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LIBRIS Formathandbok  (Information om MARC21)
FältnamnIndikatorerMetadata
00011723naa a2201093 4500
001oai:DiVA.org:uu-510789
003SwePub
008230907s2023 | |||||||||||000 ||eng|
009oai:DiVA.org:kth-334954
009oai:DiVA.org:nrm-5407
0247 a https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-5107892 URI
0247 a https://doi.org/10.1186/s13059-023-03023-72 DOI
0247 a https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-3349542 URI
0247 a https://urn.kb.se/resolve?urn=urn:nbn:se:nrm:diva-54072 URI
040 a (SwePub)uud (SwePub)kthd (SwePub)nrm
041 a engb eng
042 9 SwePub
072 7a ref2 swepub-contenttype
072 7a art2 swepub-publicationtype
1001 a Meadows, Jenniferu Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Science for Life Laboratory, SciLifeLab,Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University, 75132, Uppsala, Sweden4 aut0 (Swepub:uu)jenme818
2451 0a Genome sequencing of 2000 canids by the Dog10K consortium advances the understanding of demography, genome function and architecture
264 1b BioMed Central (BMC),c 2023
338 a electronic2 rdacarrier
500 a Correction in: Genome Biology volume 24, Article number: 255 (2023)DOI: 10.1186/s13059-023-03101-w
500 a Correction in: Genome Biology, vol. 24, issue 1. DOI:10.1186/s13059-023-03101-wQC 20231116
520 a Background: The international Dog10K project aims to sequence and analyze several thousand canine genomes. Incorporating 20 x data from 1987 individuals, including 1611 dogs (321 breeds), 309 village dogs, 63 wolves, and four coyotes, we identify genomic variation across the canid family, setting the stage for detailed studies of domestication, behavior, morphology, disease susceptibility, and genome architecture and function.Results: We report the analysis of > 48 M single-nucleotide, indel, and structural variants spanning the autosomes, X chromosome, and mitochondria. We discover more than 75% of variation for 239 sampled breeds. Allele sharing analysis indicates that 94.9% of breeds form monophyletic clusters and 25 major clades. German Shepherd Dogs and related breeds show the highest allele sharing with independent breeds from multiple clades. On average, each breed dog differs from the UU_Cfam_GSD_1.0 reference at 26,960 deletions and 14,034 insertions greater than 50 bp, with wolves having 14% more variants. Discovered variants include retrogene insertions from 926 parent genes. To aid functional prioritization, single-nucleotide variants were annotated with SnpEff and Zoonomia phyloP constraint scores. Constrained positions were negatively correlated with allele frequency. Finally, the utility of the Dog10K data as an imputation reference panel is assessed, generating high-confidence calls across varied genotyping platform densities including for breeds not included in the Dog10K collection.Conclusions: We have developed a dense dataset of 1987 sequenced canids that reveals patterns of allele sharing, identifies likely functional variants, informs breed structure, and enables accurate imputation. Dog10K data are publicly available.
650 7a NATURVETENSKAPx Biologix Genetik0 (SwePub)106092 hsv//swe
650 7a NATURAL SCIENCESx Biological Sciencesx Genetics0 (SwePub)106092 hsv//eng
650 7a LANTBRUKSVETENSKAPERx Bioteknologi med applikationer på växter och djurx Genetik och förädling inom lantbruksvetenskap0 (SwePub)404022 hsv//swe
650 7a AGRICULTURAL SCIENCESx Agricultural Biotechnologyx Genetics and Breeding in Agricultural Sciences0 (SwePub)404022 hsv//eng
653 a Canine
653 a Dog
653 a Genomics
653 a Variation
653 a Demographic history
653 a Mitochondrial DNA
653 a Genetic diversity
653 a Diversity of life
7001 a Kidd, Jeffrey M.u Univ Michigan, Dept Human Genet, Ann Arbor, MI 48107 USA.4 aut
7001 a Wang, Guo-Dongu Chinese Acad Sci, Kunming Inst Zool, State Key Lab Genet Resources & Evolut, Kunming 650223, Peoples R China.4 aut
7001 a Parker, Heidi G.u NHGRI, NIH, 50 South Dr,Bldg 50 Room 5351, Bethesda, MD 20892 USA.4 aut
7001 a Schall, Peter Z.u Univ Michigan, Dept Human Genet, Ann Arbor, MI 48107 USA.4 aut
7001 a Bianchi, Matteou Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Science for Life Laboratory, SciLifeLab4 aut0 (Swepub:uu)matbi944
7001 a Christmas, Matthewu Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Science for Life Laboratory, SciLifeLab4 aut0 (Swepub:uu)match108
7001 a Bougiouri, Katiau Univ Copenhagen, Globe Inst, Sect Mol Ecol & Evolut, Oster Voldgade 5-7, DK-1350 Copenhagen, Denmark.4 aut
7001 a Buckley, Reuben M.u NHGRI, NIH, 50 South Dr,Bldg 50 Room 5351, Bethesda, MD 20892 USA.4 aut
7001 a Hitte, Christopheu Univ Rennes, Inst Genet & Dev Rennes UMR6290, CNRS, F-35000 Rennes, France.4 aut
7001 a Nguyen, Anthony K.u Univ Michigan, Dept Human Genet, Ann Arbor, MI 48107 USA.4 aut
7001 a Wang, Chaou Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Science for Life Laboratory, SciLifeLab4 aut0 (Swepub:uu)chawa410
7001 a Jagannathan, Vidhyau Univ Bern, Inst Genet, Vetsuisse Fac, CH-3001 Bern, Switzerland.4 aut
7001 a Niskanen, Julia E.u Univ Helsinki, Dept Med & Clin Genet, Dept Vet Biosci, Helsinki 02900, Finland.;Folkhalsan Res Ctr, Helsinki 02900, Finland.4 aut
7001 a Frantz, Laurent A. F.u Queen Mary Univ London, Sch Biol & Behav Sci, London E1 4NS, England.;Ludwig Maximilians Univ Munchen, Dept Vet Sci, Palaeogen Grp, D-80539 Munich, Germany.4 aut
7001 a Arumilli, Meharjiu Univ Helsinki, Dept Med & Clin Genet, Dept Vet Biosci, Helsinki 02900, Finland.;Folkhalsan Res Ctr, Helsinki 02900, Finland.4 aut
7001 a Hundi, Sruthiu Univ Helsinki, Dept Med & Clin Genet, Dept Vet Biosci, Helsinki 02900, Finland.;Folkhalsan Res Ctr, Helsinki 02900, Finland.4 aut
7001 a Lindblad-Toh, Kerstinu Uppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Science for Life Laboratory, SciLifeLab,Broad Inst MIT & Harvard, Cambridge, MA 02142 USA.4 aut0 (Swepub:uu)kerli865
7001 a Ginja, Catarinau Univ Porto, BIOPOLIS CIBIO InBIO Ctr Invest Biodiversidade & R, ArchGen Grp, P-4485661 Vairao, Portugal.4 aut
7001 a Agustina, Kadek Karangu Udayana Univ, Dept Publ Hlth, Bali 80361, Indonesia.4 aut
7001 a Andre, Catherineu Univ Rennes, Inst Genet & Dev Rennes UMR6290, CNRS, F-35000 Rennes, France.4 aut
7001 a Boyko, Adam R.u Cornell Univ, Dept Biomed Sci, 930 Campus Rd, Ithaca, NY 14853 USA.4 aut
7001 a Davis, Brian W.u Texas A&M Univ, Sch Vet Med & Biomed Sci, Dept Vet Integrat Biosci, College Stn, TX 77843 USA.4 aut
7001 a Drögemüller, Michaelau Univ Bern, Inst Genet, Vetsuisse Fac, CH-3001 Bern, Switzerland.4 aut
7001 a Feng, Xin-Yaou Chinese Acad Sci, Kunming Inst Zool, State Key Lab Genet Resources & Evolut, Kunming 650223, Peoples R China.4 aut
7001 a Gkagkavouzis, Konstantinosu Aristotle Univ Thessaloniki, Sch Biol, Dept Genet, Thessaloniki 54124, Macedonia, Greece.;Ctr Interdisciplinary Res & Innovat CIRI AUTH, Balkan Ctr, Genom & Epigen Translat Res GENeTres, Thessaloniki, Greece.4 aut
7001 a Iliopoulos, Giorgosu NGO Callisto, Wildlife & Nat Conservat Soc, Thessaloniki 54621, Greece.4 aut
7001 a Harris, Alexander C.u NHGRI, NIH, 50 South Dr,Bldg 50 Room 5351, Bethesda, MD 20892 USA.4 aut
7001 a Hytonen, Marjo K.u Univ Helsinki, Dept Med & Clin Genet, Dept Vet Biosci, Helsinki 02900, Finland.;Folkhalsan Res Ctr, Helsinki 02900, Finland.4 aut
7001 a Kalthoff, Daniela C.u Naturhistoriska riksmuseet,Enheten för zoologi4 aut0 (Swepub:nrm)danikalt
7001 a Liu, Yan-Huu Chinese Acad Sci, Kunming Inst Zool, State Key Lab Genet Resources & Evolut, Kunming 650223, Peoples R China.4 aut
7001 a Lymberakis, Petrosu Univ Crete, Nat Hist Museum Crete, Iraklion 71202, Greece.;Univ Crete, Dept Biol, Iraklion 71202, Greece.;Univ Crete, Sch Sci & Engn, Biol Dept, Iraklion, Greece.;Fdn Res & Technol Hellas FORTH, Inst Mol Biol & Biotechnol IMBB, Palaeogen & Evolutionary Genet Lab, Iraklion, Greece.4 aut
7001 a Poulakakis, Nikolaosu Univ Crete, Nat Hist Museum Crete, Iraklion 71202, Greece.;Univ Crete, Dept Biol, Iraklion 71202, Greece.;Univ Crete, Sch Sci & Engn, Biol Dept, Iraklion, Greece.;Fdn Res & Technol Hellas FORTH, Inst Mol Biol & Biotechnol IMBB, Palaeogen & Evolutionary Genet Lab, Iraklion, Greece.4 aut
7001 a Pires, Ana Elisabeteu Univ Porto, BIOPOLIS CIBIO InBIO Ctr Invest Biodiversidade & R, ArchGen Grp, P-4485661 Vairao, Portugal.4 aut
7001 a Racimo, Fernandou Univ Copenhagen, Globe Inst, Sect Mol Ecol & Evolut, Oster Voldgade 5-7, DK-1350 Copenhagen, Denmark.4 aut
7001 a Ramos-Almodovar, Fabianu Univ Michigan, Dept Human Genet, Ann Arbor, MI 48107 USA.4 aut
7001 a Savolainen, Peteru KTH,Science for Life Laboratory, SciLifeLab,Genteknologi,KTH Royal Inst Technol, Dept Gene Technol, Sci Life Lab, S-17121 Solna, Sweden.4 aut0 (Swepub:kth)u1vb4l6u
7001 a Venetsani, Seminau Aristotle Univ Thessaloniki, Sch Biol, Dept Genet, Thessaloniki 54124, Macedonia, Greece.4 aut
7001 a Tammen, Imkeu Univ Sydney, Sydney Sch Vet Sci, Sydney, NSW 2570, Australia.4 aut
7001 a Triantafyllidis, Alexandrosu Aristotle Univ Thessaloniki, Sch Biol, Dept Genet, Thessaloniki 54124, Macedonia, Greece.;Ctr Interdisciplinary Res & Innovat CIRI AUTH, Balkan Ctr, Genom & Epigen Translat Res GENeTres, Thessaloniki, Greece.4 aut
7001 a vonHoldt, Bridgettu Princeton Univ, Dept Ecol & Evolutionary Biol, Princeton, NJ 08544 USA.4 aut
7001 a Wayne, Robert K.u Univ Calif Los Angeles, Dept Ecol & Evolutionary Biol, Ecol & Evolutionary Biol, Los Angeles, CA 90095 USA.4 aut
7001 a Larson, Gregeru Univ Oxford, Sch Archaeol, Palaeogen & Bioarchaeol Res Network, Oxford OX1 3TG, England.4 aut
7001 a Nicholas, Frank W.u Univ Sydney, Sydney Sch Vet Sci, Sydney, NSW 2570, Australia.4 aut
7001 a Lohi, Hannesu Univ Helsinki, Dept Med & Clin Genet, Dept Vet Biosci, Helsinki 02900, Finland.4 aut
7001 a Leeb, Tossou Univ Bern, Inst Genet, Vetsuisse Fac, CH-3001 Bern, Switzerland.4 aut
7001 a Zhang, Ya-Pingu Chinese Acad Sci, Kunming Inst Zool, State Key Lab Genet Resources & Evolut, Kunming 650223, Peoples R China.4 aut
7001 a Ostrander, Elaine A.u NHGRI, NIH, 50 South Dr,Bldg 50 Room 5351, Bethesda, MD 20892 USA.,National Human Genome Research Institute, National Institutes of Health, 50 South Drive, Building 50 Room 5351, Bethesda, MD, 20892, USA4 aut
7102 a Uppsala universitetb Institutionen för medicinsk biokemi och mikrobiologi4 org
7730 t Genome Biologyd : BioMed Central (BMC)g 24q 24x 1465-6906x 1474-760X
8564 u https://doi.org/10.1186/s13059-023-03023-7y Fulltext
8564 u https://uu.diva-portal.org/smash/get/diva2:1795189/FULLTEXT01.pdfx primaryx Raw objecty fulltext:print
8564 u https://nrm.diva-portal.org/smash/get/diva2:1816841/FULLTEXT01.pdfx primaryx Raw objecty fulltext:print
8564 8u https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-510789
8564 8u https://doi.org/10.1186/s13059-023-03023-7
8564 8u https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-334954
8564 8u https://urn.kb.se/resolve?urn=urn:nbn:se:nrm:diva-5407

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