ArticleNature communications2017
MetaSort untangles metagenome assembly by reducing microbial community complexity.
Article in Nature communications, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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Who cites it
37 citing papers in PubMed.
- Long-read metagenomics for strain tracking after faecal microbiota transplant.Nature microbiology · 2025Article
- Long read metagenomics-based precise tracking of bacterial strains and genomic changes after fecal microbiota transplantation.bioRxiv : the preprint server for biology · 2025Article
- Genome-resolved metagenomics from short-read sequencing data in the era of artificial intelligence.Functional & integrative genomics · 2025Review
- Single-cell delineation of the microbiota-gut-brain axis: Probiotic intervention in Chd8 haploinsufficient mice.Cell genomics · 2025Article
- Whole genome sequencing of a novel carrageenan-degrading bacteriumFrontiers in microbiology · 2025Article
- Using reinforcement learning in genome assembly: in-depth analysis of a Q-learning assembler.Frontiers in bioinformatics · 2025Article
- mEnrich-seq: methylation-guided enrichment sequencing of bacterial taxa of interest from microbiome.Nature methods · 2024Article
- Constructing metagenome-assembled genomes for almost all components in a real bacterial consortium for binning benchmarking.BMC genomics · 2022Article
- Metagenomic Sequencing for Microbial DNA in Human Samples: Emerging Technological Advances.International journal of molecular sciences · 2022Review
- Music of metagenomics-a review of its applications, analysis pipeline, and associated tools.Functional & integrative genomics · 2022Review
- A practical guide to amplicon and metagenomic analysis of microbiome data.Protein & cell · 2021Review
- One cell at a time: droplet-based microbial cultivation, screening and sequencing.Marine life science & technology · 2021Review
- Recovery of complete genomes and non-chromosomal replicons from activated sludge enrichment microbial communities with long read metagenome sequencing.NPJ biofilms and microbiomes · 2021Article
- High-throughput cultivation and identification of bacteria from the plant root microbiota.Nature protocols · 2021Article
- A new metagenome binning method based on gene uniqueness.Genes & genomics · 2020Article
- PlasGUN: gene prediction in plasmid metagenomic short reads using deep learning.Bioinformatics (Oxford, England) · 2020Article
- Computational Methods for Strain-Level Microbial Detection in Colony and Metagenome Sequencing Data.Frontiers in microbiology · 2020Review
- Interpretation of differential gene expression results of RNA-seq data: review and integration.Briefings in bioinformatics · 2019Review
- Current and Promising Approaches to Identify Horizontal Gene Transfer Events in Metagenomes.Genome biology and evolution · 2019Review
- An integrated respiratory microbial gene catalogue to better understand the microbial aetiology of Mycoplasma pneumoniae pneumonia.GigaScience · 2019Article
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Most current approaches to analyse metagenomic data rely on reference genomes. Novel microbial communities extend far beyond the coverage of reference databases and de novo metagenome assembly from complex microbial communities remains a great challenge. Here we present a novel experimental and bioinformatic framework, metaSort, for effective construction of bacterial genomes from metagenomic samples. MetaSort provides a sorted mini-metagenome approach based on flow cytometry and single-cell sequencing methodologies, and employs new computational algorithms to efficiently recover high-quality genomes from the sorted mini-metagenome by the complementary of the original metagenome. Through extensive evaluations, we demonstrated that metaSort has an excellent and unbiased performance on genome recovery and assembly. Furthermore, we applied metaSort to an unexplored microflora colonized on the surface of marine kelp and successfully recovered 75 high-quality genomes at one time. This approach will greatly improve access to microbial genomes from complex or novel communities.
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