Jørn Henrik Sønstebø1†, Adam Vivian-Smith1, Kalev Adamson2, Rein Drenkhan2, Halvor Solheim1 and Ari M. Hietala1 Genome-wide population diversity in Hymenoscyphus fraxineus points to an eastern Russian origin of European Ash dieback Supporting Information Contents 1.0 Supplementary Tables • Supplementary Table 1. Isolate list, GPS locations, ENA accession number and metadata. In a separate Excel table (Supplementary_table1.xlsx). 2.0 Supplementary Figures • Supplementary. Figure 1. PstI-MspI ddRAD coverage of the H. fraxineus genome (Hfv2). Inaccessible regions of the genome as assessed by to ddRADs. • Supplementary. Figure 2. Boxplot giving the overview of the percentage of the sequenced reads mapping to the genome. • Supplementary. Figure 3. Splitstree Neighbor network including European H fraxineus and H. albidus. • Supplementary. Figure 4. Genetic differentiation (FST) between H. fraxineus and H. albidus and pairs of populations of H. fraxineus. • Supplementary. Figure 5. The K-mer distribution volume and estimations of the genome size for H. albidus and H. fraxineus. • Supplementary. Figure 6. Principle components analysis at scaffold 1 to 20 of H. fraxineus individuals. • Supplementary. Figure 7. Splitstree Neighbor network including only European H. fraxineus isolates. • Supplementary. Figure 8. Nucleotide diversity π at each scaffold. • Supplementary. Figure 9. Distribution of fixed and polymorphic blocks. • Supplementary. Figure 10. Average genetic differentiation (FST) between pair of Russian samples and Norway and Estonia. 3.0 Supplementary Material and Methods • Method of Whole Genome Amplification (WGA) • Method for calculating genomic fixation 4.0 References 1 Supplementary table 1 Species Sample code Accession number ENA sequence type Country Locality Latitude Longitude Collection date Host species Tissue type Sample type1 DNA isolation2 Collector/sample provider Bayescan group H. fraxineus 4041 ERS1791845 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 26/08/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4042 ERS1791846 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 19/08/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4043 ERS1791847 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 11/08/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4044 ERS1791848 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 30/06/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4045 ERS1791849 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 22/09/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4046 ERS1791850 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 22/09/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4047 ERS1791851 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 15/09/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4048 ERS1791852 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 15/09/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4049 ERS1791853 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 08/09/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4051 ERS1791854 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 01/09/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4052 ERS1791855 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 01/09/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4053 ERS1791856 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 06/08/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4056 ERS1791857 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 19/08/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4057 ERS1791858 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 11/08/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4058 ERS1791859 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 11/08/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4059 ERS1791860 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 04/08/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4060 ERS1791861 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 04/08/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4061 ERS1791862 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 28/07/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4062 ERS1791863 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 28/07/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4064 ERS1791864 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 28/07/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4065 ERS1791865 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 21/07/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4066 ERS1791866 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 21/07/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4067 ERS1791867 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 14/07/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4068 ERS1791868 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 14/07/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4069 ERS1791869 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 07/07/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4070 ERS1791870 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 07/07/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4071 ERS1791871 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 30/06/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4072 ERS1791872 PstI-MspI ddRAD Estonia Vedu 58.485367 26.756933 30/06/2014 F. excelsior Leaf petiole WAC EZ Kalev Adamson Eur 1 H. fraxineus 4073 ERS1791873 PstI-MspI ddRAD Estonia Valaste 59.444464 27.340558 08/09/2010 F. excelsior Leaf petiole WAC EZ Rein Drenkhan Eur 1 H. fraxineus 4074 ERS1791874 PstI-MspI ddRAD Estonia Sagadi 59.536139 26.084961 09/09/2010 F. excelsior Leaf petiole WAC EZ Rein Drenkhan Eur 1 H. fraxineus 4076 ERS1791875 PstI-MspI ddRAD Estonia Kuusalu 59.46925 25.30205 09/09/2010 F. excelsior Leaf petiole WAC EZ Rein Drenkhan Eur 1 H. fraxineus 4077 ERS1791876 PstI-MspI ddRAD Estonia Oru 59.423175 27.525431 08/09/2010 F. excelsior Leaf petiole WAC EZ Rein Drenkhan Eur 1 H. fraxineus 4080 ERS1791877 PstI-MspI ddRAD Estonia Karula National Park, Viitka 57.732867 26.47795 24/07/2010 F. excelsior Leaf petiole WAC EZ Rein Drenkhan Eur 1 H. fraxineus 2007-107 ERS1791751 PstI-MspI ddRAD Lithuania Birzai, North Eastern Lituania 56.20458 24.70204 N/A F. excelsior shoot necrosis SHI MT Rimvydas Vasaitis H. fraxineus 2007-108 ERS1791752 PstI-MspI ddRAD Lithuania Birzai, North Eastern Lituania 56.20458 24.70204 N/A F. excelsior shoot necrosis VI MT Rimvydas Vasaitis H. fraxineus 2007-109 ERS1791753 PstI-MspI ddRAD Sweden Uppsala, Østerbybruk 60.1894 17.8988 N/A F. excelsior shoot necrosis SHI MT Rimvydas Vasaitis H. fraxineus 2007-110 ERS1791754 PstI-MspI ddRAD Sweden Uppsala, Østerbybruk 60.1894 17.8988 N/A F. excelsior shoot necrosis VI MT Rimvydas Vasaitis H. fraxineus 2008-104/1 ERS1791755 PstI-MspI ddRAD Norway Buskerud, Røyken, Hurum 59.714881 10.4896768 04/06/2008 F. excelsior shoot necrosis SHI MT Ingvald Røsberg Eur2 H. fraxineus 2008-108/2 ERS1791756 PstI-MspI ddRAD Norway Buskerud, Lier, Foss nursery 59.735614 10.4343845 04/06/2008 F. excelsior shoot necrosis SHI MT Ingvald Røsberg Eur2 H. fraxineus 2008-112/2 ERS1791757 PstI-MspI ddRAD Norway Buskerud, Øvre Eiker, RV35, Kverk 59.814093 9.89970998 04/06/2008 F. excelsior shoot necrosis SHI MT Ingvald Røsberg Eur2 H. fraxineus 2008-125/2 ERS1791758 PstI-MspI ddRAD Norway Hedmark, Stange, Espa 60.562573 11.2564499 05/06/2008 F. excelsior shoot necrosis SHI MT Ingvald Røsberg Eur2 H. fraxineus 2008-126/1 ERS1791759 PstI-MspI ddRAD Norway Hedmark, Ringsaker, Tjerne farm 60.834944 10.91020265 06/06/2008 F. excelsior shoot necrosis VI MT Ingvald Røsberg Eur2 H. fraxineus 2008-139/1 ERS1791760 PstI-MspI ddRAD Norway Vest-Agder, Lyngdal, Fleseland 58.099050 7.14595345 08/06/2008 F. excelsior shoot necrosis SHI MT Ingvald Røsberg Eur2 H. fraxineus 2008-142/5 ERS1791761 PstI-MspI ddRAD Norway Vest-Agder, Mandal, RV459, Bringsdal 58.101124 7.53918383 09/06/2008 F. excelsior shoot necrosis VI MT Geir Østreng Eur2 H. fraxineus 2008-143/1 ERS1791762 PstI-MspI ddRAD Norway Vest-Agder, Søgne, Føssa 58.095037 7.79586215 10/06/2008 F. excelsior shoot necrosis SHI MT Geir Østreng Eur2 H. fraxineus 2008-146/5 ERS1791763 PstI-MspI ddRAD Norway Aust-Agder, Lillesand, E18, Vallesved 58.2252485 8.2520134 11/06/2008 F. excelsior shoot necrosis SHI MT Geir Østreng Eur2 H. fraxineus 2008-148/4 ERS1791764 PstI-MspI ddRAD Norway Aust-Agder, Risør, Bossvika 58.718319 9.10315805 12/06/2008 F. excelsior shoot necrosis VI MT Geir Østreng Eur2 H. fraxineus 2008-151/3 ERS1791765 PstI-MspI ddRAD Norway Telemark, Drangedal, RV358, Bostrak 59.101979 8.88752200 09/06/2008 F. excelsior shoot necrosis SHI MT Geir Østreng Eur2 H. fraxineus 2008-152/4 ERS1791766 PstI-MspI ddRAD Norway Telemark, Skien, RV356 Rognsbru 59.113254 9.43448442 10/06/2008 F. excelsior shoot necrosis SHI MT Geir Østreng Eur2 Østfold, Eidsberg, Mysen, Seim nursery, H.