{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,18]],"date-time":"2026-03-18T03:21:17Z","timestamp":1773804077598,"version":"3.50.1"},"reference-count":27,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2021,10,28]],"date-time":"2021-10-28T00:00:00Z","timestamp":1635379200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["AT008718"],"award-info":[{"award-number":["AT008718"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["GM124461"],"award-info":[{"award-number":["GM124461"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000038","name":"Natural Sciences and Engineering Research Council of Canada","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000038","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Programa de Innovaci\u00f3n y Capital Humano para la Competitividad"},{"DOI":"10.13039\/501100006473","name":"Ministry of Science, Technology and Telecommunications of Costa Rica","doi-asserted-by":"crossref","award":["2-1-4-17-1-037"],"award-info":[{"award-number":["2-1-4-17-1-037"]}],"id":[{"id":"10.13039\/501100006473","id-type":"DOI","asserted-by":"crossref"}]},{"name":"Industrial Biotechnology Innovation Centre"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,1,7]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Within the natural products field there is an increasing emphasis on the study of compounds from microbial sources. This has been fuelled by interest in the central role that microorganisms play in mediating both interspecies interactions and host-microbe relationships. To support the study of natural products chemistry produced by microorganisms we released the Natural Products Atlas, a database of known microbial natural products structures, in 2019. This paper reports the release of a new version of the database which includes a full RESTful application programming interface (API), a new website framework, and an expanded database that includes 8128 new compounds, bringing the total to 32 552. In addition to these structural and content changes we have added full taxonomic descriptions for all microbial taxa and have added chemical ontology terms from both NP Classifier and ClassyFire. We have also performed manual curation to review all entries with incomplete configurational assignments and have integrated data from external resources, including CyanoMetDB. Finally, we have improved the user experience by updating the Overview dashboard and creating a dashboard for taxonomic origin. The database can be accessed via the new interactive website at https:\/\/www.npatlas.org.<\/jats:p>","DOI":"10.1093\/nar\/gkab941","type":"journal-article","created":{"date-parts":[[2021,10,4]],"date-time":"2021-10-04T18:07:36Z","timestamp":1633370856000},"page":"D1317-D1323","source":"Crossref","is-referenced-by-count":263,"title":["The Natural Products Atlas 2.0: a database of microbially-derived natural products"],"prefix":"10.1093","volume":"50","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5424-804X","authenticated-orcid":false,"given":"Jeffrey A","family":"van\u00a0Santen","sequence":"first","affiliation":[{"name":"Department of Chemistry, Simon Fraser University, Burnaby, British Columbia\u00a0V5A 1S6, Canada"}]},{"given":"Ella F","family":"Poynton","sequence":"additional","affiliation":[{"name":"Department of Chemistry, Simon Fraser University, Burnaby, British Columbia\u00a0V5A 1S6, Canada"}]},{"given":"Dasha","family":"Iskakova","sequence":"additional","affiliation":[{"name":"Department of Chemistry, Simon Fraser University, Burnaby, British Columbia\u00a0V5A 1S6, Canada"}]},{"given":"Emily","family":"McMann","sequence":"additional","affiliation":[{"name":"Department of Chemistry, Simon Fraser University, Burnaby, British Columbia\u00a0V5A 1S6, Canada"}]},{"given":"Tyler\u00a0A","family":"Alsup","sequence":"additional","affiliation":[{"name":"Department of Chemistry, University of Florida, Gainesville, FL\u00a032611, USA"}]},{"given":"Trevor N","family":"Clark","sequence":"additional","affiliation":[{"name":"Department of Chemistry, Simon Fraser University, Burnaby, British Columbia\u00a0V5A 1S6, Canada"}]},{"given":"Claire H","family":"Fergusson","sequence":"additional","affiliation":[{"name":"Department of Chemistry, Simon Fraser University, Burnaby, British Columbia\u00a0V5A 1S6, Canada"}]},{"given":"David P","family":"Fewer","sequence":"additional","affiliation":[{"name":"Department of Microbiology, University of Helsinki, 00014 Helsinki, Finland"}]},{"given":"Alison H","family":"Hughes","sequence":"additional","affiliation":[{"name":"Strathclyde Institute of Pharmacy and Biomedical Science, University of Strathclyde, Glasgow\u00a0G4 0RE, UK"}]},{"given":"Caitlin A","family":"McCadden","sequence":"additional","affiliation":[{"name":"Department of Chemistry, University of Florida, Gainesville, FL\u00a032611, USA"}]},{"given":"Jonathan","family":"Parra","sequence":"additional","affiliation":[{"name":"Strathclyde Institute of Pharmacy and Biomedical Science, University of Strathclyde, Glasgow\u00a0G4 0RE, UK"}]},{"given":"Sylvia","family":"Soldatou","sequence":"additional","affiliation":[{"name":"Marine Biodiscovery Centre, Department of Chemistry, University of Aberdeen, Aberdeen\u00a0AB24 3UE, UK"}]},{"given":"Jeffrey D","family":"Rudolf","sequence":"additional","affiliation":[{"name":"Department of Chemistry, University of Florida, Gainesville, FL\u00a032611, USA"}]},{"given":"Elisabeth M-L","family":"Janssen","sequence":"additional","affiliation":[{"name":"Department of Environmental Chemistry, Swiss Federal Institute of Aquatic Science and Technology (Eawag), 8600 Duebendorf, Switzerland"}]},{"given":"Katherine R","family":"Duncan","sequence":"additional","affiliation":[{"name":"Strathclyde Institute of Pharmacy and Biomedical Science, University of Strathclyde, Glasgow\u00a0G4 0RE, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1818-4971","authenticated-orcid":false,"given":"Roger G","family":"Linington","sequence":"additional","affiliation":[{"name":"Department of Chemistry, Simon Fraser University, Burnaby, British Columbia\u00a0V5A 1S6, Canada"}]}],"member":"286","published-online":{"date-parts":[[2021,10,28]]},"reference":[{"key":"2022010507365596600_B1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s13321-020-00478-9","article-title":"COCONUT online: Collection of Open Natural Products database","volume":"13","author":"Sorokina","year":"2021","journal-title":"J. Cheminform."},{"key":"2022010507365596600_B2","doi-asserted-by":"crossref","DOI":"10.1101\/2021.02.28.433265","article-title":"The LOTUS initiative for open natural products research: knowledge management through Wikidata","author":"Rutz","year":"2021"},{"key":"2022010507365596600_B3","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1093\/jimb\/kuab017","article-title":"Effective approaches to discover new microbial metabolites in a large strain library","volume":"48","author":"Zdouc","year":"2021","journal-title":"J. Ind. Microbiol. Biotechnol."},{"key":"2022010507365596600_B4","doi-asserted-by":"crossref","first-page":"4114","DOI":"10.1021\/jacs.9b13786","article-title":"A convolutional neural network-based approach for the rapid annotation of molecularly diverse natural products","volume":"142","author":"Reher","year":"2020","journal-title":"J. Am. Chem. 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