WIsH: who is the host? Predicting prokaryotic hosts from metagenomic phage contigs
WIsH predicts prokaryotic hosts of phages from their genomic sequences. It achieves 63% mean accuracy when predicting the host genus among 20 genera for 3 kbp-long phage contigs. Over the best current tool, WisH shows much improved accuracy on phage sequences of a few kbp length and runs hundreds of...
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| Vydáno v: | Bioinformatics (Oxford, England) Ročník 33; číslo 19; s. 3113 - 3114 |
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| Hlavní autoři: | , , , , |
| Médium: | Journal Article |
| Jazyk: | angličtina |
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England
Oxford University Press (OUP)
01.10.2017
Oxford University Press |
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| ISSN: | 1367-4803, 1367-4811, 1367-4811 |
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| Abstract | WIsH predicts prokaryotic hosts of phages from their genomic sequences. It achieves 63% mean accuracy when predicting the host genus among 20 genera for 3 kbp-long phage contigs. Over the best current tool, WisH shows much improved accuracy on phage sequences of a few kbp length and runs hundreds of times faster, making it suited for metagenomics studies.
OpenMP-parallelized GPL-licensed C ++ code available at https://github.com/soedinglab/wish.
clovis.galiez@mpibpc.mpg.de or soeding@mpibpc.mpg.de.
Supplementary data are available at Bioinformatics online. |
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| AbstractList | WIsH predicts prokaryotic hosts of phages from their genomic sequences. It achieves 63% mean accuracy when predicting the host genus among 20 genera for 3 kbp-long phage contigs. Over the best current tool, WisH shows much improved accuracy on phage sequences of a few kbp length and runs hundreds of times faster, making it suited for metagenomics studies.SUMMARYWIsH predicts prokaryotic hosts of phages from their genomic sequences. It achieves 63% mean accuracy when predicting the host genus among 20 genera for 3 kbp-long phage contigs. Over the best current tool, WisH shows much improved accuracy on phage sequences of a few kbp length and runs hundreds of times faster, making it suited for metagenomics studies.OpenMP-parallelized GPL-licensed C ++ code available at https://github.com/soedinglab/wish.AVAILABILITY AND IMPLEMENTATIONOpenMP-parallelized GPL-licensed C ++ code available at https://github.com/soedinglab/wish.clovis.galiez@mpibpc.mpg.de or soeding@mpibpc.mpg.de.CONTACTclovis.galiez@mpibpc.mpg.de or soeding@mpibpc.mpg.de.Supplementary data are available at Bioinformatics online.SUPPLEMENTARY INFORMATIONSupplementary data are available at Bioinformatics online. WIsH predicts prokaryotic hosts of phages from their genomic sequences. It achieves 63% mean accuracy when predicting the host genus among 20 genera for 3 kbp-long phage contigs. Over the best current tool, WisH shows much improved accuracy on phage sequences of a few kbp length and runs hundreds of times faster, making it suited for metagenomics studies. OpenMP-parallelized GPL-licensed C ++ code available at https://github.com/soedinglab/wish. clovis.galiez@mpibpc.mpg.de or soeding@mpibpc.mpg.de. Supplementary data are available at Bioinformatics online. |
| Author | Siebert, Matthias Galiez, Clovis Vincent, Jonathan Söding, Johannes Enault, François |
| AuthorAffiliation | 1 Quantitative and Computational Biology Group, Max-Planck Institute for Biophysical Chemistry, 37077 Göttingen, Germany 2 Université Clermont Auvergne, CNRS, LMGE, Clermont-Ferrand, France |
| AuthorAffiliation_xml | – name: 2 Université Clermont Auvergne, CNRS, LMGE, Clermont-Ferrand, France – name: 1 Quantitative and Computational Biology Group, Max-Planck Institute for Biophysical Chemistry, 37077 Göttingen, Germany |
| Author_xml | – sequence: 1 givenname: Clovis surname: Galiez fullname: Galiez, Clovis – sequence: 2 givenname: Matthias surname: Siebert fullname: Siebert, Matthias – sequence: 3 givenname: François surname: Enault fullname: Enault, François – sequence: 4 givenname: Jonathan surname: Vincent fullname: Vincent, Jonathan – sequence: 5 givenname: Johannes surname: Söding fullname: Söding, Johannes |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/28957499$$D View this record in MEDLINE/PubMed https://hal.science/hal-02088265$$DView record in HAL |
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| Cites_doi | 10.3389/fmicb.2014.00714 10.1093/nar/gkw1002 10.1038/nature19094 10.1038/nrmicro1163 10.3389/fcimb.2014.00039 10.1093/nar/gku1207 10.1038/nrmicro1750 10.1016/j.cub.2014.07.046 10.1038/nrmicro3330 10.1093/nar/gkw1092 10.1038/ismej.2016.89 10.3390/v8050116 10.1093/femsre/fuv048 |
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| References | Bolduc (2023020206472456000_btx383-B2) 2016; 11 De Paepe (2023020206472456000_btx383-B4) 2014; 4 Ahlgren (2023020206472456000_btx383-B1) 2016; 45 Edwards (2023020206472456000_btx383-B5) 2016; 40 Lehahn (2023020206472456000_btx383-B8) 2014; 24 Edwards (2023020206472456000_btx383-B6) 2005; 3 Paez-Espino (2023020206472456000_btx383-B9) 2016; 536 Brister (2023020206472456000_btx383-B3) 2015; 43(D1) Smits (2023020206472456000_btx383-B10) 2014; 5 Villarroel (2023020206472456000_btx383-B12) 2016; 8 Kanehisa (2023020206472456000_btx383-B7) 2017; 45(D1) Yarza (2023020206472456000_btx383-B13) 2014; 12 Suttle (2023020206472456000_btx383-B11) 2007; 5 |
| References_xml | – volume: 5 start-page: 714. year: 2014 ident: 2023020206472456000_btx383-B10 article-title: Assembly of viral genomes from metagenomes publication-title: Front. Microbiol doi: 10.3389/fmicb.2014.00714 – volume: 45 start-page: 39 year: 2016 ident: 2023020206472456000_btx383-B1 article-title: Alignment-free d2* oligonucleotide frequency dissimilarity measure improves prediction of hosts from metagenomically-derived viral sequences publication-title: Nucleic Acids Res doi: 10.1093/nar/gkw1002 – volume: 536 start-page: 425 year: 2016 ident: 2023020206472456000_btx383-B9 article-title: Uncovering earth14.virome publication-title: Nature doi: 10.1038/nature19094 – volume: 3 start-page: 504 year: 2005 ident: 2023020206472456000_btx383-B6 article-title: Viral metagenomics publication-title: Nat. Rev. Microbiol doi: 10.1038/nrmicro1163 – volume: 4 start-page: 39. year: 2014 ident: 2023020206472456000_btx383-B4 article-title: Bacteriophages: an underestimated role in human and animal health? publication-title: Front. Cell. Infect. Microbiol doi: 10.3389/fcimb.2014.00039 – volume: 43(D1) start-page: D571 year: 2015 ident: 2023020206472456000_btx383-B3 article-title: Ncbi viral genomes resource publication-title: Nucleic Acids Res doi: 10.1093/nar/gku1207 – volume: 5 start-page: 801 year: 2007 ident: 2023020206472456000_btx383-B11 article-title: Marine viruses - major players in the global ecosystem publication-title: Nat. Rev. Microbiol doi: 10.1038/nrmicro1750 – volume: 24 start-page: 2041 year: 2014 ident: 2023020206472456000_btx383-B8 article-title: Decoupling physical from biological processes to assess the impact of viruses on a mesoscale algal bloom publication-title: Curr. Biol doi: 10.1016/j.cub.2014.07.046 – volume: 12 start-page: 635 year: 2014 ident: 2023020206472456000_btx383-B13 article-title: Uniting the classification of cultured and uncultured bacteria and archaea using 16s rrna gene sequences publication-title: Nat. Rev. Microbiol doi: 10.1038/nrmicro3330 – volume: 45(D1) start-page: D353 year: 2017 ident: 2023020206472456000_btx383-B7 article-title: Kegg: new perspectives on genomes, pathways, diseases and drugs publication-title: Nucleic Acids Res doi: 10.1093/nar/gkw1092 – volume: 11 start-page: 7 year: 2016 ident: 2023020206472456000_btx383-B2 article-title: ivirus: facilitating new insights in viral ecology with software and community data sets imbedded in a cyberinfrastructure publication-title: ISME J doi: 10.1038/ismej.2016.89 – volume: 8 start-page: 116. year: 2016 ident: 2023020206472456000_btx383-B12 article-title: Hostphinder: a phage host prediction tool publication-title: Viruses doi: 10.3390/v8050116 – volume: 40 start-page: 258 year: 2016 ident: 2023020206472456000_btx383-B5 article-title: Computational approaches to predict bacteriophage–host relationships publication-title: FEMS Microbiol. Rev doi: 10.1093/femsre/fuv048 |
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| SubjectTerms | Applications Notes Archaea - virology Artificial Intelligence Bacteria - virology Bacteriology Bacteriophages - genetics Biodiversity and Ecology Computer Science Contig Mapping Environmental Sciences Genetics Global Changes Life Sciences Machine Learning Metagenomics - methods Microbiology and Parasitology Populations and Evolution Protistology Software |
| Title | WIsH: who is the host? Predicting prokaryotic hosts from metagenomic phage contigs |
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