The following data describes genetic diversity within adult trees, seeds and seedlings in three Prunus avium stands in Germany. Putting together paternity analysis results and quantitative measurements in seeds and seedlings, we studied signatures of biparental inbreeding depression. The project was financed by the German Ministry of Food, Agriculture and Consumer Protection (BMELV) (grant MuD-Vorhaben (07/B11009) “ Etablierung einer Standardmethode zur genetisch nachhaltigen Ernte von forstlichem Vermehrungsgut in zugelassenen Beständen“). For each stand (Bayern, NRW and Brandenburg), we provide three data files: _Gen (Genetic Data), _Coord (Spatial coordinates and diameter at breast height), _Families (quantitative and paternity data per seed-family) The data is presented as follows: Bayern_Gen.txt; NRW_Gen.txt; Brandenburg_Gen.txt ID unique ID number of the individual Population stand (B1: Bayern; B2: NRW; B3: Brandenburg) Type type of individual (AB: adult; E: seed; S: seedling) Individual Individual number (CXX are virtual individuals, the number corresponds to the clonal group "Clone"); for offspring we report the seed-tree individual number Offspring Offspring number Clone Clonal group (no entry: single genotype or individual belongs to seed and seedling groups) Mismatch mismatch with the seed-tree (1: mismatch; no entry: fit the mother) SI_1 Incompatibility system locus: allele 1 "0": missing data SI_2 Incompatibility system locus: allele 2 "0": missing data UDP98_411_A locus UDP98_411: allele 1 "0": missing data UDP98_411_B locus UDP98_411: allele 2 "0": missing data UDP98_412_A locus UDP98_412: allele 1 "0": missing data UDP98_412_B locus UDP98_412: allele 2 "0": missing data BPPCT_040_A locus BPPCT_040: allele 1 "0": missing data BPPCT_040_B locus BPPCT_040: allele 2 "0": missing data UDP96_005_A locus UDP96_005: allele 1 "0": missing data UDP96_005_B locus UDP96_005: allele 2 "0": missing data UDP96_001_A locus UDP96_001: allele 1 "0": missing data UDP96_001_B locus UDP96_001: allele 2 "0": missing data UDP98_021_A locus UDP98_021: allele 1 "0": missing data UDP98_021_B locus UDP98_021: allele 2 "0": missing data UDP98_410_A locus UDP98_410: allele 1 "0": missing data UDP98_410_B locus UDP98_410: allele 2 "0": missing data BPPCT_034_A locus BPPCT_034: allele 1 "0": missing data BPPCT_034_B locus BPPCT_034: allele 2 "0": missing data Data was collected by Céline Jolivet (celine.jolivet@vti.bund.de) at the Johann Heinrich von Thünen Institute, Institute of Forest Genetics, Sieker Landstrasse 2, 22927 Grosshansdorf, Germany Bayern_Coord.txt; NRW_Coord.txt; Brandenburg_Coord.txt ID unique ID number of the individual Population stand (B1: Bayern; B2: NRW; B3: Brandenburg) Individual Individual number (CXX are virtual individuals, the number corresponds to the clonal group "Clone") X Spatial coordinate " ": missing data Y Spatial coordinate " ": missing data DBH Diameter at Breast Height " ": missing data Clone Clonal group (" ": single genotype) Data was collected by Céline Jolivet (celine.jolivet@vti.bund.de) at the Johann Heinrich von Thünen Institute, Institute of Forest Genetics, Sieker Landstrasse 2, 22927 Grosshansdorf, Germany Bayern_Families.txt; NRW_Families.txt; Brandenburg_Coord.txt Mother Seed-tree NbSeeds Number of seeds for which a father was assigned CloneName Clonal group ("NA": no clonal seed-tree) Clone Clonal status ("Y": clone; "N": no clonal) DBH Diameter at breast height of the seed-tree "NA": missing data NbFathers Number of fathers assigned within the seed-family "NA": missing data K Effective number of fathers (Nielsen et al. 2003) "NA": missing data Pollen Average pollen dispersal distance "NA": missing data Mate100m Mate availability within 100 m "NA": missing data Mate50m Mate availability within 50 m "NA": missing data Density100m Density around the seed-tree, 100 m radius "NA": missing data Density50m Density around the seed-tree, 50 m radius "NA": missing data Fwithin Kinship (Loiselle et al 1995) among male gametes within seed-family "NA": missing data FMaleFemale Kinship (Loiselle et al 1995) among mates within family "NA": missing data Viable Seed vaibility (%) "NA": missing data TKM Mass of 1,000 seeds (g) "NA": missing data Height Average seedling height (cm) "NA": missing data WDH Average seedling diameter (mm) "NA": missing data Number1 Number of seedlings within seed-family in the nursery "NA": missing data Number2 Number of seedlings within seed-family in the nursery (automn 2010) "NA": missing data Survival Seedling survival (%) "NA": missing data Loiselle BA, Sork VL, Nason J, Graham C (1995). Spatial genetic-structure of a tropical understory shrub, Psychotria officinalis (Rubiaceae). American Journal of Botany 82: 1420-1425. Nielsen R, Tarpy DR, Reeve HK (2003). Estimating effective paternity number in social insects and the effective number of alleles in a population. Molecular Ecology 12: 3157-3164. Mating pattern data was collected by Céline Jolivet (celine.jolivet@vti.bund.de) at the Johann Heinrich von Thünen Institute, Institute of Forest Genetics, Sieker Landstrasse 2, 22927 Grosshansdorf, Germany Quantitative data on the seedlings (Height, WHD, Survival) was collected by Martin Rogge's team (Martin.Rogge@wald-und-holz.nrw.de), Landesbetrieb Wald und Holz NRW, Obereimer 2a, D-59821 Arnsberg, Germany TKM and seed viability was collected by certified laboratories according to the ISTA rules. Please contact Bernd Degen for more details (bernd.degen@vti.bund.de), Johann Heinrich von Thünen Institute, Institute of Forest Genetics, Sieker Landstrasse 2, 22927 Grosshansdorf, Germany