Data
Every public tardigrade dataset we have catalogued, in one place, with what we built from each: 8 genome assemblies, 14 mitochondrial genomes, 1,247 sequencing runs (6,691 gigabases) across 124 taxa, and the scans, recordings and expression series behind this site.
8genome assemblies
14mitochondrial genomes
1,247sequencing runs
124taxa sequenced
Datasets we build with
| Dataset | From | Where | What we made |
|---|---|---|---|
| Whole-body nano-CT of H. exemplaris, with hand-traced organs | Gross et al. 2019 | Image stacks and label fields (CC BY) | The glass tardigrade, the merged label volume, Minecraft builds |
| Confocal stacks of all four legs, every muscle traced | Gross & Mayer 2019 | Dryad, 4.9 GB (CC0) | The leg muscles in the glass tardigrade |
| Hand-tracked footsteps of walking tardigrades | Anderson et al. 2024 | GitHub code and spreadsheets; video on OSF | The walking animation |
| Hourly single-embryo RNA-seq through development | Levin et al. 2016 | GEO GSE70185 | Joined to the genome; clock corrected to ~98 h (finding) |
| Daily RNA-seq of eggs, juveniles and adults | Yoshida et al. 2017 | GEO GSE94295 | Joined with the hourly series; condensin co-expression |
| Embryo cell lineage, nine embryos | Heikes et al. 2023 | GitHub | Every early division in our embryo |
| Chromosome-length Hi-C assembly | DNA Zoo | DNA Zoo (.hic, .fasta) | Every gene placed on chromosomes |
| Evo 2 training data (OpenGenome2) | Arc Institute | Hugging Face | A census of its tardigrade sequence (finding) |
How this is built
- Data
- The scans, recordings, lineages, expression series and assemblies named in the table, each from its authors' deposit: GEO, Dryad, GitHub, DNA Zoo, Hugging Face, or the paper's own files.
- Built with
- A hand-kept list in
build_datasets.py, one row per dataset, saying what we made from it and linking to the page that uses it. - Checked
- The two expression series agree once joined through the genome: across 8,541 genes, Levin et al.'s hourly embryos and Yoshida et al.'s daily egg samples correlate (Spearman 0.52; pass). The other uses are tested on their own pages, with the verdicts in the graph.
- Limits
- This list holds only the datasets we build with; the tables below catalogue the rest of the public sequence data.
- More
- How the whole project is built
Genome assemblies
| Species | Accession | Level | Scaffold N50 (bp) | Year | Submitted by | Our use |
|---|---|---|---|---|---|---|
| Hypsibius dujardini | GCA_001455005.1 ASM145500v1 | Scaffold | 15,907 | 2015 | Thomas Boothby, Bob Goldstein | |
| Hypsibius dujardini | GCA_001579985.1 ASM157998v1 | Scaffold | 17,214 | 2016 | university of Chicago | |
| Ramazzottius varieornatus | GCA_001949185.1 Rvar_4.0 | Scaffold | 4,740,345 | 2017 | Department of Biological Sciences, Graduate School of Science, The University of Tokyo | Condensin search (the second species) |
| Hypsibius exemplaris | GCA_002082055.1 nHd_3.1 | Scaffold | 342,180 | 2017 | Keio University | Our reference: genes, expression joins, condensin search. Genomics |
| Paramacrobiotus metropolitanus | GCF_019649055.1 Prichtersi_v1.0 | Scaffold | 1,033,953 | 2021 | The University of Tokyo | Condensin search; the only tardigrade with a RefSeq annotation |
| Paramacrobiotus richtersi | GCA_034698045.1 ASM3469804v1 | Contig | 6,203 | 2023 | LOEWE Centre for Translational Biodiversity Genomics | |
| Isohypsibius dastychi | GCA_034696485.1 ASM3469648v1 | Contig | 577 | 2023 | LOEWE Centre for Translational Biodiversity Genomics | |
| Paramacrobiotus sp. BLR | GCA_052674745.1 ASM5267474v1 | Contig | 103,603 | 2025 | mibiome Therapeutics LLP |
Mitochondrial genomes
| Species | Accession | Length (bp) | Year |
|---|---|---|---|
| Acutuncus giovanniniae | PZ148665.1 | 14,415 | 2026 |
| Acutuncus giovanniniae | PZ148666.1 | 14,417 | 2026 |
| Acutuncus giovanniniae | PZ148667.1 | 14,416 | 2026 |
| Acutuncus mecnuffi | PZ148668.1 | 14,397 | 2026 |
| Acutuncus mecnuffi | PZ148669.1 | 14,399 | 2026 |
| Echiniscus testudo | LC385650.1 | 15,817 | 2018 |
| Hypsibius dujardini | FR749884.1 | 15,169 | 2010 |
| Hypsibius dujardini | NC_014848.1 | 15,169 | 2010 |
| Isohypsibioidea sp. MV2024 | PV030524.1 | 15,033 | 2025 |
| Ramazzottius claudii | PP419898.1 | 14,437 | 2024 |
| Ramazzottius varieornatus | AP017609.1 | 14,428 | 2016 |
| Ramazzottius varieornatus | NC_031407.1 | 14,428 | 2016 |
| Thulinius sp. DVL-2010 | HM600784.1 | 15,047 | 2011 |
| Thulinius sp. DVL-2010 | NC_015829.1 | 15,047 | 2011 |
Sequencing runs by taxon
Each count links to that taxon's runs in the Sequence Read Archive. "Environmental sample" runs are tardigrade reads from mixed samples.
| Taxon | Runs | Gigabases | Main kinds | Instruments | Projects |
|---|---|---|---|---|---|
| Hypsibius dujardini | 248 | 407.4 | RNA-Seq 225, WGS 13, Synthetic-Long-Read 6 | Illumina, Pacbio_Smrt | 11 |
| Ramazzottius varieornatus | 187 | 342.1 | RNA-Seq 155, WGA 15, WGS 9 | Illumina, Dnbseq, Capillary | 12 |
| Tardigrada environmental sample | 145 | 14.9 | OTHER 145 | Illumina | 1 |
| Macrobiotus ripperi | 90 | 0.7 | AMPLICON 90 | Illumina | 1 |
| Hypsibius exemplaris | 82 | 203.4 | RNA-Seq 69, AMPLICON 10, FL-cDNA 1 | Illumina, Oxford_Nanopore, Pacbio_Smrt | 9 |
| Mesobiotus radiatus | 59 | 0.6 | AMPLICON 59 | Illumina | 1 |
| Macrobiotus hannae | 59 | 0.4 | AMPLICON 59 | Illumina | 1 |
| Acutuncus antarcticus | 40 | 366.7 | RNA-Seq 39, FL-cDNA 1 | Illumina, Oxford_Nanopore | 2 |
| Echiniscus testudo | 27 | 369.7 | RNA-Seq 23, Hi-C 2, WGS 1 | Illumina, Pacbio_Smrt, Ls454 | 4 |
| Paramacrobiotus metropolitanus | 26 | 124.6 | RNA-Seq 17, WGS 9 | Illumina, Oxford_Nanopore | 3 |
| Paramacrobiotus fairbanksi | 22 | 171.5 | FL-cDNA 8, RNA-Seq 8, AMPLICON 6 | Illumina, Oxford_Nanopore | 2 |
| Paramacrobiotus richtersi group | 12 | 0.1 | AMPLICON 12 | Illumina | 1 |
| Macrobiotus hufelandi | 11 | 49.4 | Hi-C 11 | Pacbio_Smrt | 1 |
| Macrobiotus cf. hufelandi 1 MC-2011 | 11 | 57.2 | Hi-C 11 | Pacbio_Smrt | 1 |
| Milnesium tardigradum | 11 | 7.7 | RNA-Seq 5, AMPLICON 2, EST 2 | Illumina, Ls454, Pacbio_Smrt | 6 |
| Paramacrobiotus sp. | 10 | 0.1 | AMPLICON 10 | Illumina | 1 |
| Macrobiotus polonicus | 8 | 0.1 | AMPLICON 8 | Illumina | 1 |
| Echiniscoides sigismundi | 6 | 328.7 | Hi-C 5, RNA-Seq 1 | Pacbio_Smrt, Illumina | 2 |
| Macrobiotus macrocalix | 6 | 0.0 | AMPLICON 6 | Illumina | 1 |
| Macrobiotus kamilae | 6 | 0.0 | AMPLICON 6 | Illumina | 1 |
| Paramacrobiotus richtersi | 6 | 29.7 | RNA-Seq 5, WGS 1 | Illumina | 2 |
| Actinarctus doryphorus | 5 | 136.0 | Hi-C 3, WGS 2 | Illumina, Pacbio_Smrt | 2 |
| Milnesium sp. | 5 | 3.4 | AMPLICON 4, Targeted-Capture 1 | Illumina | 2 |
| Tardigrada sp. | 4 | 13.1 | WGS 4 | Illumina | 1 |
| Echiniscus blumi | 4 | 177.4 | WGS 3, Hi-C 1 | Illumina, Pacbio_Smrt | 3 |
| Halobiotus crispae | 4 | 242.6 | Hi-C 4 | Pacbio_Smrt, Illumina | 1 |
| Fontourion glaciale | 4 | 37.3 | WGS 4 | Pacbio_Smrt | 1 |
| Milnesium inceptum | 4 | 0.0 | AMPLICON 4 | Illumina | 1 |
| Mesobiotus sp. | 4 | 0.0 | AMPLICON 4 | Illumina | 1 |
| Macrobiotus hufelandi group | 4 | 0.0 | AMPLICON 4 | Illumina | 1 |
| Macrobiotus sottilei | 4 | 0.1 | AMPLICON 4 | Illumina | 1 |
| Tetrakentron synaptae | 3 | 65.1 | Hi-C 3 | Pacbio_Smrt | 1 |
| Stygarctus bradypus | 3 | 78.2 | Hi-C 3 | Pacbio_Smrt | 1 |
| Milnesium sp. PG-2024 | 3 | 192.1 | Hi-C 3 | Pacbio_Smrt, Illumina | 1 |
| Acutuncus giovanniniae | 3 | 48.3 | WGA 3 | Oxford_Nanopore | 1 |
| Tholoarctus natans | 3 | 100.9 | Hi-C 3 | Pacbio_Smrt | 1 |
| Richtersius coronifer | 3 | 7.0 | RNA-Seq 2, EST 1 | Illumina, Capillary | 3 |
| Hebesuncus conjugens | 2 | 160.2 | Hi-C 2 | Pacbio_Smrt, Illumina | 1 |
| Batillipes phreaticus | 2 | 21.3 | Hi-C 2 | Pacbio_Smrt | 1 |
| Echiniscoides galliensis | 2 | 27.5 | Hi-C 2 | Pacbio_Smrt | 1 |
| Echiniscus virginicus | 2 | 37.6 | Hi-C 2 | Pacbio_Smrt | 1 |
| Acanthechiniscus victor | 2 | 14.2 | Hi-C 1, WGA 1 | Pacbio_Smrt, Illumina | 2 |
| Echiniscus spinulosus | 2 | 182.9 | Hi-C 2 | Illumina, Pacbio_Smrt | 1 |
| Richtersius sp. PG-2024 | 2 | 167.6 | Hi-C 2 | Illumina, Pacbio_Smrt | 1 |
| Acutuncus mecnuffi | 2 | 25.7 | WGA 2 | Oxford_Nanopore | 1 |
| Bertolanius weglarskae | 2 | 300.8 | WGS 1, Hi-C 1 | Pacbio_Smrt, Illumina | 2 |
| Isoechiniscoides sifae | 2 | 40.0 | Hi-C 2 | Pacbio_Smrt | 1 |
| Neoechiniscoides aski | 2 | 48.5 | Hi-C 2 | Pacbio_Smrt | 1 |
| Batillipes littoralis | 2 | 66.1 | Hi-C 2 | Pacbio_Smrt | 1 |
| Batillipes sp. n. Roscoff_2025 | 2 | 44.0 | Hi-C 2 | Pacbio_Smrt | 1 |
| Cucumibius annulatus | 2 | 28.3 | WGS 2 | Dnbseq | 1 |
| Paramacrobiotus areolatus | 2 | 0.0 | AMPLICON 2 | Illumina | 1 |
| Echiniscus quadrispinosus | 2 | 26.4 | Hi-C 2 | Pacbio_Smrt | 1 |
| Cryoconicus kaczmareki | 2 | 19.5 | WGS 2 | Pacbio_Smrt | 1 |
| Macrobiotus sp. WM-2023 | 2 | 169.1 | Hi-C 2 | Pacbio_Smrt, Illumina | 1 |
| Adropion sp. WM-2023 | 2 | 183.6 | Hi-C 2 | Pacbio_Smrt, Illumina | 1 |
| Ramazzottius sp. WM-2023 | 2 | 154.9 | Hi-C 2 | Pacbio_Smrt, Illumina | 1 |
| Grevenius sp. WM-2023 | 2 | 194.6 | Hi-C 2 | Pacbio_Smrt, Illumina | 1 |
| Macrobiotus shonaicus | 2 | 0.0 | AMPLICON 2 | Illumina | 1 |
| Hypsibius sp. | 2 | 0.0 | AMPLICON 2 | Illumina | 1 |
| Thulinius ruffoi | 2 | 0.0 | AMPLICON 2 | Illumina | 1 |
| Macrobiotus canaricus | 2 | 0.0 | AMPLICON 2 | Illumina | 1 |
| Pseudobiotus sp. | 2 | 0.0 | AMPLICON 2 | Illumina | 1 |
| Macrobiotus sp. | 2 | 0.0 | AMPLICON 2 | Illumina | 1 |
| Macrobiotus noongaris | 2 | 0.0 | AMPLICON 2 | Illumina | 1 |
| Limmenius porcellus | 1 | 17.5 | Hi-C 1 | Pacbio_Smrt | 1 |
| Antechiniscus perplexus | 1 | 17.1 | Hi-C 1 | Pacbio_Smrt | 1 |
| Echiniscus jamesi | 1 | 23.0 | Hi-C 1 | Pacbio_Smrt | 1 |
| Tenuibiotus danilovi | 1 | 16.4 | Hi-C 1 | Pacbio_Smrt | 1 |
| Oreella sp. n. NZ.053 | 1 | 17.6 | Hi-C 1 | Pacbio_Smrt | 1 |
| Dactylobiotus parthenogeneticus | 1 | 20.9 | Hi-C 1 | Pacbio_Smrt | 1 |
| Echiniscus hoonsooi | 1 | 20.9 | Hi-C 1 | Pacbio_Smrt | 1 |
| Acanthechiniscus islandicus | 1 | 6.1 | Hi-C 1 | Pacbio_Smrt | 1 |
| Grevenius granulifer | 1 | 11.0 | Hi-C 1 | Pacbio_Smrt | 1 |
| Tenuibiotus ciprianoi | 1 | 15.0 | Hi-C 1 | Pacbio_Smrt | 1 |
| Echiniscus sp. n. US.205 | 1 | 26.8 | Hi-C 1 | Pacbio_Smrt | 1 |
| Echiniscus curiosus | 1 | 26.1 | Hi-C 1 | Pacbio_Smrt | 1 |
| Claxtonia vincula | 1 | 20.9 | Hi-C 1 | Pacbio_Smrt | 1 |
| Echiniscus duboisi | 1 | 22.0 | Hi-C 1 | Pacbio_Smrt | 1 |
| Echiniscus velaminis | 1 | 16.8 | Hi-C 1 | Pacbio_Smrt | 1 |
| Echiniscus sp. n. AU.829 | 1 | 16.5 | Hi-C 1 | Pacbio_Smrt | 1 |
| Pseudechiniscus sp. NZ.048 | 1 | 16.5 | Hi-C 1 | Pacbio_Smrt | 1 |
| Zealandiscus palmai | 1 | 21.1 | Hi-C 1 | Pacbio_Smrt | 1 |
| Borealibius zetlandicus | 1 | 22.9 | Hi-C 1 | Pacbio_Smrt | 1 |
| Xerobiotus sp. PL360 | 1 | 20.2 | Hi-C 1 | Pacbio_Smrt | 1 |
| Adropion scoticum | 1 | 21.5 | Hi-C 1 | Pacbio_Smrt | 1 |
| Platicrista angustata | 1 | 18.0 | Hi-C 1 | Pacbio_Smrt | 1 |
| Hypechiniscus gladiator | 1 | 19.7 | Hi-C 1 | Pacbio_Smrt | 1 |
| Hypechiniscus exarmatus | 1 | 20.9 | Hi-C 1 | Pacbio_Smrt | 1 |
| Pseudechiniscus sp. 9 PG-2020 | 1 | 17.4 | Hi-C 1 | Pacbio_Smrt | 1 |
| Paramacrobiotus gadabouti | 1 | 19.8 | Hi-C 1 | Pacbio_Smrt | 1 |
| Hypsibius scabropygus | 1 | 270.6 | Hi-C 1 | Illumina | 1 |
| Claxtonia wendti | 1 | 51.9 | WGS 1 | Pacbio_Smrt | 1 |
| Mesocrista revelata | 1 | 54.0 | WGS 1 | Pacbio_Smrt | 1 |
| Halechiniscus remanei | 1 | 18.0 | Hi-C 1 | Pacbio_Smrt | 1 |
| Tanarctus sp. n. Roscoff_2025 | 1 | 17.4 | Hi-C 1 | Pacbio_Smrt | 1 |
| Raiarctus sp. n. Roscoff_2025 | 1 | 17.1 | Hi-C 1 | Pacbio_Smrt | 1 |
| Florarctus hulingsi | 1 | 17.8 | Hi-C 1 | Pacbio_Smrt | 1 |
| Halechiniscus sp. n. Roscoff_2025 | 1 | 16.8 | Hi-C 1 | Pacbio_Smrt | 1 |
| Calohypsibius ornatus | 1 | 17.6 | Hi-C 1 | Pacbio_Smrt | 1 |
| Dianea sattleri | 1 | 19.5 | Hi-C 1 | Pacbio_Smrt | 1 |
| Paramurrayon meieri | 1 | 23.0 | Hi-C 1 | Pacbio_Smrt | 1 |
| Proechiniscus hanneae | 1 | 19.7 | Hi-C 1 | Pacbio_Smrt | 1 |
| Minibiotus ioculator | 1 | 15.8 | Hi-C 1 | Pacbio_Smrt | 1 |
| Testechiniscus spitsbergensis | 1 | 12.8 | Hi-C 1 | Pacbio_Smrt | 1 |
| Cornechiniscus imperfectus | 1 | 22.6 | Hi-C 1 | Pacbio_Smrt | 1 |
| Ramajendas frigidus | 1 | 25.4 | Hi-C 1 | Pacbio_Smrt | 1 |
| Milnesium reductum | 1 | 13.3 | Hi-C 1 | Pacbio_Smrt | 1 |
| Macrobiotus pallarii | 1 | 14.1 | Hi-C 1 | Pacbio_Smrt | 1 |
| Echiniscus dentatus | 1 | 7.3 | Hi-C 1 | Pacbio_Smrt | 1 |
| Isohypsibioidea sp. MV2024 | 1 | 2.3 | WGA 1 | Oxford_Nanopore | 1 |
| Xerobiotus inermis | 1 | 4.9 | WGA 1 | Illumina | 1 |
| Ramazzottius claudii | 1 | 3.7 | WGA 1 | Oxford_Nanopore | 1 |
| Hypsibius sp. PL.016 | 1 | 0.4 | Hi-C 1 | Pacbio_Smrt | 1 |
| Pseudobiotus megalonyx | 1 | 1.2 | Hi-C 1 | Pacbio_Smrt | 1 |
| Paramacrobiotus richtersi group sp. WM-2023 | 1 | 1.0 | Hi-C 1 | Pacbio_Smrt | 1 |
| Astatumen sp. WM-2023 | 1 | 0.9 | Hi-C 1 | Pacbio_Smrt | 1 |
| Batillipes tubernatis | 1 | 0.3 | Hi-C 1 | Pacbio_Smrt | 1 |
| Pseudechiniscus suillus | 1 | 0.2 | Hi-C 1 | Pacbio_Smrt | 1 |
| Pleocola limnoriae | 1 | 0.1 | Hi-C 1 | Pacbio_Smrt | 1 |
| Cornechiniscus holmeni | 1 | 6.7 | WGS 1 | Illumina | 1 |
| Isohypsibius dastychi | 1 | 11.2 | WGS 1 | Illumina | 1 |
| Diploechiniscus oihonnae | 1 | 14.1 | Hi-C 1 | Pacbio_Smrt | 1 |
| Mesobiotus philippinicus | 1 | 7.0 | RNA-Seq 1 | Illumina | 1 |
Catalogued from NCBI (Datasets, Nucleotide and SRA) in September 2026. Everything we derived and can share is on the resources page. Updated 18 September 2026.
How this is built
- Data
- NCBI's records for the whole phylum Tardigrada: genome assemblies (NCBI Datasets), mitochondrial genomes (Nucleotide) and sequencing runs (Sequence Read Archive), harvested in September 2026.
- Built with
ncbi_taxon_data.pyharvests the three catalogues.build_datasets.pytallies runs, gigabases, kinds of sequencing, instruments and projects for each taxon, and draws the chart of the 25 most-sequenced taxa as SVG.- Checked
- Not tested against data: counts are as NCBI reports them.
- Limits
- A snapshot: anything deposited since is missing. Taxa are as the submitters named them, so runs filed under H. dujardini are mostly the H. exemplaris lab strain.
- More
- How the whole project is built