ArticleMicrobiome2019
Annotated bacterial chromosomes from frame-shift-corrected long-read metagenomic data.
Article in Microbiome, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
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Who cites it
45 citing papers in PubMed.
- Article
- MMonitor for real-time monitoring of microbial communities using long reads.Cell reports methods · 2026Article
- Comparative transcription profiles ofFrontiers in microbiology · 2025Article
- Integrated genomics provides insights into the evolution of the polyphosphate accumulation trait ofEnvironmental science and ecotechnology · 2024Article
- Two new clades recovered at high temperatures provide novel phylogenetic and genomic insights intoISME communications · 2024Article
- Sensitive and error-tolerant annotation of protein-coding DNA with BATH.Bioinformatics advances · 2024Article
- Sensitive and error-tolerant annotation of protein-coding DNA with BATH.bioRxiv : the preprint server for biology · 2024Article
- Host interactions of novelMicrobial genomics · 2023Article
- Host interactions of novelbioRxiv : the preprint server for biology · 2023Article
- Roving methyltransferases generate a mosaic epigenetic landscape and influence evolution in Bacteroides fragilis group.Nature communications · 2023Article
- Strategies and tools in illumina and nanopore-integrated metagenomic analysis of microbiome data.iMeta · 2023Review
- Evaluation of taxonomic classification and profiling methods for long-read shotgun metagenomic sequencing datasets.BMC bioinformatics · 2022Article
- Hybrid metagenome assemblies link carbohydrate structure with function in the human gut microbiome.Communications biology · 2022Article
- Systematic whole-genome sequencing reveals an unexpected diversity among actinomycetoma pathogens and provides insights into their antibacterial susceptibilities.PLoS neglected tropical diseases · 2022Article
- Oxford Nanopore R10.4 long-read sequencing enables the generation of near-finished bacterial genomes from pure cultures and metagenomes without short-read or reference polishing.Nature methods · 2022Article
- High molecular weight DNA extraction strategies for long-read sequencing of complex metagenomes.Molecular ecology resources · 2022Article
- Article
- Novel canine high-quality metagenome-assembled genomes, prophages and host-associated plasmids provided by long-read metagenomics together with Hi-C proximity ligation.Microbial genomics · 2022Article
- BugSplit enables genome-resolved metagenomics through highly accurate taxonomic binning of metagenomic assemblies.Communications biology · 2022Article
- Using AnnoTree to Get More Assignments, Faster, in DIAMOND+MEGAN Microbiome Analysis.mSystems · 2022Article
Corrections and comments
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundShort-read sequencing technologies have long been the work-horse of microbiome analysis. Continuing technological advances are making the application of long-read sequencing to metagenomic samples increasingly feasible.
resultsWe demonstrate that whole bacterial chromosomes can be obtained from an enriched community, by application of MinION sequencing to a sample from an EBPR bioreactor, producing 6 Gb of sequence that assembles into multiple closed bacterial chromosomes. We provide a simple pipeline for processing such data, which includes a new approach to correcting erroneous frame-shifts.
conclusionsAdvances in long-read sequencing technology and corresponding algorithms will allow the routine extraction of whole chromosomes from environmental samples, providing a more detailed picture of individual members of a microbiome.
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