Table S1 Additional set of cultivated carrots, wild carrots, other wild Daucus carota subspecies and wild Daucus species used in the study

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Table S1 Additional set of cultivated carrots, wild carrots, other wild Daucus carota subspecies and wild Daucus species used in the study.

Label¹	Accession number²	Accession name	Species name	Root type³	Country⁴
CHR01	3834	Flakkee French Strain	Daucus carota L. ssp. sativus (Hoffm.) Arc.	Flakkee	France
CHR02	3898	Cluseed New Model	D. carota L. ssp. sativus (Hoffm.) Arc.	Chantenay	UK
CHR03	3906	Oxheart	D. carota L. ssp. sativus (Hoffm.) Arc.	Oxheart	USA
CHR04	3921	Gelbe Rheinische	D. carota L. ssp. sativus (Hoffm.) Arc.	Yellow Belgian	Germany
CHR05	3929	St. Valery	D. carota L. ssp. sativus (Hoffm.) Arc.	Long Orange	Netherlands
CHR06	3957	Nantes Marko	D. carota L. ssp. sativus (Hoffm.) Arc.	Nantes	Netherlands
CHR07	3971	Champion Scarlet Horn	D. carota L. ssp. sativus (Hoffm.) Arc.	Early Short Horn	UK
CHR08	3990	Blanche A Collet Vert Hors Terre	D. carota L. ssp. sativus (Hoffm.) Arc.	Yellow Belgian	France
CHR09	3991	Carentan	D. carota L. ssp. sativus (Hoffm.) Arc.	Nantes	France
CHR10	4005	Kuroda Gosun	D. carota L. ssp. sativus (Hoffm.) Arc.	Kuroda	Japan
CHR11	5128	Danvers Red Cored	D. carota L. ssp. sativus (Hoffm.) Arc.	Danvers	USA
CHR12	5477	Amsterdam Forcing	D. carota L. ssp. sativus (Hoffm.) Arc.	Amsterdam Forcing	UK
CHR13	5595	Danvers Danro Rs	D. carota L. ssp. sativus (Hoffm.) Arc.	Danvers	Netherlands
CHR14	5596	Paris Market	D. carota L. ssp. sativus (Hoffm.) Arc.	Paris Market	Netherlands
CHR15	5649	Topweight	D. carota L. ssp. sativus (Hoffm.) Arc.	Flakkee	Australia
CHR16	5816	Long Imperator 58	D. carota L. ssp. sativus (Hoffm.) Arc.	Imperator	USA
CHR17	6089	Early Nantes	D. carota L. ssp. sativus (Hoffm.) Arc.	Nantes	UK
CHR18	6091	De La Halle	D. carota L. ssp. sativus (Hoffm.) Arc.	Nantes	France
CHR19	6100	James Scarlet Intermediate	D. carota L. ssp. sativus (Hoffm.) Arc.	Late Half Long Horn	UK
CHR20	6102	Long Red Surrey	D. carota L. ssp. sativus (Hoffm.) Arc.	Long Orange	UK
CHR21	6162	Early French Frame	D. carota L. ssp. sativus (Hoffm.) Arc.	Paris Market	UK
CHR22	6490	Early Scarlet Horn	D. carota L. ssp. sativus (Hoffm.) Arc.	Early Short Horn	UK
CHR23	6491	Guerande	D. carota L. ssp. sativus (Hoffm.) Arc.	Oxheart	UK
CHR24	6767	Duwicker	D. carota L. ssp. sativus (Hoffm.) Arc.	Early Short Horn	Germany
CHR25	7134	Cold King	D. carota L. ssp. sativus (Hoffm.) Arc.	Chantenay	France
CHR26	8720	White Belgian	D. carota L. ssp. sativus (Hoffm.) Arc.	Yellow Belgian	UK
CHR27	10110	Danvers Half Long Danvers 126	D. carota L. ssp. sativus (Hoffm.) Arc.	Danvers	UK
CHR28	10127	Berlicum Belinda	D. carota L. ssp. sativus (Hoffm.) Arc.	Berlicum	UK
CHR29	11145	Imperator	D. carota L. ssp. sativus (Hoffm.) Arc.	Imperator	Netherlands
CHR30	11146	Gelbe Wortel	D. carota L. ssp. sativus (Hoffm.) Arc.	Yellow Belgian	Netherlands
CHR31	11147	Amsterdammer Bak Long	D. carota L. ssp. sativus (Hoffm.) Arc.	Amsterdam Forcing	Netherlands
CHR32	11150	Chantenay Kort	D. carota L. ssp. sativus (Hoffm.) Arc.	Chantenay	Netherlands
CHR33	11151	Flakkee Grof	D. carota L. ssp. sativus (Hoffm.) Arc.	Flakkee	Netherlands
CHR34	11157	Berlicum Normaal	D. carota L. ssp. sativus (Hoffm.) Arc.	Berlicum	Netherlands
CHR35	12400	Altringham	D. carota L. ssp. sativus (Hoffm.) Arc.	Altringham	UK
CHR36	12480	Altringham Large Red	D. carota L. ssp. sativus (Hoffm.) Arc.	Altringham	Czech Republic
CHR37	12845	Kuroda 5 Sun	D. carota L. ssp. sativus (Hoffm.) Arc.	Kuroda	Japan
CHR38	6755	Pusa Kesar	D. carota L. ssp. sativus (Hoffm.) Arc.	−	India
CHR39	6760	Pink Selection	D. carota L. ssp. sativus (Hoffm.) Arc.	−	China
CHR40	7126	Tropical	D. carota L. ssp. sativus (Hoffm.) Arc.	Chantenay	Brazil
CHR41	10111	Early Nantes	D. carota L. ssp. sativus (Hoffm.) Arc.	Nantes	India
CHR42	10246	Long Red	D. carota L. ssp. sativus (Hoffm.) Arc.	−	Ethiopia
CHR43	10266	Zardak	D. carota L. ssp. sativus (Hoffm.) Arc.	−	Afghanistan
CHR44	10344	Gajer	D. carota L. ssp. sativus (Hoffm.) Arc.	−	Pakistan
CHR45	10506	Sian Chi-Tou	D. carota L. ssp. sativus (Hoffm.) Arc.	−	China
CHR46	10508	Red Carrot	D. carota L. ssp. sativus (Hoffm.) Arc.	−	China
CHR47	11201	Afghan Purple	D. carota L. ssp. sativus (Hoffm.) Arc.	−	USA
CHR48	10264	Garga Serk	D. carota L. ssp. sativus (Hoffm.) Arc.	−	Pakistan
CBW	−	White Berlicum	D. carota L. ssp. sativus (Hoffm.) Arc.	Berlicum	Netherlands
WHR01	6666	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Ireland
WHR02	6667	Wild D. carota subspecies	D. carota L. ssp. azoricus Franco	Wild	Spain
WHR03	6668	Wild D. carota subspecies	D. carota L. ssp. drepanensis (Arc.) Heywood	Wild	UK
WHR04	6673	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	UK
WHR05	7160	Wild D. carota subspecies	D. carota L. ssp. gadecaei (Rony & Camus) Heywood	Wild	France
WHR06	7388	Wild D. carota subspecies	D. carota L. ssp. maritimus (Lam.) Batt.	Wild	France
WHR07	8252	Wild D. carota subspecies	D. carota L. ssp. hispanicus (Gouan) Thell.	Wild	Germany
WHR08	8715	Wild D. carota subspecies	D. carota L. ssp. gummifer Hooker fil.	Wild	UK
WHR09	9202	Wild D. carota subspecies	D. carota L. ssp. gadecaei (Rony & Camus) Heywood	Wild	France
WHR10	9216	Wild D. carota subspecies	D. carota L. ssp. maritimus (Lam.) Batt.	Wild	Portugal
WHR11	9217	Wild D. carota subspecies	D. carota L. ssp. maritimus (Lam.) Batt.	Wild	Spain
WHR12	9289	Wild D. carota subspecies	D. carota L. ssp. gummifer Hooker fil.	Wild	Germany
WHR13	9290	Wild D. carota subspecies	D. carota L. ssp. maritimus (Lam.) Batt.	Wild	Germany
WDA01	DAU 126	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Germany
WDA02	DAU 214	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Uzbekistan
WDA03	DAU 215	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Italy
WDA04	DAU 216	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Austria
WDA05	DAU 258	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Italy
WDA06	DAU 261	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Iraq
WDA07	DAU 339	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Azerbaijan
WDA08	DAU 354	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Azerbaijan
WDA09	DAU 384	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Iran
WDA10	DAU 397	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Libya
WDA11	DAU 418	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Belgium
WDA12	DAU 433	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Portugal
WDA13	DAU 497	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Austria
WDA14	DAU 127	Wild D. carota subspecies	D. carota L. ssp. commutatus (Paol.) Thell.	Wild	Italy
WDA15	DAU 236	Wild D. carota subspecies	D. carota L. ssp. commutatus (Paol.) Thell.	Wild	France
WDA16	DAU 486	Wild D. carota subspecies	D. carota L. ssp. commutatus (Paol.) Thell.	Wild	Italy
WDA17	DAU 496	Wild D. carota subspecies	D. carota L. ssp. gadecaei (Rony & Camus) Heywood	Wild	France
WDA18	DAU 134	Wild D. carota subspecies	D. carota L. ssp. gummifer Hooker fil.	Wild	France
WDA19	DAU 241	Wild D. carota subspecies	D. carota L. ssp. gummifer Hooker fil.	Wild	France
WDA20	DAU 245	Wild D. carota subspecies	D. carota L. ssp. hispanicus (Gouan) Thell.	Wild	Spain
WDA21	DAU 243	Wild D. carota subspecies	D. carota L. ssp. hispidus (Arc.) Heywood	Wild	Greece
WDA22	DAU 508	Wild D. carota subspecies	D. carota L. ssp. hispidus (Arc.) Heywood	Wild	Italy
WDA23	DAU 217	Wild D. carota subspecies	D. carota L. ssp. major (Vis.) Arc.	Wild	France
WDA24	DAU 240	Wild D. carota subspecies	D. carota L. ssp. major (Vis.) Arc.	Wild	France
WDA25	DAU 244	Wild D. carota subspecies	D. carota L. ssp. maritimus (Lam.) Batt.	Wild	UK
WDA26	DAU 218	Wild D. carota subspecies	D. carota L. ssp. maximus (Desf.) Ball.	Wild	Greece
WDA27	DAU 237	Wild D. carota subspecies	D. carota L. ssp. maximus (Desf.) Ball.	Wild	Croatia
WDA28	DAU 239	Wild D. carota subspecies	D. carota L. ssp. maximus (Desf.) Ball.	Wild	Greece
WDA29	DAU 246	Wild D. carota subspecies	D. carota L. ssp. maximus (Desf.) Ball.	Wild	Italy
WDA30	DAU 249	Wild D. carota subspecies	D. carota L. ssp. maximus (Desf.) Ball.	Wild	Tunisia
WDA31	DAU 250	Wild D. carota subspecies	D. carota L. ssp. maximus (Desf.) Ball.	Wild	Spain
WDA32	DAU 252	Wild D. carota subspecies	D. carota L. ssp. maximus (Desf.) Ball.	Wild	Spain
WDA33	DAU 257	Wild D. carota subspecies	D. carota L. ssp. maximus (Desf.) Ball.	Wild	Slovenia
WDA34	DAU 503	Wild D. carota subspecies	D. carota L. ssp. maximus (Desf.) Ball.	Wild	Cyprus
WDA35	DAU 123	Wild Daucus	D. aureus Desf.	Wild	Israel
WDA36	DAU 274	Wild Daucus	D. muricatus L.	Wild	Morocco
WDA37	DAU 504	Wild Daucus	D. muricatus L.	Wild	Portugal
WDA38	DAU 484	Wild Daucus	D. broteri Ten.	Wild	Turkey
WDA39	DAU 531	Wild Daucus	D. broteri Ten.	Wild	Cyprus
WDA40	DAU 523	Wild Daucus	D. guttatus Sibth. & Sm.	Wild	Greece
WAL1	−	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Netherlands
WA1	−	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Netherlands
WB1	−	Wild carrot	D. carota L. ssp. carota (Hoffm.) Arc.	Wild	Netherlands

¹Those indicated with bold face (21 accessions) were genotyped with 89 SNPs, a subset of the 622 SNPs used to genotype all other carrot samples in the table.

²Accession numbers beginning with “DAU” indicate plant materials from The Genebank of the Leibniz Institute of Plant Genetics and Crop Plant Research (IPK Gatersleben) in Germany. Others represent plant materials from Warwick Genetic Resources Unit in the United Kingdom. Those indicated with “−” were sampled by the authors and only DNA samples are available.

³The root types of those indicated with “−” are unknown.

⁴Name of the country where the samples were originally collected or derived.