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© Research
Publication : Methods in molecular biology (Clifton, N.J.)

Metagenomes Binning Using Proximity-Ligation Data.

Scientific Fields
Diseases
Organisms
Applications
Technique

Published in Methods in molecular biology (Clifton, N.J.) - 01 Jan 2022

Marbouty M, Koszul R,

Link to Pubmed [PMID] – 34415535

Link to DOI – 10.1007/978-1-0716-1390-0_8

Methods Mol Biol 2022 ; 2301(): 163-181

Microbial communities are key components of all ecosystems, but characterization of their complete genomic structure remains challenging. Typical analysis tends to elude the complexity of the mixes in terms of species, strains, as well as extrachromosomal DNA molecules. Recently, approaches have been developed that bins DNA contigs into individual genomes and episomes according to their 3D contact frequencies. Those contacts are quantified by chromosome conformation capture experiments (3C, Hi-C), also known as proximity-ligation approaches, applied to metagenomics samples. Here, we present a simple computational pipeline that allows to recover high-quality Metagenomics Assemble Genomes (MAGs) starting from metagenomic 3C or Hi-C datasets and a metagenome assembly.

https://pubmed.ncbi.nlm.nih.gov/34415535