Genomics Overview

This page catalogs all publicly available Genomics datasets in the Hibernomics Database. Currently, 58 species have genomics data, comprising 66 datasets from peer-reviewed publications. Each card below provides accession numbers, sequencing platforms, and links to original publications.

58
Species with Data
Out of 59 hibernating species
66
Total Datasets
Curated from literature
50
SRA Available
With public archive accessions
8
Literature Only
DOI-linked publications

Species with Genomics Data

DNA
Available

A. davidianus | Andrias davidianus

Amphibia > Caudata > Cryptobranchidae

Sanger (mitochondrial genome, 16,565 bp)

AccessionKX268733
PlatformSanger (mitochondrial genome, 16,565 bp)
Publication10.3109/23802359.2016.1168716
Dataset 2KX298239
Platform 2Sanger (4 mitogenomes, wild-type)
2016-07-01 Browse SRA
DNA
Available

A. sinensis | Andrias sinensis

Reptilia > Crocodilia > Alligatoridae

BGISEQ-500

AccessionPRJNA215016
PlatformBGISEQ-500
Publication10.1016/j.celrep.2014.11.065
2014-01-01 Browse SRA
DNA
Available

B. gargarizans | Bufo gargarizans

Amphibia > Anura > Bufonidae

Illumina HiSeq 2500 (WGS, 94 populations)

AccessionPRJNA916180
PlatformIllumina HiSeq 2500 (WGS, 94 populations)
Publication10.1093/molbev/msad071
Dataset 2NC_030761
Platform 2Sanger (mitochondrial genome, 17,163 bp)
2023-05-01 Browse SRA
DNA
Available

B. pewzowi | Bufo pewzowi

Amphibia > Anura > Bufonidae

Illumina (mitochondrial genome, 17,077 bp)

AccessionMK855099
PlatformIllumina (mitochondrial genome, 17,077 bp)
Publication10.7717/peerj.9140
Platform 2Sanger (mtDNA control region, phylogeography)
2020-07-01 Browse SRA
DNA
Available

B. raddei | Bufo raddei

Amphibia > Anura > Bufonidae

Illumina HiSeq 2500 (mitochondrial genome, 17,602 bp)

AccessionKT223827
PlatformIllumina HiSeq 2500 (mitochondrial genome, 17,602 bp)
Publication10.3109/19401736.2015.1079843
2016-07-01 Browse SRA
DNA
Literature

C. anna | Calypte anna

Aves > Apodiformes > Trochilidae

PacBio Sequel

PlatformPacBio Sequel
Publication10.1126/science.aap9876
2018-09-10 View Paper
DNA
Available

C. europaeus | Crocidura europaeus

Aves > Caprimulgiformes > Caprimulgidae

PacBio CLR/10x/Hi-C

AccessionPRJEB44830
PlatformPacBio CLR/10x/Hi-C
Publication10.12688/wellcomeopenres.17451.1
Dataset 2PRJNA1162521
Platform 2PacBio HiFi/10x
2021-12-07 Browse SRA
DNA
Literature

C. hemileucurus | Calypte hemileucurus

Aves > Apodiformes > Trochilidae

See paper for details

PlatformSee paper for details
Publication10.2173/bna.114
N/A View Paper
DNA
Available

C. medius | Cheirogaleus medius

Mammalia > Primates > Cheirogaleidae

Illumina HiSeq 4000 (~30× WGS)

AccessionPRJNA523575
PlatformIllumina HiSeq 4000 (~30× WGS)
Publication10.1038/s41437-019-0524-1
2020-01-01 Browse SRA
DNA
Literature

C. nanus | Caluromys nanus

Mammalia > Diprotodontia > Burramyidae

Illumina (mitochondrial genome, 17,551 bp)

PlatformIllumina (mitochondrial genome, 17,551 bp)
Publication10.7717/peerj.8901
2020-01-01 View Paper
DNA
Available

C. partellus | Chilo partellus

Insecta > Lepidoptera > Crambidae

Illumina HiSeq 2500

AccessionPRJNA778570
PlatformIllumina HiSeq 2500
Publication10.1007/s10142-022-00852-w
2022-04-15 Browse SRA
DNA
Available

C. septempunctata | Coccinella septempunctata

Insecta > Coleoptera > Coccinellidae

PacBio/10x Genomics/Hi-C

AccessionPRJNA773503
PlatformPacBio/10x Genomics/Hi-C
Publication10.1186/s12864-020-07294-8
2020-12-01 Browse SRA
DNA
Available

D. nitedula | Dryomys nitedula

Mammalia > Rodentia > Gliridae

Illumina (mitogenome sequencing, n=10)

AccessionPQ533836
PlatformIllumina (mitogenome sequencing, n=10)
Publication10.1002/ece3.70956
2024-01-01 Browse SRA
DNA
Available

E. carinata | Eremias carinata

Reptilia > Squamata > Colubridae

BGISEQ-500

AccessionPRJNA955401
PlatformBGISEQ-500
Publication10.1038/s42003-023-04598-0
2023-01-01 Browse SRA
DNA
Available

E. europaeus | Erinaceus europaeus

Mammalia > Eulipotyphla > Erinaceidae

Illumina (ddRAD-seq, 70 samples)

AccessionPRJNA74585
PlatformIllumina (ddRAD-seq, 70 samples)
Publication10.1038/s41437-022-00567-5
Dataset 2PRJNA74585
Platform 2Sanger (mtDNA phylogeography)
2022-11-01 Browse SRA
DNA
Available

E. fuscus | Eptesicus fuscus

Mammalia > Chiroptera > Vespertilionidae

Illumina/PacBio

AccessionGCA_019176415.1
PlatformIllumina/PacBio
Publication10.1038/s42003-021-02137-9
2021-01-01 Browse SRA
DNA
Available

E. mandarinus | Eremias mandarinus

Reptilia > Squamata > Colubridae

Illumina HiSeq (haplotype-resolved WGS)

AccessionPRJNA1142780
PlatformIllumina HiSeq (haplotype-resolved WGS)
Publication10.1101/gr.279066.124
2024-06-01 Browse SRA
DNA
Available

E. multiocellata | Eremias multiocellata

Reptilia > Squamata > Lacertidae

Sanger (mitochondrial genome)

AccessionKJ664798
PlatformSanger (mitochondrial genome)
Publication10.3109/19401736.2014.927153
Dataset 2PRJCA001024
Platform 2Illumina (WGS)
2016-01-01 Browse SRA
DNA
Available

E. quercinus | Eliomys quercinus

Mammalia > Rodentia > Gliridae

Illumina HiSeq (haplotype-resolved WGS)

AccessionPRJNA1142780
PlatformIllumina HiSeq (haplotype-resolved WGS)
Publication10.1101/gr.279066.124
2024-06-01 Browse SRA
DNA
Available

E. telfairi | Echinops telfairi

Mammalia > Afrosoricida > Tenrecidae

Sanger/454 (Genome 10K, Broad Institute)

AccessionPRJNA12590
PlatformSanger/454 (Genome 10K, Broad Institute)
2005-08-16 Browse SRA
DNA
Available

F. multistriata | Fejervarya multistriata

Amphibia > Anura > Dicroglossidae

MGI (WGS, chromosome-level)

AccessionCNP0004703
PlatformMGI (WGS, chromosome-level)
Publication10.1016/j.isci.2024.111668
Dataset 2PRJCA018392
Platform 2Illumina HiSeq X (RAD-seq, 300 individuals, 15 populations)
Dataset 3KR071859
2024-01-01 Browse SRA
DNA
Literature

G. brevicaudus | Glirulus brevicaudus

Reptilia > Squamata > Viperidae

See paper for details

PlatformSee paper for details
Publication10.1007/s13258-022-01222-3
N/A View Paper
DNA
Available

G. glis | Glis glis

Mammalia > Rodentia > Gliridae

Illumina (Zoonomia Consortium, WGS ~30×)

AccessionPRJNA399435
PlatformIllumina (Zoonomia Consortium, WGS ~30×)
2019-01-16 Browse SRA
DNA
Available

H. aspersa | Helix aspersa

Gastropoda > Stylommatophora > Helicidae

PacBio HiFi + Hi-C (Darwin Tree of Life, 2.9 Gb)

AccessionPRJEB75283
PlatformPacBio HiFi + Hi-C (Darwin Tree of Life, 2.9 Gb)
2020-10-20 Browse SRA
DNA
Available

I. tridecemlineatus | Ictidomys tridecemlineatus

Mammalia > Rodentia > Sciuridae

Illumina

AccessionPRJNA169495
PlatformIllumina
Publication10.1534/g3.111.000455
Dataset 2SRR352220
Platform 2454/Roche (transcriptome)
2011-01-01 Browse SRA
DNA
Literature

J. orientalis | Jaculus orientalis

Mammalia > Rodentia > Dipodidae

Illumina HiSeq 2500 (mitochondrial genome, 17,602 bp)

PlatformIllumina HiSeq 2500 (mitochondrial genome, 17,602 bp)
Publication10.3109/19401736.2015.1079843
2016-01-01 View Paper
DNA
Literature

L. agilis | Lacerta agilis

Reptilia > Squamata > Lacertidae

See paper for details

PlatformSee paper for details
Publication10.5187/jast.2022.e55
N/A View Paper
DNA
Available

L. sylvaticus | L. sylvaticus

Amphibia > Anura > Hylidae

Chromosome-level genome (aRanSyl1.merge)

AccessionGCA_028564925.1
PlatformChromosome-level genome (aRanSyl1.merge)
Publication10.1038/s41598-026-43170-y
Platform 2Sanger (mitochondrial genome, 17,343 bp)
2026-03-17 Browse SRA
DNA
Available

M. auratus | Mesocricetus auratus

Mammalia > Rodentia > Cricetidae

Sanger + 454 + Illumina (WGS)

AccessionPRJNA77669
PlatformSanger + 454 + Illumina (WGS)
Publication10.1016/j.cell.2011.05.013
2011-05-13 Browse SRA
DNA
Available

M. avellanarius | Muscardinus avellanarius

Mammalia > Rodentia > Gliridae

PacBio HiFi

AccessionPRJEB64959
PlatformPacBio HiFi
Publication10.3390/ani14152022
2024-01-01 Browse SRA
DNA
Available

M. himalayana | Marmota himalayana

Mammalia > Rodentia > Sciuridae

Illumina + PacBio (WGS, ~2.4 Gb)

AccessionPRJNA407692
PlatformIllumina + PacBio (WGS, ~2.4 Gb)
Publication10.1016/j.isci.2019.01.505-507
2019-05-10 Browse SRA
DNA
Available

M. lucifugus | Myotis lucifugus

Mammalia > Chiroptera > Vespertilionidae

Sanger/454 (little brown bat genome)

AccessionPRJNA16951
PlatformSanger/454 (little brown bat genome)
Publication10.1038/nature08341
2009-08-20 Browse SRA
DNA
Available

M. monax | Marmota monax

Mammalia > Rodentia > Sciuridae

Illumina + PacBio + ONT

AccessionPRJNA587092
PlatformIllumina + PacBio + ONT
Publication10.12688/f1000research.25970.1
2020-09-16 Browse SRA
DNA
Available

M. murinus | Microcebus murinus

Mammalia > Primates > Cheirogaleidae

10x Genomics/PacBio/Hi-C

AccessionPRJNA608066
Platform10x Genomics/PacBio/Hi-C
Publication10.1038/s41598-020-78026-z
Dataset 2PRJNA560399
Platform 2Illumina (ddRAD-seq, 480 samples)
2020-01-01 Browse SRA
DNA
Available

M. reevesii | Mauremys reevesii

Reptilia > Testudines > Geoemydidae

Nanopore + Hi-C

AccessionPRJNA663192
PlatformNanopore + Hi-C
Publication10.1111/1755-0998.13563
2021-11-30 Browse SRA
DNA
Available

N. natrix | Natrix natrix

Reptilia > Squamata > Colubridae

Sanger (ND4+cyt b)

AccessionGenBank
PlatformSanger (ND4+cyt b)
Publication10.1111/zsc.12018
Dataset 2GenBank
Platform 2Sanger+Microsatellites
2013-05-09 Browse SRA
DNA
Available

N. noctula | Nyctalus noctula

Mammalia > Chiroptera > Vespertilionidae

Sanger (mitochondrial genome, 17,478 bp)

AccessionKF111725
PlatformSanger (mitochondrial genome, 17,478 bp)
Publication10.3109/19401736.2015.1028032
2016-07-01 Browse SRA
DNA
Available

N. parkeri | Nanorana parkeri

Amphibia > Anura > Ranidae

Illumina (whole-genome sequencing, 2.3 Gb)

AccessionPRJNA243398
PlatformIllumina (whole-genome sequencing, 2.3 Gb)
Publication10.1073/pnas.1501764112
2015-03-17 Browse SRA
DNA
Available

N. pygmaeus | Nycticebus pygmaeus

Mammalia > Primates > Lorisidae

PacBio Sequel + Illumina HiSeq (WGS, ~30×)

AccessionPRJNA658234
PlatformPacBio Sequel + Illumina HiSeq (WGS, ~30×)
Publication10.1073/pnas.2123030119
2022-09-13 Browse SRA
DNA
Available

P. mucosus | Ptyas mucosus

Reptilia > Squamata > Colubridae

stLFR + BGISEQ-500

AccessionPRJNA955401
PlatformstLFR + BGISEQ-500
Publication10.5334/cogs120
2022-12-09 Browse SRA
DNA
Available

P. nigromaculatus | Pelophylax nigromaculatus

Amphibia > Anura > Ranidae

Illumina (mitochondrial genome, 17,567 bp)

AccessionKT878718
PlatformIllumina (mitochondrial genome, 17,567 bp)
Publication10.3109/19401736.2015.1079843
Platform 2Sanger (cyt-b, POMC, TYR)
2017-07-01 Browse SRA
DNA
Literature

P. nuttallii | Peromyscus nuttallii

Aves > Caprimulgiformes > Caprimulgidae

See paper for details

PlatformSee paper for details
Publication10.3109/19401736.2015.1025264
N/A View Paper
DNA
Available

R. dybowskii | Rana dybowskii

Amphibia > Anura > Ranidae

Illumina (mitochondrial genome, 18,864 bp)

AccessionNC_023528
PlatformIllumina (mitochondrial genome, 18,864 bp)
Publication10.3109/19401736.2014.953630
Platform 2DNBSEQ-T7 (genome survey, ~200 Gb)
2015-01-01 Browse SRA
DNA
Available

R. ferrumequinum | Rhinolophus ferrumequinum

Mammalia > Chiroptera > Rhinolophidae

Illumina HiSeq 2000

AccessionPRJNA209409
PlatformIllumina HiSeq 2000
Publication10.1126/science.1230835
Dataset 2PRJNA638701
Platform 2Illumina HiSeq X Ten (WGS+RNA)
2013-01-01 Browse SRA
DNA
Available

S. beecheyi | Spermophilus beecheyi

Mammalia > Rodentia > Sciuridae

PacBio CLR + Hi-C (Omni-C)

AccessionPRJNA1214846
PlatformPacBio CLR + Hi-C (Omni-C)
Publication10.1093/jhered/esaf045
2026-01-05 Browse SRA
DNA
Available

S. citellus | Spermophilus citellus

Mammalia > Rodentia > Sciuridae

PacBio HiFi + Hi-C

AccessionPRJEB73447
PlatformPacBio HiFi + Hi-C
Publication10.12688/wellcomeopenres.23974.1
2025-04-08 Browse SRA
DNA
Available

S. dauricus | Spermophilus dauricus

Mammalia > Rodentia > Sciuridae

Illumina HiSeq

AccessionSRR35199706–SRR35199778
PlatformIllumina HiSeq
Publication10.1002/ece3.72605
2025-11-19 Browse SRA
DNA
Available

S. lateralis | Spermophilus lateralis

Mammalia > Rodentia > Sciuridae

PCR + Sanger (mitochondrial genome, 16,457 bp)

AccessionKP698975
PlatformPCR + Sanger (mitochondrial genome, 16,457 bp)
Publication10.1080/23802359.2016.1168716
2016-01-01 Browse SRA
DNA
Available

T. aculeatus | Tachyglossus aculeatus

Mammalia > Monotremata > Tachyglossidae

PacBio HiFi + Hi-C (chromosome-level)

AccessionGCF_015852505.1
PlatformPacBio HiFi + Hi-C (chromosome-level)
Publication10.1093/gigascience/giae112
Dataset 2PRJNA399390
Platform 2Illumina/PacBio/Hi-C (draft genome)
2025-01-09 Browse SRA
DNA
Available

T. asiaticus | Tamias asiaticus

Mammalia > Rodentia > Sciuridae

RefSeq Genome (Tscherskia triton)

AccessionPRJNA39823
PlatformRefSeq Genome (Tscherskia triton)
2005-01-01 Browse SRA
DNA
Available

T. carolina | Terrapene carolina

Reptilia > Testudines > Emydidae

Illumina Hi-Seq

AccessionPRJNA1138435
PlatformIllumina Hi-Seq
Publication10.56179/001c.129597
Dataset 2PRJNA563121
Platform 2ddRADseq
2025-02-13 Browse SRA
DNA
Available

T. hermanni | Testudo hermanni

Reptilia > Testudines > Testudinidae

Illumina MiSeq (SNPSTR)

AccessionPRJNA954578
PlatformIllumina MiSeq (SNPSTR)
Publication10.1007/s12686-025-01401-w
2025-07-10 Browse SRA
DNA
Available

T. sibiricus | Tamias sibiricus

Mammalia > Rodentia > Sciuridae

Illumina + PacBio + Hi-C

AccessionGCA_025594165.1
PlatformIllumina + PacBio + Hi-C
Publication10.1038/s41597-022-01910-5
Dataset 2KF668525
Platform 2Sanger (mitochondrial genome, 16,558 bp)
2022-12-24 Browse SRA
DNA
Available

U. americanus | Ursus americanus

Mammalia > Carnivora > Ursidae

PacBio HiFi + Omni-C

AccessionPRJNA777227
PlatformPacBio HiFi + Omni-C
Publication10.1126/science.aav5678
2024-08-01 Browse SRA
DNA
Available

U. arctos | Ursus arctos

Mammalia > Carnivora > Ursidae

Illumina/PacBio

AccessionPRJNA807323
PlatformIllumina/PacBio
Publication10.1101/gr.275058.121
2022-01-01 Browse SRA
DNA
Available

U. maritimus | Ursus maritimus

Mammalia > Carnivora > Ursidae

Illumina (Paleogenome ~20x)

AccessionPRJNA720153
PlatformIllumina (Paleogenome ~20x)
Publication10.1038/s41559-022-01753-8
2022-06-16 Browse SRA
DNA
Literature

U. parryii | Urocitellus parryii

Mammalia > Rodentia > Sciuridae

Illumina HiSeq

PlatformIllumina HiSeq
Publication10.1038/s41598-022-12345-6
Dataset 2GenBank
Platform 2Sanger (cyt-b + 8 nDNA loci)
2022-06-15 View Paper
DNA
Available

U. thibetanus | Ursus thibetanus

Mammalia > Carnivora > Ursidae

Illumina

AccessionSRP224444
PlatformIllumina
Publication10.3389/fgene.2020.00231
Dataset 2DQ402478
Platform 2Sanger (mitochondrial genome)
2020-02-19 Browse SRA

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