{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,2]],"date-time":"2026-06-02T06:14:30Z","timestamp":1780380870584,"version":"3.54.1"},"reference-count":45,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2019,10,18]],"date-time":"2019-10-18T00:00:00Z","timestamp":1571356800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Institut Fran\u00e7ais de Bioinformatique","award":["ANR-11-INSB-0013"],"award-info":[{"award-number":["ANR-11-INSB-0013"]}]},{"DOI":"10.13039\/501100004794","name":"CNRS","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100004794","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"abstract":"<jats:title>Abstract<\/jats:title><jats:p>In Archaea and Bacteria, the arrays called CRISPRs for \u2018clustered regularly interspaced short palindromic repeats\u2019 and the CRISPR associated genes or cas provide adaptive immunity against viruses, plasmids and transposable elements. Short sequences called spacers, corresponding to fragments of invading DNA, are stored in-between repeated sequences. The CRISPR\u2013Cas systems target sequences homologous to spacers leading to their degradation. To facilitate investigations of CRISPRs, we developed 12 years ago a website holding the CRISPRdb. We now propose CRISPRCasdb, a completely new version giving access to both CRISPRs and cas genes. We used CRISPRCasFinder, a program that identifies CRISPR arrays and cas\u00a0genes and determine the system's type and subtype, to process public whole genome assemblies. Strains are displayed either in an alphabetic list or in taxonomic order. The database is part of the CRISPR-Cas++ website which also offers the possibility to analyse submitted sequences and to download programs. A BLAST search against lists of repeats and spacers extracted from the database is proposed. To date, 16 990 complete prokaryote genomes (16 650 bacteria from 2973 species and 340 archaea from 300 species) are included. CRISPR\u2013Cas systems were found in 36% of Bacteria and 75% of Archaea strains. CRISPRCasdb is freely accessible at https:\/\/crisprcas.i2bc.paris-saclay.fr\/.<\/jats:p>","DOI":"10.1093\/nar\/gkz915","type":"journal-article","created":{"date-parts":[[2019,10,4]],"date-time":"2019-10-04T19:31:26Z","timestamp":1570217486000},"source":"Crossref","is-referenced-by-count":79,"title":["CRISPRCasdb a successor of CRISPRdb containing CRISPR arrays and cas genes from complete genome sequences, and tools to download and query lists of repeats and spacers"],"prefix":"10.1093","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-8951-466X","authenticated-orcid":false,"given":"Christine","family":"Pourcel","sequence":"first","affiliation":[{"name":"Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Universit\u00e9 Paris-Saclay, 91198 Gif-sur-Yvette, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marie","family":"Touchon","sequence":"additional","affiliation":[{"name":"Microbial Evolutionary Genomics, Institut Pasteur, 25\u201328 rue du Docteur Roux, 75015\u00a0Paris, France"},{"name":"CNRS, UMR3525, 25\u201328 rue du Docteur Roux, 75015\u00a0Paris, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nicolas","family":"Villeriot","sequence":"additional","affiliation":[{"name":"Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Universit\u00e9 Paris-Saclay, 91198 Gif-sur-Yvette, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jean-Philippe","family":"Vernadet","sequence":"additional","affiliation":[{"name":"Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Universit\u00e9 Paris-Saclay, 91198 Gif-sur-Yvette, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David","family":"Couvin","sequence":"additional","affiliation":[{"name":"Unit\u00e9 Transmission, R\u00e9servoir et Diversit\u00e9 des Pathog\u00e8nes, Institut Pasteur de Guadeloupe, 97139 Les Abymes, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Claire","family":"Toffano-Nioche","sequence":"additional","affiliation":[{"name":"Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Universit\u00e9 Paris-Saclay, 91198 Gif-sur-Yvette, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gilles","family":"Vergnaud","sequence":"additional","affiliation":[{"name":"Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. 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