Quantitative CrAssphage real‐time PCR assay derived from data of multiple geographically distant populations
After its computational inference from human stool metagenomes, the CrAssphage has proven to be the most prevalent phage in the human gut, with presumably very wide geographic distribution. The currently available molecular assays do not sufficiently reflect the CrAssphage sequence variability. Here...
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| Published in | Journal of medical virology Vol. 90; no. 4; pp. 767 - 771 |
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| Main Authors | , , , , , , , , , , , |
| Format | Journal Article |
| Language | English |
| Published |
United States
Wiley Subscription Services, Inc
01.04.2018
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| Subjects | |
| Online Access | Get full text |
| ISSN | 0146-6615 1096-9071 1096-9071 |
| DOI | 10.1002/jmv.25012 |
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| Abstract | After its computational inference from human stool metagenomes, the CrAssphage has proven to be the most prevalent phage in the human gut, with presumably very wide geographic distribution. The currently available molecular assays do not sufficiently reflect the CrAssphage sequence variability. Here, we report a novel real‐time PCR assay whose primers and probes are derived from data of multiple CrAssphage strains obtained from gut viral metagenomes of European, Asian, and African subjects. This assay can be useful in analyses of putative bacterial host co‐occurence, and in association studies of non‐infectious diseases where the phage may modify the content of gut bacteriomes. |
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| AbstractList | After its computational inference from human stool metagenomes, the CrAssphage has proven to be the most prevalent phage in the human gut, with presumably very wide geographic distribution. The currently available molecular assays do not sufficiently reflect the CrAssphage sequence variability. Here, we report a novel real‐time PCR assay whose primers and probes are derived from data of multiple CrAssphage strains obtained from gut viral metagenomes of European, Asian, and African subjects. This assay can be useful in analyses of putative bacterial host co‐occurence, and in association studies of non‐infectious diseases where the phage may modify the content of gut bacteriomes. After its computational inference from human stool metagenomes, the CrAssphage has proven to be the most prevalent phage in the human gut, with presumably very wide geographic distribution. The currently available molecular assays do not sufficiently reflect the CrAssphage sequence variability. Here, we report a novel real-time PCR assay whose primers and probes are derived from data of multiple CrAssphage strains obtained from gut viral metagenomes of European, Asian, and African subjects. This assay can be useful in analyses of putative bacterial host co-occurence, and in association studies of non-infectious diseases where the phage may modify the content of gut bacteriomes.After its computational inference from human stool metagenomes, the CrAssphage has proven to be the most prevalent phage in the human gut, with presumably very wide geographic distribution. The currently available molecular assays do not sufficiently reflect the CrAssphage sequence variability. Here, we report a novel real-time PCR assay whose primers and probes are derived from data of multiple CrAssphage strains obtained from gut viral metagenomes of European, Asian, and African subjects. This assay can be useful in analyses of putative bacterial host co-occurence, and in association studies of non-infectious diseases where the phage may modify the content of gut bacteriomes. |
| Author | Ibekwe, MaryAnn U. Kramna, Lenka Abdullah, Mohammed A. Rainetova, Petra Cinek, Ondrej Ahmadov, Gunduz Hyöty, Heikki Alassaf, Abeer Odeh, Rasha Mazankova, Karla Elmahi, Bashir M. E. Mekki, Hanan |
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| Cites_doi | 10.1038/ncomms5498 10.2337/dc14-2490 10.4161/21597081.2014.979664 10.1111/pedi.12468 10.1002/jmv.24974 10.1111/1751-7915.12841 10.1017/S095026881600176X 10.1021/acs.est.7b02703 |
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| References_xml | – volume: 4 start-page: e979664 year: 2014 article-title: Metagenomic ventures into outer sequence space publication-title: Bacteriophage – volume: 90 start-page: 464 year: 2018 end-page: 468 article-title: Development and application of a real‐time polymerase chain reaction assay for detection of a novel gut bacteriophage (crAssphage) publication-title: J Med Virol – volume: 144 start-page: 3549 year: 2016 end-page: 3553 article-title: CrAssphage is not associated with diarrhoea and has high genetic diversity publication-title: Epidemiol Infect – volume: 10 start-page: 1775 year: 2017 end-page: 1780 article-title: Determination of crAssphage in water samples and applicability for tracking human faecal pollution publication-title: Microb Biotechnol – volume: 18 start-page: 588 year: 2017 end-page: 598 article-title: Imbalance of bacteriome profiles within the Finnish Diabetes Prediction and Prevention study: parallel use of 16S profiling and virome sequencing in stool samples from children with islet autoimmunity and matched controls publication-title: Pediatr Diabetes – volume: 5 start-page: 4498 year: 2014 article-title: A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes publication-title: Nat Commun – volume: 38 start-page: 930 year: 2015 end-page: 933 article-title: Gut virome sequencing in children with early islet autoimmunity publication-title: Diabetes Care – volume: 51 start-page: 9146 year: 2017 end-page: 9154 article-title: Quantitative CrAssphage PCR assays for human fecal pollution measurement publication-title: Environ Sci Technol – ident: e_1_2_7_3_1 doi: 10.1038/ncomms5498 – ident: e_1_2_7_5_1 doi: 10.2337/dc14-2490 – ident: e_1_2_7_2_1 doi: 10.4161/21597081.2014.979664 – ident: e_1_2_7_4_1 doi: 10.1111/pedi.12468 – ident: e_1_2_7_7_1 doi: 10.1002/jmv.24974 – ident: e_1_2_7_8_1 doi: 10.1111/1751-7915.12841 – ident: e_1_2_7_9_1 doi: 10.1017/S095026881600176X – ident: e_1_2_7_6_1 doi: 10.1021/acs.est.7b02703 |
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| Title | Quantitative CrAssphage real‐time PCR assay derived from data of multiple geographically distant populations |
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