Table S1. Detailed descriptive statistics and accessions of 590 genomes. Sample ID Sex Breed 12559RE m Cane corso 12675RE m Border Collie 6455RE f Greater Swiss Mountain Dog 6958RE m Border Collie AC023 m Australian Cattle Dog AC046 m Australian Cattle Dog AC065 m Australian Cattle dog AC108 f Australian Cattle dog AC364 m Australian Cattle Dog AD009 m Alpine Dachsbracke AD034 m Alpine Dachsbracke AM007 m Alaskan Malamute AM019 m Alaskan Malamute AR001 m Australian Terrier AS006 m American Staffordshire Terrier AS008 m American Staffordshire Terrier AU178 f Australian Shepherd AU184 m Australian Shepherd BB011 m White Swiss Shepherd Dog BC0480 m Border Collie BC1028 m Border Collie BC1029 m Border Collie BC222 m Bull Terrier BC272 m Border Collie BC387 m Border Collie BC485 m Border Collie BC518 f Border Collie BC547 f Border Collie BC548 m Border Collie BC549 m Border Collie BC555 m Border Collie BC578 m Border Collie BC597 m Border Collie BC604__BC_24093 f Border Collie BC621 m Border Collie BD016 f Bearded Collie BD036 m Bearded Collie BD052 m Bearded Collie BD085 m Bearded Collie BD089 m Bearded Collie BD091 m Bearded Collie BD093 m Bearded Collie BD098 m Bearded Collie BE020 f Beagle (contamination mit Westie CMO allele) BG064 m Bavarian mountain scent Hound BH003 f Basset Hound BH005_SEA04046 f Basset Hound BI005_HCS01268 m Brussels Griffon BI006_HCS01271 m Brussels Griffon BJ001 m Basenji BJ002 m Basenji BJ003 m Basenji BJ004 m Basenji BJ005 f Basenji BJ006 f Basenji BT007 m Miniature Bull terrier BT012 f Bull Terrier BU002 m Bullmastiff BX002 m Dogue de Bordeaux BX003 f Dogue de Bordeaux CE073 m Cairn Terrier CH019 m Chihuahua (without pedigree) CH022_LCR05127 m Chihuahua Smooth Coat CH023_LCR05128 m Chihuahua Smooth Coat CH027 f Chihuahua CI001 m Cane corso CI002 m Cane corso CI003 m Cane corso CI004 f Cane corso CK006 f Cavalier King Charles Spaniel CK023 f Cavalier King Charles Spaniel CL013 m Collie CP003 m Cocker Spaniel CP010_SEA04160 f English Cocker Spaniel CR018 f Curly-Coated Retriever CR023 m Curly-Coated Retriever CR039 f Curly-Coated Retriever CR040 m Curly-Coated Retriever CR101 f Curly-Coated Retriever CW011 m Chow Chow DAL162K1 m Dalmatian DD116 m Great Dane DH0117 m Dachshund DH098 m Dachshund DH126 m Dachshund DH136_SEA04054 m Dachshund (Miniature Longhaired) DH137_SEA04056 f Dachshund (Miniature Longhaired) DO159 m Doberman Pinscher DO242 m Doberman Pinscher DO263 m Doberman Pinscher DQ1 m Chinese Indigenous Dog DQ10 m Chinese Indigenous Dog DQ2 f Chinese Indigenous Dog DQ3 f Chinese Indigenous Dog DQ4 m Chinese Indigenous Dog DQ5 f Chinese Indigenous Dog DQ6 f Chinese Indigenous Dog DQ7 m Chinese Indigenous Dog DQ8 m Chinese Indigenous Dog DQ9 m Chinese Indigenous Dog DS032 m Mixed Breed DS041 m Mixed Breed DS042 m German Shepherd / Mixed breed DS043 f German Shepherd DS051 f German Shepherd DS053 m German Shepherd DS064 m German Shepherd EB003 m Bulldog EL565 m Elo EN091 m Entlebuch Cattle Dog EN154 m Entlebuch Cattle Dog EN221 m Entlebuch Cattle Dog EN247 m Entlebuch Cattle Dog EN261 m Entlebuch Cattle Dog EN262 m Entlebuch Cattle Dog EN263 m Entlebuch Cattle Dog EN264 m Entlebuch Cattle Dog EU008 m Eurasian EU035 m Eurasian FB046 m French Bulldog FB065 f French Bulldog GP3 m Great Pyrenees GR0855 m Golden Retriever GR0859 m Golden Retriever GR0860 f Golden Retriever GR0892 m Golden Retriever GR1078 m Golden Retriever Mix GR1161 m Golden Retriever GS1 m German Shepherd GS10 m German Shepherd GS104 f German Spitz GS2 m German Shepherd GS3 m German Shepherd GS4 m German Shepherd GS5 m German Shepherd GS6 m German Shepherd GS7 m German Shepherd GS8 m German Shepherd GS9 m German Shepherd GW004 m German Wire-Haired Pointer GY391 m Greyhound GY393 m Greyhound GY415 m Greyhound GY416 m Greyhound GY432 f Greyhound HA008_SEA02120 f Havanese HA009_SEA02121 m Havanese HA010_GER00024 m Havanese HT001 m Heideterrier HW1706 m Hovawart HW1872 m Hovawart HW1979 f Hovawart IT0390 m Irish Terrier IT221 m Irish Terrier JR0034 m Jack Russell Terrier JR043_SEA02220 m Jack Russell Terrier JR044_SEA02225 f Jack Russell Terrier JR045 m Jack Russell Terrier JT007 f German hunting Terrier JT011 f German hunting Terrier KEP033K1 m Central Asian Shepherd dog KF042 m Kromfohrlander KKH2684 f Siberian Husky KM1 f Kunming Dog KM10 m Kunming Dog KM2 m Kunming Dog KM3 f Kunming Dog KM4 f Kunming Dog KM5 f Kunming Dog KM6 m Kunming Dog KM7 m Kunming Dog KM8 m Kunming Dog KM9 m Kunming Dog LA1869 m Labrador Retriever LA2382 m Mixed Breed (Labrador Retriever cross, Italy) LA2438 m Labrador retriever LA2439__PER00177 f Labrador retriever LA2443 m Labrador retriever LA882 m Labrador retriever LA900 m Labrador retriever LB0013 m Leonberger LB0139 m Leonberger LB0147 m Leonberger LB0197 m Leonberger LB0268 m Leonberger LB0304 m Leonberger LB0305 m Leonberger LB0339 m Leonberger LB0418 m Leonberger LB0482 m Leonberger LB0507 m Leonberger LB0554 m Leonberger LB0656 m Leonberger LB0683 m Leonberger LB111 m Leonberger LB1848 m Leonberger LB1919 f Leonberger LB1961 f Leonberger LB214 m Leonberger LB3506 m Leonberger LB3521 m Leonberger LB3601 m Leonberger LB3659 m Leonberger LB3705 m Leonberger LB3906 m Leonberger LB4183 f Leonberger LB4693 m Leonberger LB5378 m Leonberger LB5751 m Leonberger LE0051 m Leonberger LE0237 m Leonberger LE0269 m Leonberger LE0512 m Leonberger LE0738 m Leonberger LE0896 m Leonberger LE1294 m Leonberger LE1301 m Leonberger LE1302 m Leonberger LE1355 m Leonberger LE2450 m Leonberger LJ1 m Chinese Indigenous Dog LJ10 f Chinese Indigenous Dog LJ2 m Chinese Indigenous Dog LJ3 m Chinese Indigenous Dog LJ4 m Chinese Indigenous Dog LJ5 m Chinese Indigenous Dog LJ6 f Chinese Indigenous Dog LJ7 m Chinese Indigenous Dog LJ8 f Chinese Indigenous Dog LJ9 m Chinese Indigenous Dog LJP027A2 m Swedish Vallhund LJP030A2 m Swedish Vallhund LN048 m Landseer LR1030 f Lagotto Romagnolo LR1149 m Lagotto Romagnolo LR416 f Lagotto Romagnolo LR433 m Lagotto Romagnolo LR494 f Lagotto Romagnolo LR538 m Lagotto Romagnolo LR654 m Lagotto Romagnolo LR753 m Lagotto Romagnolo MA008 m Belgian Malinois MA0163 m Belgian Malinois MA094 f Belgian Malinois MA142 f Belgian Malinois MA152 f Belgian Malinois MA324 m Belgian Malinois MA437 f Belgian Malinois MB003 m Miniature Bull terrier MI016 m Mixed Breed MI020 f Mixed breed MI025 f Mixed breed MP011_CAN00015 f Pug MP012_CAN00016 m Pug MP013_CAN00017 f Pug MS32 f Miniature Schnauzer MS77 m Miniature Schnauzer NF187000 m Newfoundland NF492 m Newfoundland NW062 m Norwich Terrier NW152 m Norwich Terrier NW206 m Norwich Terrier NW255 m Norwich Terrier OS001 f Old English Sheepdog PA073_AMY00153 m Papillon PA074_AMY00157 f Papillon PA075_AMY00158 m Papillon PE002 f Spanish Water dog PG002__BGVP_17289 m Petit Basset Griffon Vendeen PG003_GENEBANK0060 m Petit Basset Griffon Vendeen PG004_GENEBANK00143 f Petit Basset Griffon Vendeen PG005_GENEBANK00199 f Petit Basset Griffon Vendeen PL116 f Poodle PL148__PER_BAN00024 f Miniature Poodle PL150__D00105 m Standard Poodle PL152__D00270 m Standard Poodle PL153__D00271 m Standard Poodle PL154__D00285 m Standard Poodle PL156__D00353 m Standard Poodle PL157__D00354 m Standard Poodle PL158__D00373 m Standard Poodle PL159__D00382 f Standard Poodle PL160__D00392 f Standard Poodle PL161__D00397 f Standard Poodle PL162__D00477 f Standard Poodle PL163__D00530 m Standard Poodle PL164__D00817 m Standard Poodle PL165__D00868 m Standard Poodle RO2 m Rottweiler ROS.gDNA.SID00115 m Pug ROS.gDNA.SID00400 m Whippet ROS.gDNA.SID00434 m Bichon Frise ROS.gDNA.SID00436 m Pug ROS.gDNA.SID00437 m Pug ROS.gDNA.SID00439 m Pug ROS.gDNA.SID00464 m Bichon Frise ROS.gDNA.SID00488 f Pug ROS.gDNA.SID00539 f Bichon Frise ROS.gDNA.SID00860 m Saluki ROS.gDNA.SID01138 m Kerry Blue Terrier ROS.gDNA.SID01166 m Pug ROS.gDNA.SID01169 f Pug ROS.gDNA.SID01170 m Pug ROS.gDNA.SID01171 m Pug ROS.gDNA.SID01221 m Pug ROS.gDNA.SID01232 m Bull Terrier ROS.gDNA.SID01237 m Pug ROS.gDNA.SID01578 m Shih Tzu ROS.gDNA.SID01682 f Pug ROS.gDNA.SID01737 f Dogue de Bordeaux ROS.gDNA.SID01899 f Japanese Chin ROS.gDNA.SID01940 m Airedale Terrier ROS.gDNA.SID02492 m Pug ROS.gDNA.SID02765 m Pug ROS.gDNA.SID02770 m Pug ROS.gDNA.SID02832 m Pug ROS.gDNA.SID02920 m Bichon Frise ROS.gDNA.SID03009 f American Bulldog ROS.gDNA.SID03103 m Brussels Griffon RR098 m Rhodesian Ridgeback RR123 m Rhodesian Ridgeback RR320 f Rhodesian Ridgeback SG005 f Sloughi SG006 f Sloughi SG008 m Sloughi SH008 m Greater Swiss Mountain Dog SH010 m Greater Swiss Mountain Dog SH011 f Greater Swiss Mountain Dog SH012 f Greater Swiss Mountain Dog SH013 m Greater Swiss Mountain Dog SID00101 f Cavalier King Charles Spaniel SID00110 m American bulldog SID00122 m Boxer SID00142 m Affenpinscher SID00176 m Bullmastiff SID00225 m French Bulldog SID00354 m Dogue de Bordeaux SL006 m Saluki SM010 m Standard Schnauzer SRR2094385 m Beagle SRR2094386 m Beagle SRR2094387 m Border Collie SRR2094388 m Border Collie SRR2094392 m Chow Chow SRR2094393 m Clumber Spaniel SRR2094396 m Mastiff SRR2094398 f English Pointer SRR2094399 m Greyhound SRR2094400 m Irish Wolfhound SRR2094401 m Italian Greyhound SRR2094407 m Rhodesian Ridgeback SRR2094408 m Saluki SRR2094409 m Scottish Terrier SRR2095316 f Cocker Spaniel SRR2095317 m Cavalier King Charles Spaniel SRR2095318 f Doberman Pinscher SRR2095320 m Golden Retriever SRR2095321 m Great Pyrenees SRR2095322 m Italian Greyhound SRR2095323 f Labrador Retriever SRR2095325 m Standard Poodle SRR2095330 m West Highland White Terrier SRR2095368 m Belgian SheepDog SRR2095457 m Belgian Turvuren SRR2095463 m Bernese Mountain Dog SRR2095469 m Bloodhound SRR2095477 m Bulldog SRR2095478 m Chihuahua SRR2095479 m Cocker Spaniel SRR2095480 m Flat-coated Retriever SRR2095487 m Flat-coated Retriever SRR2095497 f Great Dane SRR2095500 m Pekingese SRR2095501 m Rottweiler SRR2095502 m St.Bernard SRR2095503 m Saluki SRR2095504 m Shetland SheepDog SRR2095539 m Siberian Husky SRR2095540 m Toy Poodle SRR2827577 m Chinese Indigenous Dog SRR2827578 m Chinese Indigenous Dog SRR2827579 m Chinese Indigenous Dog SRR2827580 m Chinese Indigenous Dog SRR2827581 m Chinese Indigenous Dog SRR2827582 m Chinese Indigenous Dog SRR2827583 m Chinese Indigenous Dog SRR2827584 m Chinese Indigenous Dog SRR2827585 m Chinese Indigenous Dog SRR2827586 m Chinese Indigenous Dog SRR2827587 m Chinese Indigenous Dog SRR2827588 m Chinese Indigenous Dog SRR2827589 m Chinese Indigenous Dog SRR2827591 f Nigerian Indigenous Dog SRR2827592 f Nigerian Indigenous Dog SRR2827593 m Nigerian Indigenous Dog SRR2827594 f Nigerian Indigenous Dog SRR2827595 m Vietnamese Indigenous Dog SRR2827596 f Vietnamese Indigenous Dog SRR2827597 f Vietnamese Indigenous Dog SRR2827598 m Vietnamese Indigenous Dog SRR2827599 m Vietnamese Indigenous Dog SRR2827604 m Jamthund SRR2827605 m Jamthund SRR2827607 m Chinese Indigenous Dog SRR4011154 f Shetland Sheepdog SRR4011155 m German Shepherd SRR5190659 m Collie SRR5190660 m Collie SRR5190661 m Collie SRR5190662 m Collie SRR5190663 m Collie SRR7120157 m Dalmatian SRR7120158 m Flat-Coated Retriever SRR7120159 m Fonni Dog SRR7120196 m Portuguese WaterDog SRR7120198 m Portuguese WaterDog SRR7120199 m Portuguese WaterDog SRR7120200 m Portuguese WaterDog SRR7120201 m Portuguese WaterDog SRR7120203 m Portuguese WaterDog SRR7120204 m Rottweiler SRR7120205 m Rottweiler SRR7120206 m Rottweiler SRR7120207 m Rottweiler SRR7120208 f Rottweiler SRR7120211 m Samoyed SRR7120212 m Scottish Terrier SRR7120213 f Scottish Terrier SRR7120232 f West Highland White Terrier SRR7120233 m West Highland White Terrier SRR7120234 m West Highland White Terrier SRS661486 m Wolf Great Lakes SRS661488 m Wolf Iran SRS661492 m Wolf Portugal SRS661495 m Wolf Spain SRS661496 m Wolf Yellowstone SRS713815 m Chinese Crested dog SRS732550 m Pembroke Welsh Corgi SRS732551 m Pembroke Welsh Corgi SRS833812 f Black Russian Terrier SRS932138 m Shetland Sheepdog SRS932143 m Standard Poodle SRS932144 m Border Terrier SRS932145 f Tibetan Terrier SRS932146 m Berger Picard SRS932147 m Jack Russell Terrier SRS932148 m Tibetan Terrier SRS932149 m Golden Retriever SRS932150 m Scottish Deerhound SRS932151 m Jack Russell Terrier SRS932152 m Labrador Retriever SRS932153 m West Highland White Terrier SRS932157 m Scottish Terrier SRS932158 m Basenji SRS932159 m German Shepherd SRS932160 m English Springer Spaniel SRS932161 m Airedale Terrier SRS932162 m Border Collie SRS932164 m Kerry Blue Terrier SS004 m Shetland Sheepdog SS096 m Shetland Sheepdog STB24 m St. Bernard STB27 m St. Bernard SV_25951 m Swedish Vallhund SY001 m Alaskan Husky (not purebred) SY018 f Alaskan Husky (not purebred) SY046 m Siberian Husky SZ004__PER00751 m Shih Tzu SZ005_SEA05009 m Shih Tzu SZ006_SEA05080 m Shih Tzu TA001 m Airedale Terrier TM1 f Tibetan Mastiff TM10 m Tibetan Mastiff TM2 m Tibetan Mastiff TM3 m Tibetan Mastiff TM4 m Tibetan Mastiff TM5 f Tibetan Mastiff TM6 m Tibetan Mastiff TM7 m Tibetan Mastiff TM8 m Tibetan Mastiff TM9 m Tibetan Mastiff V_23005 m Vizsla (smooth coat) WE006 m Weimaraner WE008 m Weimaraner WH083 m Whippet WO001_895 m North America WO002_732 m North America WO003_636 m North America WW174 m West Highland White Terrier WW361 m West Highland White Terrier WW362 m West Highland White Terrier WW363 f West Highland White Terrier WW364 m West Highland White Terrier WW558 f West Highland White Terrier WW635__West04 m West Highland White Terrier WW64 f West Highland White Terrier WW640__West13 m West Highland White Terrier WW641__West16 m West Highland White Terrier WW643__West24 m West Highland White Terrier WW644__West25 m West Highland White Terrier WW646__West30 f West Highland White Terrier WW647__Zombie m Dutch Shepherd WW665 m West Highland White Terrier YJ1 f Chinese Indigenous Dog YJ2 f Chinese Indigenous Dog YJ3 f Chinese Indigenous Dog YJ4 m Chinese Indigenous Dog YJ5 m Chinese Indigenous Dog YJ6 m Chinese Indigenous Dog YJ7 m Chinese Indigenous Dog YJ9 m Chinese Indigenous Dog YT003 f Yorkshire Terrier YT024__PER_BAN00032 f Yorkshire Terrier YT025__PER_BAN00040 m Yorkshire Terrier YT027__PER_BAN00079 m Yorkshire Terrier YT028__PER_BAN00119 m Yorkshire Terrier YT030__PER_BAN00133 m Yorkshire Terrier YT031__PER_BAN00136 m Yorkshire Terrier YT032__PER_BAN00140 m Yorkshire Terrier YT033__PER_BAN00142 m Yorkshire Terrier YT036__PER_BAN00183 m Yorkshire Terrier YT040__PER_BAN00283 m Yorkshire Terrier YT041__PER_BAN00289 m Yorkshire Terrier YT044__PER_BAN00368 m Yorkshire Terrier YT046__PER_BAN00380 f Yorkshire Terrier YT048__PER_BAN00437 m Yorkshire Terrier YT049__PER_BAN00449 m Yorkshire Terrier YT050__PER_BAN00461 m Yorkshire Terrier YT052__PER00016 m Yorkshire Terrier YT053__PER00018 m Yorkshire Terrier YT055__PER00061 m Yorkshire Terrier YT056__PER00064 m Yorkshire Terrier YT058__PER00107 m Yorkshire Terrier YT059__PER00138 m Yorkshire Terrier YT062__PER00144 m Yorkshire Terrier YT065__PER00204 m Yorkshire Terrier YT066__PER00226 m Yorkshire Terrier YT067__PER00259 m Yorkshire Terrier YT068__PER00274 m Yorkshire Terrier YT070__PER00314 m Yorkshire Terrier YT073__PER00327 m Yorkshire Terrier YT074__PER00344 m Yorkshire Terrier YT076__PER00361 m Yorkshire Terrier YT077__PER00393 m Yorkshire Terrier YT078__PER00394 m Yorkshire Terrier YT079__PER00408 m Yorkshire Terrier YT080__PER00409 m Yorkshire Terrier YT081__PER00419 m Yorkshire Terrier YT082__PER00425 m Yorkshire Terrier YT085__PER00449 m Yorkshire Terrier YT087__PER00462 m Yorkshire Terrier YT088__PER00465 m Yorkshire Terrier YT089__PER00481 m Yorkshire Terrier YT090__PER00484 m Yorkshire Terrier YT091__PER00550 m Yorkshire Terrier YT092__PER00594 m Yorkshire Terrier YT094__PER00605 m Yorkshire Terrier YT095__PER00606 m Yorkshire Terrier YT096__PER00607 m Yorkshire Terrier YT097__PER00622 m Yorkshire Terrier YT098__PER00626 m Yorkshire Terrier YT101__PER00642 m Yorkshire Terrier YT102__PER00646 m Yorkshire Terrier YT103__PER00650 m Yorkshire Terrier YT104__PER00658 m Yorkshire Terrier YT105__PER00738 m Yorkshire Terrier YT106__PER00739 f Yorkshire Terrier YT108__PER00750 f Yorkshire Terrier YT109__PER00758 m Yorkshire Terrier YT110__PER00777 m Yorkshire Terrier YT111__PER00806 m Yorkshire Terrier YT112__PER00816 m Yorkshire Terrier ZS14 m Landseer (sample mixup) ZS14_2 m Pomeranian ZS554_SEA05298 m Pomeranian ZS555_PLM00063 m Pomeranian ZZ023__MS04593 m Miniature Schnauzer ZZ024_MS13 m Miniature Schnauzer ZZ025_MS25 m Miniature Schnauzer ZZ026_MS80 m Miniature Schnauzer ZZ028_MS171 f Miniature Schnauzer ZZ029_MS190 m Miniature Schnauzer ZZ031_MS249 m Miniature Schnauzer ZZ032_MS251 f Miniature Schnauzer ZZ034_MS260 f Miniature Schnauzer ZZ035_MS279 f Miniature Schnauzer ZZ16_MS06 m Miniature Schnauzer ZZ17_MS07 f Miniature Schnauzer ZZ18_MS08 f Miniature Schnauzer ZZ19_MS09 m Miniature Schnauzer