ArticleThe ISME journal2018
Genome-resolved metagenomics identifies genetic mobility, metabolic interactions, and unexpected diversity in perchlorate-reducing communities.
Article in The ISME journal, 2018. 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
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
25 citing papers in PubMed, 70 citations in OpenAlex.
- Sarand: exploring antimicrobial resistance gene neighbourhoods in complex metagenomic assembly graphs.NAR genomics and bioinformatics · 2026Article
- Independently evolved extracellular electron transfer pathways in ecologically diverse Desulfobacterota.The ISME journal · 2025Article
- The horizontal gene transfer of perchlorate reduction genomic island in three bacteria from an ecological niche.Applied microbiology and biotechnology · 2024Article
- Comparative genomic analysis and characterization of novel high-quality draft genomes from the coal metagenome.World journal of microbiology & biotechnology · 2024Article
- Solving genomic puzzles: computational methods for metagenomic binning.Briefings in bioinformatics · 2024Review
- Metagenomic profiling of halites from the Atacama Desert: an extreme environment with natural perchlorate does not promote high diversity of perchlorate reducing microorganisms.Extremophiles : life under extreme conditions · 2024Article
- BASALT refines binning from metagenomic data and increases resolution of genome-resolved metagenomic analysis.Nature communications · 2024Article
- Characterization of metagenome-assembled genomes from the International Space Station.Microbiome · 2023Article
- Trait biases in microbial reference genomes.Scientific data · 2023Article
- Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes.FEMS microbiology letters · 2023Article
- Chlorine redox chemistry is widespread in microbiology.The ISME journal · 2023Article
- Methionine oxidation under anaerobic conditions in Escherichia coli.Molecular microbiology · 2022Article
- Article
- Genetic and phylogenetic analysis of dissimilatory iodate-reducing bacteria identifies potential niches across the world's oceans.The ISME journal · 2022Article
- Transcriptional response to prolonged perchlorate exposure in the methanogen Methanosarcina barkeri and implications for Martian habitability.Scientific reports · 2021Article
- Improving metagenomic binning results with overlapped bins using assembly graphs.Algorithms for molecular biology : AMB · 2021Article
- SPAligner: alignment of long diverged molecular sequences to assembly graphs.BMC bioinformatics · 2020Article
- Exploring neighborhoods in large metagenome assembly graphs using spacegraphcats reveals hidden sequence diversity.Genome biology · 2020Article
- Identification of a parasitic symbiosis between respiratory metabolisms in the biogeochemical chlorine cycle.The ISME journal · 2020Article
- A Multiplex Immunosensor for Detecting Perchlorate-Reducing Bacteria for Environmental Monitoring and Planetary Exploration.Frontiers in microbiology · 2020Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 1 institution in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Dissimilatory perchlorate reduction is an anaerobic respiratory pathway that in communities might be influenced by metabolic interactions. Because the genes for perchlorate reduction are horizontally transferred, previous studies have been unable to identify uncultivated perchlorate-reducing populations. Here we recovered metagenome-assembled genomes from perchlorate-reducing sediment enrichments and employed a manual scaffolding approach to reconstruct gene clusters for perchlorate reduction found within mobile genetic elements. De novo assembly and binning of four enriched communities yielded 48 total draft genomes. In addition to canonical perchlorate reduction gene clusters and taxa, a new type of gene cluster with an alternative perchlorate reductase was identified. Phylogenetic analysis indicated past exchange between these gene clusters, and the presence of plasmids with either gene cluster shows that the potential for gene transfer via plasmid persisted throughout enrichment. However, a majority of genomes in each community lacked perchlorate reduction genes. Putative chlorate-reducing or sulfur-reducing populations were dominant in most communities, supporting the hypothesis that metabolic interactions might result from perchlorate reduction intermediates and byproducts. Other populations included a novel phylum-level lineage (Ca. Muirbacteria) and epibiotic prokaryotes with no known role in perchlorate reduction. These results reveal unexpected genetic diversity, suggest that perchlorate-reducing communities involve substantial metabolic interactions, and encourage expanded strategies to further understand the evolution and ecology of this metabolism.
Indexed as
Identifiers
What OpenQuestion holds
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.