{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,30]],"date-time":"2026-10-30T17:48:40Z","timestamp":1793382520417,"version":"4.5.0"},"reference-count":38,"publisher":"Oxford University Press (OUP)","issue":"8","license":[{"start":{"date-parts":[[2021,7,18]],"date-time":"2021-07-18T00:00:00Z","timestamp":1626566400000},"content-version":"vor","delay-in-days":22,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000015","name":"US DOE","doi-asserted-by":"publisher","award":["DE-AC02-05CH11231"],"award-info":[{"award-number":["DE-AC02-05CH11231"]}],"id":[{"id":"10.13039\/100000015","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,8,7]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Aspergillus flavus is an opportunistic pathogen of crops, including peanuts and maize, and is the second leading cause of aspergillosis in immunocompromised patients. A. flavus is also a major producer of the mycotoxin, aflatoxin, a potent carcinogen, which results in significant crop losses annually. The A. flavus isolate NRRL 3357 was originally isolated from peanut and has been used as a model organism for understanding the regulation and production of secondary metabolites, such as aflatoxin. A draft genome of NRRL 3357 was previously constructed, enabling the development of molecular tools and for understanding population biology of this particular species. Here, we describe an updated, near complete, telomere-to-telomere assembly and re-annotation of the eight chromosomes of A. flavus NRRL 3357 genome, accomplished via long-read PacBio and Oxford Nanopore technologies combined with Illumina short-read sequencing. A total of 13,715 protein-coding genes were predicted. Using RNA-seq data, a significant improvement was achieved in predicted 5\u2019 and 3\u2019 untranslated regions, which were incorporated into the new gene models.<\/jats:p>","DOI":"10.1093\/g3journal\/jkab213","type":"journal-article","created":{"date-parts":[[2021,7,18]],"date-time":"2021-07-18T20:10:45Z","timestamp":1626639045000},"source":"Crossref","is-referenced-by-count":37,"title":["Chromosome assembled and annotated genome sequence of <i>Aspergillus flavus<\/i> NRRL 3357"],"prefix":"10.1093","volume":"11","author":[{"given":"Jeffrey M","family":"Skerker","sequence":"first","affiliation":[{"name":"Innovative Genomics Institute, University of California, Berkeley, Berkeley, CA 94720, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kaila M","family":"Pianalto","sequence":"additional","affiliation":[{"name":"Innovative Genomics Institute, University of California, Berkeley, Berkeley, CA 94720, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Stephen J","family":"Mondo","sequence":"additional","affiliation":[{"name":"The U.S. Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA"},{"name":"Department of Agricultural Biology, Colorado State University, Fort Collins, CO 80523, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kunlong","family":"Yang","sequence":"additional","affiliation":[{"name":"Department of Medical Microbiology & Immunology and Bacteriology, University of Wisconsin, Madison, WI 53706, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Adam P","family":"Arkin","sequence":"additional","affiliation":[{"name":"Innovative Genomics Institute, University of California, Berkeley, Berkeley, CA 94720, USA"},{"name":"Department of Bioengineering, University of California, Berkeley, Berkeley, CA 94720, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nancy P","family":"Keller","sequence":"additional","affiliation":[{"name":"Department of Medical Microbiology & Immunology and Bacteriology, University of Wisconsin, Madison, WI 53706, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Igor V","family":"Grigoriev","sequence":"additional","affiliation":[{"name":"The U.S. Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA"},{"name":"Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA 94720, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"N Louise","family":"Glass","sequence":"additional","affiliation":[{"name":"Innovative Genomics Institute, University of California, Berkeley, Berkeley, CA 94720, USA"},{"name":"Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley, CA 94720, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2021,6,26]]},"reference":[{"key":"2022012601280059400_jkab213-B1","doi-asserted-by":"crossref","first-page":"107","DOI":"10.1146\/annurev-phyto-072910-095221","article-title":"Aspergillus flavus","volume":"49","author":"Amaike","year":"2011","journal-title":"Annu Rev Phytopathol"},{"key":"2022012601280059400_jkab213-B2","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1016\/j.fgb.2014.02.008","article-title":"Molecular mechanisms of Aspergillus flavus secondary metabolism and development","volume":"66","author":"Amare","year":"2014","journal-title":"Fungal Genet Biol"},{"key":"2022012601280059400_jkab213-B3","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1186\/s13100-015-0041-9","article-title":"Repbase Update, a database of repetitive elements in eukaryotic genomes","volume":"6","author":"Bao","year":"2015","journal-title":"Mob 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