Solving genomic puzzles: computational methods for metagenomic binning

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dc.contributor.authorMallawaarachchi, V.
dc.contributor.authorWickramarachchi, A.
dc.contributor.authorXue, H.
dc.contributor.authorPapudeshi, B.
dc.contributor.authorGrigson, S.R.
dc.contributor.authorBouras, G.
dc.contributor.authorPrahl, R.E.
dc.contributor.authorKaphle, A.
dc.contributor.authorVerich, A.
dc.contributor.authorTalamantes-Becerra, B.
dc.contributor.authorDinsdale, E.A.
dc.contributor.authorEdwards, R.A.
dc.date.issued2024
dc.description.abstractMetagenomics involves the study of genetic material obtained directly from communities of microorganisms living in natural environments. The field of metagenomics has provided valuable insights into the structure, diversity and ecology of microbial communities. Once an environmental sample is sequenced and processed, metagenomic binning clusters the sequences into bins representing different taxonomic groups such as species, genera, or higher levels. Several computational tools have been developed to automate the process of metagenomic binning. These tools have enabled the recovery of novel draft genomes of microorganisms allowing us to study their behaviors and functions within microbial communities. This review classifies and analyzes different approaches of metagenomic binning and different refinement, visualization, and evaluation techniques used by these methods. Furthermore, the review highlights the current challenges and areas of improvement present within the field of research.
dc.description.statementofresponsibilityVijini Mallawaarachchi, Anuradha Wickramarachchi, Hansheng Xue, Bhavya Papudeshi, Susanna R Grigson, George Bouras, Rosa E Prahl, Anubhav Kaphle, Andrey Verich, Berenice Talamantes-Becerra, Elizabeth A Dinsdale, Robert A Edwards
dc.identifier.citationBriefings in Bioinformatics, 2024; 25(5):bbae372-1-bbae372-17
dc.identifier.doi10.1093/bib/bbae372
dc.identifier.issn1467-5463
dc.identifier.issn1467-5463
dc.identifier.orcidBouras, G. [0000-0002-5885-4186]
dc.identifier.urihttps://hdl.handle.net/2440/143152
dc.language.isoen
dc.publisherOxford University Press
dc.relation.granthttp://purl.org/au-research/grants/arc/DP220102915
dc.rights© The Author(s) 2024. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (https://creativecommons.org/ licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
dc.source.urihttps://doi.org/10.1093/bib/bbae372
dc.subjectbioinformatics
dc.subjectmetagenomic binning
dc.subjectmetagenomics
dc.subjectmicroorganisms
dc.subject.meshComputational Biology
dc.subject.meshGenomics
dc.subject.meshAlgorithms
dc.subject.meshMetagenome
dc.subject.meshMetagenomics
dc.titleSolving genomic puzzles: computational methods for metagenomic binning
dc.typeJournal article
pubs.publication-statusPublished

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