{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,9]],"date-time":"2026-09-09T21:20:16Z","timestamp":1788988816840,"version":"build-2803163510"},"reference-count":91,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2023,8,17]],"date-time":"2023-08-17T00:00:00Z","timestamp":1692230400000},"content-version":"vor","delay-in-days":228,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Natural Sciences and Engineering Research Council of Canada (NSERC)\/Manitoba Hydro Industrial Research Chair"},{"DOI":"10.13039\/501100000038","name":"Natural Sciences and Engineering Research Council of Canada","doi-asserted-by":"publisher","award":["05348 05479"],"award-info":[{"award-number":["05348 05479"]}],"id":[{"id":"10.13039\/501100000038","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Natural Sciences and Engineering Research Council of Canada (NSERC)\/Manitoba Hydro Industrial Research Chair"},{"DOI":"10.13039\/501100000038","name":"Natural Sciences and Engineering Research Council of Canada","doi-asserted-by":"publisher","award":["05348 05479"],"award-info":[{"award-number":["05348 05479"]}],"id":[{"id":"10.13039\/501100000038","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,8,17]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>The lake sturgeon (Acipenser fulvescens) is an ancient, octoploid fish faced with conservation challenges across its range in North America, but a lack of genomic resources has hindered molecular research in the species. To support such research, we created a transcriptomic database from 13 tissues: brain, esophagus, gill, head kidney, heart, white muscle, liver, glandular stomach, muscular stomach, anterior intestine, pyloric cecum, spiral valve and rectum. The transcriptomes for each tissue were sequenced and assembled individually from a mean of 98.3 million (\u00b138.9 million SD) reads each. In addition, an overall transcriptome was assembled and annotated with all data used for each tissue-specific transcriptome. All assembled transcriptomes and their annotations were made publicly available as a scientific resource. The non-gut transcriptomes provide important resources for many research avenues. However, we focused our analysis on messenger ribonucleic acid (mRNA) observations in the gut because the gut represents a compartmentalized organ system with compartmentalized functions, and seven of the sequenced tissues were from each of these portions. These gut-specific analyses were used to probe evidence of microbiome regulation by studying heterogeneity in microbial genes and genera identified from mRNA annotations. Gene set enrichment analyses were used to reveal the presence of photoperiod and circadian-related transcripts in the pyloric cecum, which may support periodicity in lake sturgeon digestion. Similar analyses were used to identify different types of innate immune regulation across the gut, while analyses of unique transcripts annotated to microbes revealed heterogeneous genera and genes among different gut tissues. The present results provide a scientific resource and information about the mechanisms of compartmentalized function across gut tissues in a phylogenetically ancient vertebrate.<\/jats:p><jats:p>Database URL: https:\/\/figshare.com\/projects\/Lake_Sturgeon_Transcriptomes\/133143<\/jats:p>","DOI":"10.1093\/database\/baad055","type":"journal-article","created":{"date-parts":[[2023,8,17]],"date-time":"2023-08-17T16:54:11Z","timestamp":1692291251000},"source":"Crossref","is-referenced-by-count":7,"title":["Tissue-specific transcriptomes reveal potential mechanisms of\u00a0microbiome heterogeneity in\u00a0an ancient fish"],"prefix":"10.1093","volume":"2023","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7870-3369","authenticated-orcid":false,"given":"Matt J","family":"Thorstensen","sequence":"first","affiliation":[{"name":"Department of Biological Sciences, University of Manitoba , 212B Biological Sciences Building, 50 Sifton Road, Winnipeg, MB R3T 2N2, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alyssa M","family":"Weinrauch","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, University of Manitoba , 212B Biological Sciences Building, 50 Sifton Road, Winnipeg, MB R3T 2N2, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"William S","family":"Bugg","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, University of Manitoba , 212B Biological Sciences Building, 50 Sifton Road, Winnipeg, MB R3T 2N2, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ken M","family":"Jeffries","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, University of Manitoba , 212B Biological Sciences Building, 50 Sifton Road, Winnipeg, MB R3T 2N2, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"W Gary","family":"Anderson","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, University of Manitoba , 212B Biological Sciences Building, 50 Sifton Road, Winnipeg, MB R3T 2N2, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2023,8,17]]},"reference":[{"key":"2023081715175673800_R1","doi-asserted-by":"crossref","first-page":"742","DOI":"10.1139\/g04-028","article-title":"Karyotype characterization of\u00a0the lake sturgeon, Acipenser fulvescens (Rafinesque 1817) by chromosome banding and\u00a0fluorescent in\u00a0situ hybridization","volume":"47","author":"Fontana","year":"2004","journal-title":"Genome"},{"key":"2023081715175673800_R2","doi-asserted-by":"crossref","first-page":"337","DOI":"10.1111\/j.1439-0426.2006.00814.x","article-title":"Development and\u00a0standardization of\u00a0disomic microsatellite markers for\u00a0lake sturgeon genetic studies","volume":"22","author":"Welsh","year":"2006","journal-title":"J. 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