Genome sequence data availability
for the Japanese Red Lists
Updated on 2025-03-03
This page shows only entries from the "Brackish and freshwater fishes" Red List section. This table is also available in TSV format.
This page shows only entries from the "Brackish and freshwater fishes" Red List section. This table is also available in TSV format.
| Conservation Status in the Japanese Red List | Taxon Name 分類群の和名 | Status in the IUCN Red List | Taxonomy entry | Genome sequenced and assembled? (number of assemblies) | Selected assembly | Number of sequenced genomes ゲノムの数 | Number of species with sequenced genomes | Earliest sequenced genome release date | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| NCBI | iNat | GBIF | COL | Assembly level, RefSeq category | Genome length, coverage | Number of contigs, contig N50 | Species 種 | Genus 属 | Family 科 | Genus 属 | Family 科 | |||||
| EX 絶滅 | Acipenser medirostris チョウザメ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 8 | 10 | 4/38 (10.5%) | 6/60 (10.0%) | — |
| EX 絶滅 | Gnathopogon elongatus suwae スワモロコ | — | — | — | ✓ | — | No | — | — | — | 0 | 0 | 16 | 0/13 (0.0%) | 10/349 (2.9%) | — |
| EX 絶滅 | Pungitius kaibarae ミナミトミヨ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 5 | 19 | 1/45 (2.2%) | 5/57 (8.8%) | — |
| EW 野生絶滅 | Oncorhynchus kawamurae クニマス | EW | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 23 | 68 | 8/42 (19.0%) | 25/679 (3.7%) | — |
| CR 絶滅危惧IA類 | Echidna rhodochilus ナミダカワウツボ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 2 | 0/8 (0.0%) | 2/195 (1.0%) | — |
| CR 絶滅危惧IA類 | Uropterygius concolor コゲウツボ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 2 | 0/15 (0.0%) | 2/195 (1.0%) | — |
| CR 絶滅危惧IA類 | Acheilognathus cyanostigma イチモンジタナゴ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/48 (0.0%) | 1/110 (0.9%) | — |
| CR 絶滅危惧IA類 | Acheilognathus longipinnis イタセンパラ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/48 (0.0%) | 1/110 (0.9%) | — |
| CR 絶滅危惧IA類 | Acheilognathus tabira jordani ミナミアカヒレタビラ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/48 (0.0%) | 1/110 (0.9%) | — |
| CR 絶滅危惧IA類 | Acheilognathus tabira nakamurae セボシタビラ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/48 (0.0%) | 1/110 (0.9%) | — |
| CR 絶滅危惧IA類 | Acheilognathus typus ゼニタナゴ | VU | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/48 (0.0%) | 1/110 (0.9%) | — |
| CR 絶滅危惧IA類 | Aphyocypris chinensis ヒナモロコ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 39 | 0/9 (0.0%) | 20/208 (9.6%) | — |
| CR 絶滅危惧IA類 | Carassius sp. フナ属の１種（琉球列島） | — | ✓ | — | — | — | No | — | — | — | 0 | 14 | 89 | 3/48 (6.2%) | 51/2361 (2.2%) | — |
| CR 絶滅危惧IA類 | Gnathopogon caerulescens ホンモロコ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 16 | 0/13 (0.0%) | 10/349 (2.9%) | — |
| CR 絶滅危惧IA類 | Ischikauia steenackeri ワタカ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 39 | 0/1 (0.0%) | 20/208 (9.6%) | — |
| CR 絶滅危惧IA類 | Pseudorasbora pugnax ウシモツゴ | VU | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 3 | 16 | 2/7 (28.6%) | 10/349 (2.9%) | — |
| CR 絶滅危惧IA類 | Pseudorasbora pumila シナイモツゴ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 3 | 16 | 2/7 (28.6%) | 10/349 (2.9%) | — |
| CR 絶滅危惧IA類 | Rhodeus atremius suigensis スイゲンゼニタナゴ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 1 | 1/50 (2.0%) | 1/110 (0.9%) | — |
| CR 絶滅危惧IA類 | Rhodeus ocellatus kurumeus ニッポンバラタナゴ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 1 | 1 | 1/50 (2.0%) | 1/110 (0.9%) | — |
| CR 絶滅危惧IA類 | Sarcocheilichthys biwaensis アブラヒガイ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 16 | 0/15 (0.0%) | 10/349 (2.9%) | — |
| CR 絶滅危惧IA類 | Tanakia tanago ミヤコタナゴ | EN | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/1 (0.0%) | 1/110 (0.9%) | — |
| CR 絶滅危惧IA類 | Cobitis minamorii minamorii サンヨウコガタスジシマドジョウ | — | ✓ | — | — | — | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| CR 絶滅危惧IA類 | Cobitis minamorii yodoensis ヨドコガタスジシマドジョウ | — | — | — | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| CR 絶滅危惧IA類 | Cobitis striata hakataensis ハカタスジシマドジョウ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| CR 絶滅危惧IA類 | Cobitis takenoi タンゴスジシマドジョウ | CR | ✓ | ✓ | ✓ | — | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| CR 絶滅危惧IA類 | Parabotia curtus アユモドキ | CR | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 7 | 0/8 (0.0%) | 6/66 (9.1%) | — |
| CR 絶滅危惧IA類 | Plecoglossus altivelis ryukyuensis リュウキュウアユ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 4 | 4 | 4 | 1/1 (100.0%) | 1/1 (100.0%) | — |
| CR 絶滅危惧IA類 | Neosalanx reganius アリアケヒメシラウオ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 2 | 8 | 2/30 (6.7%) | 7/56 (12.5%) | — |
| CR 絶滅危惧IA類 | Salanx ariakensis アリアケシラウオ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 8 | 1/5 (20.0%) | 7/56 (12.5%) | — |
| CR 絶滅危惧IA類 | Oncorhynchus nerka ベニザケ（ヒメマス） | LC | ✓ | ✓ | ✓ | ✓ | Yes (2) | Chromosome, Reference | 2.65 Gbp 23.0x | 15,727 2.84 Mbp | 2 | 23 | 68 | 8/42 (19.0%) | 25/679 (3.7%) | 2019-06-07 |
| CR 絶滅危惧IA類 | Monopterus sp. タウナギ属の１種（琉球列島） | — | — | — | — | — | No | — | — | — | 0 | 1 | 1 | 1/9 (11.1%) | 1/72 (1.4%) | — |
| CR 絶滅危惧IA類 | Gasterosteus aculeatus subsp. 2 ハリヨ | — | — | — | — | — | No | — | — | — | 10 | 11 | 19 | 2/9 (22.2%) | 5/57 (8.8%) | — |
| CR 絶滅危惧IA類 | Pungitius sp. 3 トミヨ属雄物型 | — | — | — | — | — | No | — | — | — | 0 | 5 | 19 | 1/45 (2.2%) | 5/57 (8.8%) | — |
| CR 絶滅危惧IA類 | Pungitius sp. 4 ムサシトミヨ | — | — | — | — | — | No | — | — | — | 0 | 5 | 19 | 1/45 (2.2%) | 5/57 (8.8%) | — |
| CR 絶滅危惧IA類 | Microphis argulus ホシイッセンヨウジ | LC | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 40 | 0/3 (0.0%) | 25/605 (4.1%) | — |
| CR 絶滅危惧IA類 | Microphis jagorii ヒメテングヨウジ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 40 | 1/3 (33.3%) | 25/605 (4.1%) | — |
| CR 絶滅危惧IA類 | Microphis retzii タニヨウジ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 40 | 0/14 (0.0%) | 25/605 (4.1%) | — |
| CR 絶滅危惧IA類 | Cestraeus plicatilis カワボラ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 9 | 0/3 (0.0%) | 6/366 (1.6%) | — |
| CR 絶滅危惧IA類 | Tetraroge barbata アゴヒゲオコゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/1 (0.0%) | 1/27 (3.7%) | — |
| CR 絶滅危惧IA類 | Tetraroge nigra ヒゲソリオコゼ | LC | — | ✓ | ✓ | — | No | — | — | — | 0 | 0 | 1 | 0/1 (0.0%) | 1/27 (3.7%) | — |
| CR 絶滅危惧IA類 | Yarica hyalosoma カガミテンジクダイ | LC | ✓ | ✓ | ✓ | ✓ | Yes (1) | Scaffold, Reference | 1.03 Gbp 135.0x | 168,358 10.6 kbp | 1 | 4 | 22 | 4/121 (3.3%) | 21/588 (3.6%) | 2024-03-19 |
| CR 絶滅危惧IA類 | Lutjanus goldiei ウラウチフエダイ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 3 | 6 | 3/122 (2.5%) | 5/330 (1.5%) | — |
| CR 絶滅危惧IA類 | Sillago parvisquamis アオギス | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 0 | 0/108 (0.0%) | 0/117 (0.0%) | — |
| CR 絶滅危惧IA類 | Toxotes jaculatrix テッポウウオ | LC | ✓ | ✓ | ✓ | ✓ | Yes (2) | Chromosome, Reference | 622 Mbp 60.0x | 194 15.6 Mbp | 2 | 5 | 5 | 3/7 (42.9%) | 3/7 (42.9%) | 2021-04-15 |
| CR 絶滅危惧IA類 | Mesopristes argenteus ニセシマイサキ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 7 | 0/3 (0.0%) | 6/56 (10.7%) | — |
| CR 絶滅危惧IA類 | Mesopristes cancellatus ヨコシマイサキ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 7 | 0/3 (0.0%) | 6/56 (10.7%) | — |
| CR 絶滅危惧IA類 | Mesopristes iravi シミズシマイサキ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 7 | 0/3 (0.0%) | 6/56 (10.7%) | — |
| CR 絶滅危惧IA類 | Enneapterygius cheni ウラウチヘビギンポ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 0 | 0/103 (0.0%) | 0/261 (0.0%) | — |
| CR 絶滅危惧IA類 | Omobranchus ferox カワギンポ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 8 | 0/45 (0.0%) | 5/464 (1.1%) | — |
| CR 絶滅危惧IA類 | Omox biporos ヒルギギンポ | LC | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 0 | 0 | 0 | — |
| CR 絶滅危惧IA類 | Rhyacichthys aspro ツバサハゼ | DD | ✓ | ✓ | ✓ | ✓ | Yes (1) | Chromosome, Reference | 595 Mbp 28.0x | 3,182 1.67 Mbp | 1 | 1 | 1 | 1/2 (50.0%) | 1/3 (33.3%) | 2024-11-08 |
| CR 絶滅危惧IA類 | Butis amboinensis ヤエヤマノコギリハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 15 | 0/11 (0.0%) | 12/288 (4.2%) | — |
| CR 絶滅危惧IA類 | Bathygobius sp. カワクモハゼ | — | ✓ | — | — | — | No | — | — | — | 0 | 0 | 33 | 0/34 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Callogobius sp. ミスジハゼ | — | ✓ | — | — | — | No | — | — | — | 0 | 0 | 33 | 0/23 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Cristatogobius aurimaculatus ヒメトサカハゼ | — | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/2 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Cristatogobius nonatoae クロトサカハゼ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/2 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Eviota ocellifer ウラウチイソハゼ | CR | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/191 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Glossogobius aureus コンジキハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/73 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Glossogobius bicirrhosus アゴヒゲハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/73 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Gymnogobius isaza イサザ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Gymnogobius nakamurae コシノハゼ | — | — | ✓ | — | — | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Gymnogobius sp. 2 ホクリクジュズカケハゼ | — | — | — | — | — | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Lentipes armatus ヨロイボウズハゼ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/14 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Luciogobius albus ドウクツミミズハゼ | CR | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/40 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Oxyurichthys takagi シマサルハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/21 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Rhinogobius sp. BB アオバラヨシノボリ | — | ✓ | — | — | — | No | — | — | — | 0 | 1 | 33 | 1/126 (0.8%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Scartelaos histophorus トカゲハゼ | LC | ✓ | ✓ | ✓ | ✓ | Yes (1) | Scaffold, Reference | 695 Mbp 72.0x | 209,353 8.81 kbp | 1 | 1 | 33 | 1/7 (14.3%) | 22/2539 (0.9%) | 2014-12-02 |
| CR 絶滅危惧IA類 | Sicyopus zosterophorus アカボウズハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/9 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Smilosicyopus leprurus カエルハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/6 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Stiphodon alcedo ヒスイボウズハゼ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/29 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Stiphodon atropurpureus コンテリボウズハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/29 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Stiphodon imperiorientis ハヤセボウズハゼ | VU | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/29 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Parioglossus interruptus ヒメサツキハゼ | — | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/11 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Parioglossus taeniatus コマチハゼ | LC | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/11 (0.0%) | 22/2539 (0.9%) | — |
| CR 絶滅危惧IA類 | Macropodus opercularis タイワンキンギョ | LC | ✓ | ✓ | ✓ | ✓ | Yes (2) | Chromosome, Reference | 483 Mbp 150.0x | 151 19.2 Mbp | 2 | 2 | 8 | 1/8 (12.5%) | 3/169 (1.8%) | 2023-05-15 |
| EN 絶滅危惧IB類 | Anguilla japonica ニホンウナギ | EN | ✓ | ✓ | ✓ | ✓ | Yes (8) | Chromosome, Reference | 1.03 Gbp 234.0x | 811 21.5 Mbp | 8 | 19 | 19 | 8/22 (36.4%) | 8/22 (36.4%) | 2014-03-18 |
| EN 絶滅危惧IB類 | Nematalosa japonica ドロクイ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 2 | 67 | 1/10 (10.0%) | 20/450 (4.4%) | — |
| EN 絶滅危惧IB類 | Coilia nasus エツ | EN | ✓ | ✓ | ✓ | ✓ | Yes (2) | Chromosome, Reference | 852 Mbp 43.0x | 149 26.6 Mbp | 2 | 3 | 8 | 2/13 (15.4%) | 7/244 (2.9%) | 2019-08-16 |
| EN 絶滅危惧IB類 | Abbottina rivularis ツチフキ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 16 | 0/5 (0.0%) | 10/349 (2.9%) | — |
| EN 絶滅危惧IB類 | Acheilognathus melanogaster タナゴ | VU | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/48 (0.0%) | 1/110 (0.9%) | — |
| EN 絶滅危惧IB類 | Acheilognathus tabira erythropterus アカヒレタビラ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/48 (0.0%) | 1/110 (0.9%) | — |
| EN 絶滅危惧IB類 | Acheilognathus tabira tabira シロヒレタビラ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/48 (0.0%) | 1/110 (0.9%) | — |
| EN 絶滅危惧IB類 | Acheilognathus tabira tohokuensis キタノアカヒレタビラ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/48 (0.0%) | 1/110 (0.9%) | — |
| EN 絶滅危惧IB類 | Biwia yodoensis ヨドゼゼラ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 16 | 0/3 (0.0%) | 10/349 (2.9%) | — |
| EN 絶滅危惧IB類 | Carassius buergeri grandoculis ニゴロブナ | — | ✓ | — | ✓ | — | No | — | — | — | 6 | 14 | 89 | 3/48 (6.2%) | 51/2361 (2.2%) | — |
| EN 絶滅危惧IB類 | Carassius cuvieri ゲンゴロウブナ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 14 | 89 | 3/48 (6.2%) | 51/2361 (2.2%) | — |
| EN 絶滅危惧IB類 | Hemigrammocypris neglectus カワバタモロコ | LC | ✓ | ✓ | ✓ | — | No | — | — | — | 0 | 0 | 39 | 0/1 (0.0%) | 20/208 (9.6%) | — |
| EN 絶滅危惧IB類 | Rhodeus atremius atremius カゼトゲタナゴ | — | ✓ | — | — | — | No | — | — | — | 0 | 1 | 1 | 1/50 (2.0%) | 1/110 (0.9%) | — |
| EN 絶滅危惧IB類 | Tribolodon nakamurai ウケクチウグイ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 80 | 1/8 (12.5%) | 42/1258 (3.3%) | — |
| EN 絶滅危惧IB類 | Cobitis kaibarai アリアケスジシマドジョウ | VU | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| EN 絶滅危惧IB類 | Cobitis magnostriata オオガタスジシマドジョウ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| EN 絶滅危惧IB類 | Cobitis minamorii oumiensis ビワコガタスジシマドジョウ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| EN 絶滅危惧IB類 | Cobitis minamorii saninensis サンインコガタスジシマドジョウ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| EN 絶滅危惧IB類 | Cobitis minamorii tokaiensis トウカイコガタスジシマドジョウ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| EN 絶滅危惧IB類 | Cobitis sakahoko オオヨドシマドジョウ | EN | ✓ | ✓ | ✓ | — | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| EN 絶滅危惧IB類 | Cobitis shikokuensis ヒナイシドジョウ | VU | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| EN 絶滅危惧IB類 | Cobitis striata fuchigamii オンガスジシマドジョウ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| EN 絶滅危惧IB類 | Cobitis takatsuensis イシドジョウ | NT | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| EN 絶滅危惧IB類 | Lefua costata nikkonis エゾホトケドジョウ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 13 | 0/15 (0.0%) | 10/1066 (0.9%) | — |
| EN 絶滅危惧IB類 | Lefua echigonia ホトケドジョウ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 13 | 0/15 (0.0%) | 10/1066 (0.9%) | — |
| EN 絶滅危惧IB類 | Lefua tokaiensis トウカイナガレホトケドジョウ | — | ✓ | ✓ | ✓ | — | No | — | — | — | 0 | 0 | 13 | 0/15 (0.0%) | 10/1066 (0.9%) | — |
| EN 絶滅危惧IB類 | Lefua torrentis ナガレホトケドジョウ | — | ✓ | ✓ | ✓ | — | No | — | — | — | 0 | 0 | 13 | 0/15 (0.0%) | 10/1066 (0.9%) | — |
| EN 絶滅危惧IB類 | Tachysurus ichikawai ネコギギ | VU | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 6 | 12 | 3/37 (8.1%) | 8/253 (3.2%) | — |
| EN 絶滅危惧IB類 | Hucho perryi イトウ | CR | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 68 | 0/1 (0.0%) | 25/679 (3.7%) | — |
| EN 絶滅危惧IB類 | Hippichthys heptagonus アミメカワヨウジ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 40 | 0/12 (0.0%) | 25/605 (4.1%) | — |
| EN 絶滅危惧IB類 | Crenimugil heterocheilos ナガレフウライボラ | LC | — | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 9 | 0/57 (0.0%) | 6/366 (1.6%) | — |
| EN 絶滅危惧IB類 | Lates japonicus アカメ | VU | ✓ | ✓ | ✓ | ✓ | Yes (2) | Scaffold, Reference | 838 Mbp 56.0x | 18,353 286 kbp | 2 | 6 | 6 | 2/19 (10.5%) | 2/40 (5.0%) | 2023-06-29 |
| EN 絶滅危惧IB類 | Coreoperca kawamebari オヤニラミ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 12 | 1/4 (25.0%) | 7/18 (38.9%) | — |
| EN 絶滅危惧IB類 | Sillaginops macrolepis アトクギス | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 0 | 0/1 (0.0%) | 0/117 (0.0%) | — |
| EN 絶滅危惧IB類 | Kuhlia munda トゲナガユゴイ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 0 | 0/13 (0.0%) | 0/13 (0.0%) | — |
| EN 絶滅危惧IB類 | Cottus reinii カジカ小卵型 | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 3 | 9 | 2/154 (1.3%) | 6/353 (1.7%) | — |
| EN 絶滅危惧IB類 | Cottus sp. カジカ中卵型 | — | ✓ | — | — | — | No | — | — | — | 0 | 3 | 9 | 2/154 (1.3%) | 6/353 (1.7%) | — |
| EN 絶滅危惧IB類 | Trachidermus fasciatus ヤマノカミ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 9 | 0/1 (0.0%) | 6/353 (1.7%) | — |
| EN 絶滅危惧IB類 | Bostrychus sinensis ジャノメハゼ | LC | ✓ | ✓ | ✓ | ✓ | Yes (2) | Chromosome, Reference | 886 Mbp 447.8x | 348 28.3 Mbp | 2 | 2 | 15 | 1/4 (25.0%) | 12/288 (4.2%) | 2021-06-03 |
| EN 絶滅危惧IB類 | Giuris sp. 1 タメトモハゼ | — | — | — | — | — | No | — | — | — | 0 | 0 | 15 | 0/56 (0.0%) | 12/288 (4.2%) | — |
| EN 絶滅危惧IB類 | Giuris sp. 2 ゴシキタメトモハゼ | — | — | — | — | — | No | — | — | — | 0 | 0 | 15 | 0/56 (0.0%) | 12/288 (4.2%) | — |
| EN 絶滅危惧IB類 | Hypseleotris cyprinoides タナゴモドキ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 6 | 15 | 5/53 (9.4%) | 12/288 (4.2%) | — |
| EN 絶滅危惧IB類 | Boleophthalmus pectinirostris ムツゴロウ | — | ✓ | ✓ | ✓ | ✓ | Yes (2) | Scaffold, Reference | 941 Mbp 100.0x | 3,222 835 kbp | 2 | 2 | 33 | 1/17 (5.9%) | 22/2539 (0.9%) | 2014-12-02 |
| EN 絶滅危惧IB類 | Cristatogobius lophius トサカハゼ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/2 (0.0%) | 22/2539 (0.9%) | — |
| EN 絶滅危惧IB類 | Gymnogobius cylindricus キセルハゼ | NT | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| EN 絶滅危惧IB類 | Gymnogobius scrobiculatus クボハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| EN 絶滅危惧IB類 | Gymnogobius sp. 1 ムサシノジュズカケハゼ | — | — | — | — | — | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| EN 絶滅危惧IB類 | Mugilogobius cavifrons ホホグロハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 4 | 33 | 1/32 (3.1%) | 22/2539 (0.9%) | — |
| EN 絶滅危惧IB類 | Rhinogobius ogasawaraensis オガサワラヨシノボリ | VU | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 33 | 1/126 (0.8%) | 22/2539 (0.9%) | — |
| EN 絶滅危惧IB類 | Rhinogobius sp. YB キバラヨシノボリ | — | ✓ | — | — | — | No | — | — | — | 0 | 1 | 33 | 1/126 (0.8%) | 22/2539 (0.9%) | — |
| EN 絶滅危惧IB類 | Schismatogobius ampluvinculus シマエソハゼ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/12 (0.0%) | 22/2539 (0.9%) | — |
| EN 絶滅危惧IB類 | Schismatogobius roxasi エソハゼ | EN | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/12 (0.0%) | 22/2539 (0.9%) | — |
| EN 絶滅危惧IB類 | Taenioides cirratus チワラスボ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 33 | 1/22 (4.5%) | 22/2539 (0.9%) | — |
| EN 絶滅危惧IB類 | Parioglossus rainfordi コビトハゼ | LC | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/11 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Lethenteron japonicum カワヤツメ | LC | ✓ | ✓ | ✓ | ✓ | Yes (2) | Scaffold, Reference | 1.07 Gbp 87.8x | 4,710 1.60 Mbp | 2 | 3 | 17 | 2/14 (14.3%) | 8/481 (1.7%) | 2013-09-13 |
| VU 絶滅危惧II類 | Lethenteron sp. N. スナヤツメ北方種 | — | — | — | — | — | No | — | — | — | 0 | 3 | 17 | 2/14 (14.3%) | 8/481 (1.7%) | — |
| VU 絶滅危惧II類 | Lethenteron sp. S. スナヤツメ南方種 | — | — | — | — | — | No | — | — | — | 0 | 3 | 17 | 2/14 (14.3%) | 8/481 (1.7%) | — |
| VU 絶滅危惧II類 | Biwia zezera ゼゼラ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 16 | 0/3 (0.0%) | 10/349 (2.9%) | — |
| VU 絶滅危惧II類 | Carassius buergeri subsp. 2 キンブナ | — | — | — | — | — | No | — | — | — | 0 | 14 | 89 | 3/48 (6.2%) | 51/2361 (2.2%) | — |
| VU 絶滅危惧II類 | Opsariichthys uncirostris uncirostris ハス | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 3 | 39 | 1/33 (3.0%) | 20/208 (9.6%) | — |
| VU 絶滅危惧II類 | Squalidus chankaensis biwae スゴモロコ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 16 | 0/17 (0.0%) | 10/349 (2.9%) | — |
| VU 絶滅危惧II類 | Squalidus japonicus japonicus デメモロコ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 16 | 0/17 (0.0%) | 10/349 (2.9%) | — |
| VU 絶滅危惧II類 | Cobitis matsubarae ヤマトシマドジョウ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| VU 絶滅危惧II類 | Cobitis sp. BIWAE type D トサシマドジョウ | — | ✓ | — | — | — | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| VU 絶滅危惧II類 | Cobitis striata striata チュウガタスジシマドジョウ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 2 | 13 | 2/238 (0.8%) | 5/456 (1.1%) | — |
| VU 絶滅危惧II類 | Niwaella delicata アジメドジョウ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 13 | 0/5 (0.0%) | 5/456 (1.1%) | — |
| VU 絶滅危惧II類 | Tachysurus aurantiacus アリアケギバチ | NT | ✓ | ✓ | ✓ | — | No | — | — | — | 0 | 6 | 12 | 3/37 (8.1%) | 8/253 (3.2%) | — |
| VU 絶滅危惧II類 | Tachysurus tokiensis ギバチ | LC | ✓ | ✓ | ✓ | — | No | — | — | — | 0 | 6 | 12 | 3/37 (8.1%) | 8/253 (3.2%) | — |
| VU 絶滅危惧II類 | Liobagrus reinii アカザ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 1 | 1/26 (3.8%) | 1/53 (1.9%) | — |
| VU 絶滅危惧II類 | Salvelinus leucomaenis imbrius ゴギ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 6 | 68 | 4/60 (6.7%) | 25/679 (3.7%) | — |
| VU 絶滅危惧II類 | Salvelinus malma krascheninnikovi オショロコマ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 6 | 68 | 4/60 (6.7%) | 25/679 (3.7%) | — |
| VU 絶滅危惧II類 | Salvelinus malma miyabei ミヤベイワナ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 6 | 68 | 4/60 (6.7%) | 25/679 (3.7%) | — |
| VU 絶滅危惧II類 | Pungitius tymensis エゾトミヨ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 5 | 19 | 1/45 (2.2%) | 5/57 (8.8%) | — |
| VU 絶滅危惧II類 | Oryzias latipes ミナミメダカ | LC | ✓ | ✓ | ✓ | ✓ | Yes (33) | Chromosome, Reference | 734 Mbp 1.0x | 515 2.53 Mbp | 33 | 42 | 43 | 8/91 (8.8%) | 9/94 (9.6%) | 2007-04-26 |
| VU 絶滅危惧II類 | Oryzias sakaizumii キタノメダカ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 42 | 43 | 8/91 (8.8%) | 9/94 (9.6%) | — |
| VU 絶滅危惧II類 | Acanthopagrus pacificus ナンヨウチヌ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 5 | 17 | 2/26 (7.7%) | 10/168 (6.0%) | — |
| VU 絶滅危惧II類 | Cottus kazika カマキリ（アユカケ） | LC | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 9 | 0/1 (0.0%) | 6/353 (1.7%) | — |
| VU 絶滅危惧II類 | Odontobutis hikimius イシドンコ | NT | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 2 | 0/8 (0.0%) | 2/17 (11.8%) | — |
| VU 絶滅危惧II類 | Ophiocara porocephala ホシマダラハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 15 | 0/4 (0.0%) | 12/288 (4.2%) | — |
| VU 絶滅危惧II類 | Acanthogobius hasta ハゼクチ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/8 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Acanthogobius insularis ミナミアシシロハゼ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/8 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Acentrogobius viridipunctatus キララハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/22 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Apocryptodon punctatus タビラクチ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/4 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Caragobius urolepis アサガラハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/1 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Gymnogobius macrognathos エドハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Gymnogobius taranetzi シンジコハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Gymnogobius uchidai チクゼンハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Leucopsarion petersii シロウオ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/1 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Luciogobius ryukyuensis ミナミヒメミミズハゼ | NT | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/40 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Mugilogobius mertoni ムジナハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 4 | 33 | 1/32 (3.1%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Odontamblyopus lacepedii ワラスボ | — | ✓ | ✓ | ✓ | ✓ | Yes (2) | Chromosome, Reference | 963 Mbp 260.0x | 394 12.1 Mbp | 2 | 3 | 33 | 2/9 (22.2%) | 22/2539 (0.9%) | 2023-10-25 |
| VU 絶滅危惧II類 | Pandaka lidwilli マングローブゴマハゼ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/5 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Pandaka sp. ゴマハゼ | — | — | — | — | — | No | — | — | — | 0 | 0 | 33 | 0/5 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Parkraemeria saltator ギンポハゼ | NT | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/1 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Pseudogobius masago マサゴハゼ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/55 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Sicyopterus lagocephalus ルリボウズハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/26 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Trypauchenopsis intermedia ヒゲワラスボ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/5 (0.0%) | 22/2539 (0.9%) | — |
| VU 絶滅危惧II類 | Parioglossus palustris ボルネオハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/11 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Lethenteron kessleri シベリアヤツメ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 3 | 17 | 2/14 (14.3%) | 8/481 (1.7%) | — |
| NT 準絶滅危惧 | Phoxinus perenurus sachalinensis ヤチウグイ | — | ✓ | — | ✓ | — | No | — | — | — | 0 | 0 | 80 | 0/6 (0.0%) | 42/1258 (3.3%) | — |
| NT 準絶滅危惧 | Sarcocheilichthys variegatus variegatus カワヒガイ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 16 | 0/15 (0.0%) | 10/349 (2.9%) | — |
| NT 準絶滅危惧 | Tanakia lanceolata ヤリタナゴ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/7 (0.0%) | 1/110 (0.9%) | — |
| NT 準絶滅危惧 | Tanakia limbata アブラボテ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/7 (0.0%) | 1/110 (0.9%) | — |
| NT 準絶滅危惧 | Misgurnus anguillicaudatus ドジョウ | LC | ✓ | ✓ | ✓ | ✓ | Yes (8) | Chromosome, Reference | 1.12 Gbp 30.0x | 170 41.5 Mbp | 8 | 9 | 13 | 2/47 (4.3%) | 5/456 (1.1%) | 2023-01-09 |
| NT 準絶滅危惧 | Silurus lithophilus イワトコナマズ | VU | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 8 | 11 | 5/18 (27.8%) | 7/75 (9.3%) | — |
| NT 準絶滅危惧 | Hypomesus olidus イシカリワカサギ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 3 | 10 | 2/6 (33.3%) | 5/14 (35.7%) | — |
| NT 準絶滅危惧 | Oncorhynchus masou ishikawae サツキマス（アマゴ） | EN | ✓ | ✓ | ✓ | ✓ | Yes (1) | Scaffold, — | 2.42 Gbp 18.0x | 70,318 128 kbp | 2 | 23 | 68 | 8/42 (19.0%) | 25/679 (3.7%) | 2023-09-10 |
| NT 準絶滅危惧 | Oncorhynchus masou masou サクラマス（ヤマメ） | — | ✓ | ✓ | ✓ | ✓ | Yes (1) | Chromosome, Reference | 2.66 Gbp 33.0x | 21,300 2.47 Mbp | 2 | 23 | 68 | 8/42 (19.0%) | 25/679 (3.7%) | 2024-03-01 |
| NT 準絶滅危惧 | Oncorhynchus sp. ビワマス | — | ✓ | — | — | — | No | — | — | — | 0 | 23 | 68 | 8/42 (19.0%) | 25/679 (3.7%) | — |
| NT 準絶滅危惧 | Pungitius sp. 2 トミヨ属汽水型 | — | — | — | — | — | No | — | — | — | 0 | 5 | 19 | 1/45 (2.2%) | 5/57 (8.8%) | — |
| NT 準絶滅危惧 | Hyporhamphus intermedius クルメサヨリ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 1 | 0/47 (0.0%) | 1/76 (1.3%) | — |
| NT 準絶滅危惧 | Zenarchopterus dunckeri コモチサヨリ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 1 | 1/20 (5.0%) | 1/89 (1.1%) | — |
| NT 準絶滅危惧 | Cottus pollux カジカ大卵型 | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 3 | 9 | 2/154 (1.3%) | 6/353 (1.7%) | — |
| NT 準絶滅危惧 | Acentrogobius audax ニセツムギハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/4 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Acentrogobius caninus ホクロハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/22 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Acentrogobius suluensis ホホグロスジハゼ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/22 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Amblygobius linki ワカケサラサハゼ | LC | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/14 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Bunaka gyrinoides オウギハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 15 | 0/2 (0.0%) | 12/288 (4.2%) | — |
| NT 準絶滅危惧 | Eugnathogobius mindora カブキハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/7 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Eutaeniichthys gilli ヒモハゼ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/1 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Glossogobius circumspectus スダレウロハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/73 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Gymnogobius castaneus ジュズカケハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Luciogobius fluvialis ナガレミミズハゼ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/40 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Luciogobius fonticola ユウスイミミズハゼ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/40 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Luciogobius pallidus イドミミズハゼ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/40 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Periophthalmus modestus トビハゼ | — | ✓ | ✓ | ✓ | ✓ | Yes (1) | Scaffold, Reference | 854 Mbp 95.0x | 4,142 576 kbp | 1 | 6 | 33 | 3/19 (15.8%) | 22/2539 (0.9%) | 2021-08-13 |
| NT 準絶滅危惧 | Rhinogobius telma トウカイヨシノボリ | — | ✓ | ✓ | ✓ | — | No | — | — | — | 0 | 1 | 33 | 1/126 (0.8%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Rhinogobius tyoni シマヒレヨシノボリ | — | ✓ | ✓ | ✓ | — | No | — | — | — | 0 | 1 | 33 | 1/126 (0.8%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Silhouettea dotui シラヌイハゼ | LC | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/6 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Silhouettea sp. ニセシラヌイハゼ | — | ✓ | — | — | — | No | — | — | — | 0 | 0 | 33 | 0/6 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Tridentiger barbatus ショウキハゼ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/9 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Tridentiger nudicervicus シロチチブ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/9 (0.0%) | 22/2539 (0.9%) | — |
| NT 準絶滅危惧 | Gobitrichinotus radiocularis ナミノコハゼ | LC | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 0 | 0 | 0 | — |
| DD 情報不足 | Anguilla bicolor pacifica ニューギニアウナギ | — | ✓ | — | ✓ | ✓ | Yes (1) | Chromosome, Reference | 1.09 Gbp 92.0x | 404 16.9 Mbp | 1 | 19 | 19 | 8/22 (36.4%) | 8/22 (36.4%) | 2024-06-14 |
| DD 情報不足 | Carassius buergeri subsp. 1 ナガブナ | — | — | — | — | — | No | — | — | — | 0 | 14 | 89 | 3/48 (6.2%) | 51/2361 (2.2%) | — |
| DD 情報不足 | Phoxinus lagowskii yamamotis ヤマナカハヤ | — | — | — | — | — | No | — | — | — | 0 | 0 | 80 | 0/6 (0.0%) | 42/1258 (3.3%) | — |
| DD 情報不足 | Misgurnus sp. (Clade A) キタドジョウ | — | — | — | — | — | No | — | — | — | 0 | 9 | 13 | 2/47 (4.3%) | 5/456 (1.1%) | — |
| DD 情報不足 | Misgurnus sp. IR シノビドジョウ | — | ✓ | — | — | — | No | — | — | — | 0 | 9 | 13 | 2/47 (4.3%) | 5/456 (1.1%) | — |
| DD 情報不足 | Misgurnus sp. OK ヒョウモンドジョウ | — | ✓ | — | — | — | No | — | — | — | 0 | 9 | 13 | 2/47 (4.3%) | 5/456 (1.1%) | — |
| DD 情報不足 | Salvelinus leucomaenis pluvius ニッコウイワナ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 6 | 68 | 4/60 (6.7%) | 25/679 (3.7%) | — |
| DD 情報不足 | Chelon subviridis アンピンボラ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 9 | 1/138 (0.7%) | 6/366 (1.6%) | — |
| DD 情報不足 | Ellochelon vaigiensis オニボラ | LC | ✓ | ✓ | ✓ | ✓ | Yes (1) | Scaffold, Reference | 647 Mbp 60.0x | 137,715 24.2 kbp | 1 | 1 | 9 | 1/4 (25.0%) | 6/366 (1.6%) | 2024-08-08 |
| DD 情報不足 | Moolgarda engeli モンナシボラ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 9 | 0/57 (0.0%) | 6/366 (1.6%) | — |
| DD 情報不足 | Moolgarda pedaraki カマヒレボラ | — | ✓ | — | ✓ | ✓ | No | — | — | — | 0 | 0 | 9 | 0/8 (0.0%) | 6/366 (1.6%) | — |
| DD 情報不足 | Atherinomorus duodecimalis ネッタイイソイワシ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 11 | 1/32 (3.1%) | 9/118 (7.6%) | — |
| DD 情報不足 | Hypoatherina temminckii ミナミギンイソイワシ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 11 | 0/17 (0.0%) | 9/118 (7.6%) | — |
| DD 情報不足 | Ambassis interrupta ナンヨウタカサゴイシモチ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 4 | 1/46 (2.2%) | 2/71 (2.8%) | — |
| DD 情報不足 | Ambassis macracanthus ハナダカタカサゴイシモチ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 4 | 1/46 (2.2%) | 2/71 (2.8%) | — |
| DD 情報不足 | Epinephelus bontoides シラヌイハタ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 15 | 40 | 11/135 (8.1%) | 29/690 (4.2%) | — |
| DD 情報不足 | Fibramia lateralis ワキイシモチ | — | ✓ | ✓ | ✓ | ✓ | Yes (1) | Scaffold, Reference | 1.16 Gbp 60.0x | 464,460 4.68 kbp | 1 | 1 | 22 | 1/3 (33.3%) | 21/588 (3.6%) | 2024-08-15 |
| DD 情報不足 | Pseudamia amblyuroptera ヒルギヌメリテンジクダイ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 22 | 1/6 (16.7%) | 21/588 (3.6%) | — |
| DD 情報不足 | Plectorhinchus albovittatus ダイダイコショウダイ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 3 | 0/31 (0.0%) | 3/185 (1.6%) | — |
| DD 情報不足 | Omobranchus elongatus ゴマクモギンポ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 8 | 0/45 (0.0%) | 5/464 (1.1%) | — |
| DD 情報不足 | Pseudocalliurichthys ikedai ナリタイトヒキヌメリ | — | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 9 | 0/1 (0.0%) | 5/129 (3.9%) | — |
| DD 情報不足 | Belobranchus belobranchus エリトゲハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 15 | 0/3 (0.0%) | 12/288 (4.2%) | — |
| DD 情報不足 | Glossogobius sp. フタゴハゼ | — | — | — | — | — | No | — | — | — | 0 | 0 | 33 | 0/73 (0.0%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Gymnogobius mororanus ヘビハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Luciogobius dormitoris ネムリミミズハゼ | DD | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/40 (0.0%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Mugilogobius fuscus フタホシハゼ | LC | — | ✓ | — | ✓ | No | — | — | — | 0 | 4 | 33 | 1/32 (3.1%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Pseudogobius gastrospilos コクチスナゴハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/55 (0.0%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Redigobius balteatus タスキヒナハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/10 (0.0%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Rhinogobius biwaensis ビワヨシノボリ | EN | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 33 | 1/126 (0.8%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Sicyopus auxilimentus ヒノコロモボウズハゼ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/9 (0.0%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Stenogobius ophthalmoporus ドウケハゼ | LC | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/12 (0.0%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Stiphodon multisquamus トラフボウズハゼ | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/29 (0.0%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Stiphodon niraikanaiensis ニライカナイボウズハゼ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/29 (0.0%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Stiphodon surrufus カキイロヒメボウズハゼ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/29 (0.0%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Kraemeria tongaensis トンガスナハゼ | LC | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 0 | 0/2 (0.0%) | 0/2 (0.0%) | — |
| DD 情報不足 | Parioglossus caeruleolineatus クジャクハゼ | DD | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/11 (0.0%) | 22/2539 (0.9%) | — |
| DD 情報不足 | Parioglossus lineatus マイコハゼ | DD | — | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/11 (0.0%) | 22/2539 (0.9%) | — |
| LP 絶滅のおそれの ある地域個体群 | Entosphenus tridentatus 栃木県のミツバヤツメ | LC | ✓ | ✓ | ✓ | ✓ | Yes (2) | Chromosome, Reference | 928 Mbp 43.0x | 204,728 19.6 kbp | 2 | 2 | 17 | 1/8 (12.5%) | 8/481 (1.7%) | 2020-10-05 |
| LP 絶滅のおそれの ある地域個体群 | Clupea pallasii 本州の太平洋側湖沼系群のニシン | DD | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 33 | 67 | 1/4 (25.0%) | 20/450 (4.4%) | — |
| LP 絶滅のおそれの ある地域個体群 | Cyprinus carpio 琵琶湖のコイ在来型 | VU | ✓ | ✓ | ✓ | ✓ | Yes (11) | Chromosome, Reference | 1.68 Gbp 184.8x | 19,837 1.56 Mbp | 11 | 11 | 89 | 1/16 (6.2%) | 51/2361 (2.2%) | 2014-11-03 |
| LP 絶滅のおそれの ある地域個体群 | Tribolodon brandtii brandtii 本州のジュウサンウグイ | — | ✓ | — | ✓ | — | No | — | — | — | 0 | 1 | 80 | 1/8 (12.5%) | 42/1258 (3.3%) | — |
| LP 絶滅のおそれの ある地域個体群 | Tribolodon sachalinensis 東北地方のエゾウグイ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 1 | 80 | 1/8 (12.5%) | 42/1258 (3.3%) | — |
| LP 絶滅のおそれの ある地域個体群 | Spirinchus lanceolatus 襟裳岬以西のシシャモ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 10 | 0/3 (0.0%) | 5/14 (35.7%) | — |
| LP 絶滅のおそれの ある地域個体群 | Salvelinus leucomaenis japonicus 紀伊半島のヤマトイワナ（キリクチ） | — | ✓ | ✓ | — | — | No | — | — | — | 0 | 6 | 68 | 4/60 (6.7%) | 25/679 (3.7%) | — |
| LP 絶滅のおそれの ある地域個体群 | Gasterosteus aculeatus subsp. 1 福島県以南の太平洋系陸封型イトヨ | — | — | — | — | — | No | — | — | — | 10 | 11 | 19 | 2/9 (22.2%) | 5/57 (8.8%) | — |
| LP 絶滅のおそれの ある地域個体群 | Gasterosteus nipponicus 本州のニホンイトヨ | LC | ✓ | ✓ | ✓ | ✓ | Yes (1) | Chromosome, Reference | 600 Mbp 17.8x | 3,718 545 kbp | 1 | 11 | 19 | 2/9 (22.2%) | 5/57 (8.8%) | 2020-07-29 |
| LP 絶滅のおそれの ある地域個体群 | Pungitius sp. 1 本州のトミヨ属淡水型 | — | — | — | — | — | No | — | — | — | 0 | 5 | 19 | 1/45 (2.2%) | 5/57 (8.8%) | — |
| LP 絶滅のおそれの ある地域個体群 | Lateolabrax japonicus 有明海のスズキ | — | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 3 | 3 | 1/8 (12.5%) | 1/8 (12.5%) | — |
| LP 絶滅のおそれの ある地域個体群 | Cottus hangiongensis 東北・北陸地方のカンキョウカジカ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 3 | 9 | 2/154 (1.3%) | 6/353 (1.7%) | — |
| LP 絶滅のおそれの ある地域個体群 | Cottus nozawae 東北地方のハナカジカ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 3 | 9 | 2/154 (1.3%) | 6/353 (1.7%) | — |
| LP 絶滅のおそれの ある地域個体群 | Gymnogobius petschiliensis 北海道南部・東北地方のスミウキゴリ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 0 | 33 | 0/25 (0.0%) | 22/2539 (0.9%) | — |
| LP 絶滅のおそれの ある地域個体群 | Takifugu alboplumbeus 沖縄島のクサフグ | LC | ✓ | ✓ | ✓ | ✓ | No | — | — | — | 0 | 8 | 12 | 4/43 (9.3%) | 8/203 (3.9%) | — |