, and while not ruling out the growth and survival of in marine habitats, they suggest widespread contamination of public data with . |
| title | in environmental studies is derived from human inputs. |
| topic | Malassezia Humans Metagenomics Phylogeny Metagenome Environmental Microbiology Animals Genome, Fungal Seawater |
| url | https://pubmed.ncbi.nlm.nih.gov/40387408/ |