{"data":{"id":"10.7272/q6fx77px","type":"dois","attributes":{"doi":"10.7272/q6fx77px","prefix":"10.7272","suffix":"q6fx77px","identifiers":[],"alternateIdentifiers":[],"creators":[{"name":"Bisanz, Jordan E.","nameType":"Personal","givenName":"Jordan E.","familyName":"Bisanz","affiliation":["University of California, San Francisco"],"nameIdentifiers":[{"schemeUri":"https://orcid.org","nameIdentifier":"https://orcid.org/0000-0002-8649-1706","nameIdentifierScheme":"ORCID"}]},{"name":"Soto-Perez, Paola","nameType":"Personal","givenName":"Paola","familyName":"Soto-Perez","affiliation":["University of California, San Francisco"],"nameIdentifiers":[]},{"name":"Berry, Joel D.","nameType":"Personal","givenName":"Joel D.","familyName":"Berry","affiliation":["University of California, San Francisco"],"nameIdentifiers":[]},{"name":"Lam, Kathy N.","nameType":"Personal","givenName":"Kathy N.","familyName":"Lam","affiliation":["University of California, San Francisco"],"nameIdentifiers":[]},{"name":"Bondy-Denomy, Joseph","nameType":"Personal","givenName":"Joseph","familyName":"Bondy-Denomy","affiliation":["University of California, San Francisco"],"nameIdentifiers":[]},{"name":"Turnbaugh, Peter J.","nameType":"Personal","givenName":"Peter J.","familyName":"Turnbaugh","affiliation":["University of California, San Francisco"],"nameIdentifiers":[]}],"titles":[{"title":"CRISPR-Cas system of a prevalent human gut bacterium reveals hyper-targeting against phages in a human virome catalog"}],"publisher":"Dryad","container":{},"publicationYear":2021,"subjects":[{"subject":"FOS: Basic medicine","schemeUri":"https://web-archive.oecd.org/2012-06-15/138575-38235147.pdf","subjectScheme":"fos"},{"subject":"FOS: Basic medicine","schemeUri":"http://www.oecd.org/science/inno/38235147.pdf","subjectScheme":"Fields of Science and Technology (FOS)"}],"contributors":[],"dates":[{"date":"2021-02-22T17:11:08Z","dateType":"Submitted"},{"date":"2021-02-26T00:00:00Z","dateType":"Issued"},{"date":"2021-02-26T00:00:00Z","dateType":"Available"}],"language":"en","types":{"ris":"DATA","bibtex":"misc","citeproc":"dataset","schemaOrg":"Dataset","resourceType":"dataset","resourceTypeGeneral":"Dataset"},"relatedIdentifiers":[{"relationType":"IsCitedBy","relatedIdentifier":"10.1016/j.chom.2019.08.008","relatedIdentifierType":"DOI"}],"relatedItems":[],"sizes":["6458136157 bytes"],"formats":[],"version":"2","rightsList":[{"rights":"Creative Commons Zero v1.0 Universal","rightsUri":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","schemeUri":"https://spdx.org/licenses/","rightsIdentifier":"cc0-1.0","rightsIdentifierScheme":"SPDX"}],"descriptions":[{"description":"Bacteriophages are abundant within the human gastrointestinal tract, yet\n their interactions with gut bacteria remain poorly understood,\n particularly with respect to CRISPR-Cas immunity. Here, we show that the\n type I-C CRISPR-Cas system in the prevalent gut\n Actinobacterium Eggerthella lenta is transcribed and\n sufficient for specific targeting of foreign and chromosomal DNA.\n Comparative analyses of E. lenta CRISPR-Cas\n systems across (meta)genomes revealed 2 distinct clades according\n to cas sequence similarity and spacer content. We\n assembled a human virome database (HuVirDB), encompassing 1,831 samples\n enriched for viral DNA, to identify protospacers. This revealed matches\n for a majority of spacers, a marked increase over other databases, and\n uncovered “hyper-targeted” phage sequences containing multiple\n protospacers targeted by\n several E. lenta strains. Finally, we\n determined the positional mismatch tolerance of observed\n spacer-protospacer pairs. This work emphasizes the utility of merging\n computational and experimental approaches for determining the function and\n targets of CRISPR-Cas systems.","descriptionType":"Abstract"},{"description":"This dataset is a the result of collecting and assembling human\n metagenomic virome sequencing for the purposes of meta-analysis.","descriptionType":"Methods"},{"description":"All scaffolds are identified by their SampleID with metadata\n available at the associated github\n repository: https://github.com/jbisanz/HuVirDB.","descriptionType":"Other"}],"geoLocations":[],"fundingReferences":[],"xml":"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