{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,10]],"date-time":"2026-09-10T00:05:04Z","timestamp":1788998704920,"version":"build-2803163510"},"reference-count":49,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2024,2,21]],"date-time":"2024-02-21T00:00:00Z","timestamp":1708473600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["82003906"],"award-info":[{"award-number":["82003906"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"abstract":"<jats:p>\n                    The challenge of discriminating closely related species persists, notably within clinical diagnostic laboratories for invasive aspergillosis (IA)-related species and food contamination microorganisms with toxin-producing potential. We employed Analysis of the whole-GEnome (AGE) to address the challenges of closely related species within the genus\n                    <jats:italic>Aspergillus<\/jats:italic>\n                    and developed a rapid detection method. First, reliable whole genome data for 77\n                    <jats:italic>Aspergillus<\/jats:italic>\n                    species were downloaded from the database, and through bioinformatic analysis, specific targets for each species were identified. Subsequently, sequencing was employed to validate these specific targets. Additionally, we developed an on-site detection method targeting a specific target using a genome editing system. Our results indicate that AGE has successfully achieved reliable identification of all IA-related species (\n                    <jats:italic>Aspergillus fumigatus, Aspergillus niger, Aspergillus nidulans, Aspergillus flavus<\/jats:italic>\n                    , and\n                    <jats:italic>Aspergillus terreus<\/jats:italic>\n                    ) and three well-known species (\n                    <jats:italic>A. flavus, Aspergillus parasiticus<\/jats:italic>\n                    , and\n                    <jats:italic>Aspergillus oryzae<\/jats:italic>\n                    ) within the\n                    <jats:italic>Aspergillus<\/jats:italic>\n                    section.\n                    <jats:italic>Flavi<\/jats:italic>\n                    and AGE have provided species-level-specific targets for 77 species within the genus\n                    <jats:italic>Aspergillus<\/jats:italic>\n                    . Based on these reference targets, the sequencing results targeting specific targets substantiate the efficacy of distinguishing the focal species from its closely related species. Notably, the amalgamation of room-temperature amplification and genome editing techniques demonstrates the capacity for rapid and accurate identification of genomic DNA samples at a concentration as low as 0.1 ng\/\u03bcl within a concise 30-min timeframe. Importantly, this methodology circumvents the reliance on large specialized instrumentation by presenting a singular tube operational modality and allowing for visualized result assessment. These advancements aptly meet the exigencies of on-site detection requirements for the specified species, facilitating prompt diagnosis and food quality monitoring. Moreover, as an identification method based on species-specific genomic sequences, AGE shows promising potential as an effective tool for epidemiological research and species classification.\n                  <\/jats:p>","DOI":"10.3389\/fmicb.2024.1323572","type":"journal-article","created":{"date-parts":[[2024,2,21]],"date-time":"2024-02-21T00:41:51Z","timestamp":1708476111000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":15,"title":["Identification of closely related species in Aspergillus through Analysis of Whole-Genome"],"prefix":"10.3389","volume":"15","author":[{"given":"Guihong","family":"Qi","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lijun","family":"Hao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yutong","family":"Gan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tianyi","family":"Xin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qian","family":"Lou","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Wenjie","family":"Xu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jingyuan","family":"Song","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2024,2,21]]},"reference":[{"key":"B1","doi-asserted-by":"publisher","first-page":"173","DOI":"10.1186\/s40168-018-0550-0","article-title":"Genomes from uncultivated prokaryotes: a comparison of metagenome-assembled and single-amplified genomes","volume":"6","author":"Alneberg","year":"2018","journal-title":"Microbiome"},{"key":"B2","doi-asserted-by":"publisher","first-page":"151716","DOI":"10.1016\/j.scitotenv.2021.151716","article-title":"A systematic review of outdoor airborne fungal spore seasonality across Europe and the implications for health","volume":"818","author":"Anees-Hill","year":"2022","journal-title":"Sci. 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