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The obscure puffer fish <jats:italic>Takifugu obscurus<\/jats:italic> is an anadromous species that migrates to freshwater from the sea for spawning. Thus the euryhaline characteristics of <jats:italic>T. obscurus<\/jats:italic> have been investigated to gain understanding of their survival ability, osmoregulation, and other homeostatic mechanisms in both freshwater and seawater. In this study, a high quality chromosome\u2010level reference genome for <jats:italic>T. obscurus<\/jats:italic> was constructed using long\u2010read Pacific Biosciences (PacBio) Sequel sequencing and a Hi\u2010C\u2010based chromatin contact map platform. The final genome assembly of <jats:italic>T. obscurus<\/jats:italic> is 381\u00a0Mb, with a contig N50 length of 3,296\u00a0kb and longest length of 10.7\u00a0Mb, from a total of 62\u00a0Gb of raw reads generated using single\u2010molecule real\u2010time sequencing technology from a PacBio Sequel platform. The PacBio data were further clustered into chromosome\u2010scale scaffolds using a Hi\u2010C approach, resulting in a 373\u00a0Mb genome assembly with a contig N50 length of 15.2\u00a0Mb and and longest length of 28\u00a0Mb. When we directly compared the 22 longest scaffolds of <jats:italic>T. obscurus<\/jats:italic> to the 22 chromosomes of the tiger puffer <jats:italic>Takifugu rubripes<\/jats:italic>, a clear one\u2010to\u2010one orthologous relationship was observed between the two species, supporting the chromosome\u2010level assembly of <jats:italic>T. obscurus<\/jats:italic>. This genome assembly can serve as a valuable genetic resource for exploring fugu\u2010specific compact genome characteristics, and will provide essential genomic information for understanding molecular adaptations to salinity fluctuations and the evolution of osmoregulatory mechanisms.<\/jats:p>","DOI":"10.1111\/1755-0998.13132","type":"journal-article","created":{"date-parts":[[2019,12,30]],"date-time":"2019-12-30T16:07:40Z","timestamp":1577722060000},"page":"520-530","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":38,"title":["Chromosomal\u2010level assembly of <i>Takifugu obscurus<\/i> (Abe, 1949) genome using third\u2010generation DNA sequencing and Hi\u2010C analysis"],"prefix":"10.1111","volume":"20","author":[{"given":"Seunghyun","family":"Kang","sequence":"first","affiliation":[{"name":"Unit of Polar Genomics Korea Polar Research Institute (KOPRI) Incheon Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6746-7447","authenticated-orcid":false,"given":"Jin\u2010Hyoung","family":"Kim","sequence":"additional","affiliation":[{"name":"Unit of Polar Genomics Korea Polar Research Institute (KOPRI) Incheon Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Euna","family":"Jo","sequence":"additional","affiliation":[{"name":"Unit of Polar Genomics Korea Polar Research Institute (KOPRI) Incheon Korea"},{"name":"Division of Biotechnology College of Life Sciences and Biotechnology Korea University Seoul Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Seung Jae","family":"Lee","sequence":"additional","affiliation":[{"name":"Division of Biotechnology College of Life Sciences and Biotechnology Korea University Seoul Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jihye","family":"Jung","sequence":"additional","affiliation":[{"name":"Unit of Polar Genomics Korea Polar Research Institute (KOPRI) Incheon Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bo\u2010Mi","family":"Kim","sequence":"additional","affiliation":[{"name":"Unit of Polar Genomics Korea Polar Research Institute (KOPRI) Incheon Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jun Hyuck","family":"Lee","sequence":"additional","affiliation":[{"name":"Unit of Polar Genomics Korea Polar Research Institute (KOPRI) Incheon Korea"},{"name":"Polar Sciences University of Science &amp; Technology Daejeon Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tae\u2010Jin","family":"Oh","sequence":"additional","affiliation":[{"name":"Department of Life Science and Biochemical Engineering SunMoon University Asan Korea"},{"name":"Genome\u2010based BioIT Convergence Institute Asan Korea"},{"name":"Department of Pharmaceutical Engineering and Biotechnology SunMoon University Asan Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Seungshic","family":"Yum","sequence":"additional","affiliation":[{"name":"Risk Assessment Research Center Korea Institute of Ocean Science and Technology (KIOST) Geoje Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jae\u2010Sung","family":"Rhee","sequence":"additional","affiliation":[{"name":"Department of Marine Science College of Natural Sciences Incheon National University Incheon Korea"},{"name":"Research Institute of Basic Sciences Incheon National University Incheon Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8055-2010","authenticated-orcid":false,"given":"Hyun","family":"Park","sequence":"additional","affiliation":[{"name":"Division of Biotechnology College of Life Sciences and Biotechnology Korea University Seoul Korea"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2020,1,24]]},"reference":[{"key":"e_1_2_7_2_1","doi-asserted-by":"publisher","DOI":"10.1007\/s00232-004-0695-6"},{"key":"e_1_2_7_3_1","doi-asserted-by":"publisher","DOI":"10.1126\/science.1072104"},{"key":"e_1_2_7_4_1","doi-asserted-by":"publisher","DOI":"10.3390\/toxins6020693"},{"key":"e_1_2_7_5_1","doi-asserted-by":"publisher","DOI":"10.1101\/gr.88502"},{"key":"e_1_2_7_6_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/27.2.573"},{"key":"e_1_2_7_7_1","doi-asserted-by":"publisher","DOI":"10.1085\/jgp.117.2.181"},{"key":"e_1_2_7_8_1","doi-asserted-by":"publisher","DOI":"10.1534\/genetics.107.075069"},{"key":"e_1_2_7_9_1","doi-asserted-by":"publisher","DOI":"10.1038\/366265a0"},{"key":"e_1_2_7_10_1","doi-asserted-by":"publisher","DOI":"10.1093\/oxfordjournals.molbev.a026334"},{"key":"e_1_2_7_11_1","doi-asserted-by":"publisher","DOI":"10.1093\/gbe\/evv005"},{"key":"e_1_2_7_12_1","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.4035"},{"key":"e_1_2_7_13_1","doi-asserted-by":"publisher","DOI":"10.1007\/s002510000285"},{"key":"e_1_2_7_14_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bti610"},{"key":"e_1_2_7_15_1","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-017-3723-5"},{"key":"e_1_2_7_16_1","first-page":"1","article-title":"Using orthomcl to assign proteins to OrthoMCL\u2010DB groups or to cluster proteomes into new ortholog groups","author":"Fischer S.","year":"2011","journal-title":"Current Protocols in Bioinformatics"},{"key":"e_1_2_7_17_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkq1129"},{"key":"e_1_2_7_18_1","doi-asserted-by":"publisher","DOI":"10.1016\/0092-8674(94)90336-0"},{"key":"e_1_2_7_19_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkn176"},{"key":"e_1_2_7_20_1","doi-asserted-by":"publisher","DOI":"10.1152\/ajpcell.1999.276.1.C210"},{"key":"e_1_2_7_21_1","doi-asserted-by":"publisher","DOI":"10.1093\/molbev\/mst100"},{"key":"e_1_2_7_22_1","volume-title":"Improved pairwise alignment of genomic DNA","author":"Harris R. 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