Genetic diversity strongly influences populations’ adaptability to changing environments and therefore survival. Sustainable forest management practices have multiple roles including conservation of genetic resources and timber production. In this study, we aimed at better understanding the variation in genetic diversity among adult and offspring individuals, and the effects of mating system on offspring survival and growth in wild cherry, Prunus avium. We analysed adult trees and open pollinated seed-families from three stands in Germany at eight microsatellite loci and one incompatibility system locus and conducted paternity analyses. Seed viability testing and seed sowing in a nursery allowed further testing for the effects of pollen donor diversity and genetic similarity between mates on the offspring performance at the seed and seedling stages. Our results were contrasting across stands. Loss of genetic diversity from adult to seedling stages and positive effect of mate diversity on offspring performance occurred in one stand only, whereas biparental inbreeding depression and significant decrease in fixation index from adults to seedlings was detected in two stands. We discussed the effects of stand genetic diversity on the magnitude of biparental inbreeding depression at several life-stages and its consequences on the management of genetic resources in P. avium.
Management of forest species in the long term is a great challenge, given the multiple roles of forest stands. Genetic diversity influences tree species’ capacity for adaptation to environmental changes and resistance to pest and pathogen outbreaks. Furthermore, conservation of genetic resources in wild populations is important, as high genetic diversity in wild populations could provide useful genepool for cultivar genetic improvement. Therefore, management strategies should take into consideration the genetic diversity and quality (Hosius et al., 2006) of forest reproductive material.
Patterns of genetic variation have been extensively studied in forest species (Pautasso, 2009). Tree species are mostly outcrossed, exhibit strong intra-population genetic variation but low differentiation among populations at molecular levels (Petit and Hampe, 2006). In contrast, quantitative traits often exhibit clinal variation as a result of local adaptation (Hall et al., 2007).
In self-compatible species with a mixed mating system, outcrossing rates tend to increase over life-stages because of late-acting self-incompatibility or inbreeding depression (Hufford and Hamrick, 2003; Naito et al., 2005; Ward et al., 2005; Ishida, 2006; Isagi et al., 2007; Naito et al., 2008; Hasegawa et al., 2009; Tamaki et al., 2009; Philipp and Nielsen, 2010; Kamm et al., 2011), that is, that offspring stemming from self-fertilization will experience reduced fitness. In obligate outcrossing species, biparental inbreeding (that is, mating of two genetically related individuals), might also reduce offspring viability and quality (Nason and Ellstrand, 1995; Teixeira et al., 2009). Therefore, it has been suggested that outcrossing evolved in most tree species to avoid deleterious effects of inbreeding depression (Petit and Hampe, 2006; Duminil et al., 2009) and this might have resulted in the high intra-population genetic diversity in tree species. Yet, only a few studies addressed inbreeding depression in tree species in the wild, mostly due to the long life-span of these species, preventing detailed monitoring of offspring fitness until reproductive life-stage. Although inbreeding depression can be assessed through comparison of inbred and outbred individuals, estimation of biparental inbreeding further requires a measure of genetic similarity. Although, a few authors varied crossing distance between parents and assumed that spatial genetic distance occurred, a more precise and straight forward method is to estimate kinship among parents following paternity analysis (Chaves et al., 2011). Addressing together realized mating patterns and quantitative variation in offspring should thus allow better understanding of the effects of biparental inbreeding on offspring genetic diversity and fitness.
However, strong pollen competition levels through multiple pollen donors (Snow, 1990; Paschke et al., 2005) or pollen density on the style (Armbruster and Rogers, 2004), may favour siring by superior genotypes, and result in higher offspring fitness. In the case of increased realized amount of pollen donors, we would expect that both biparental inbreeding depression and pollen competition positively affect offspring genetic diversity, as biparental inbreeding depression reduces the amount of individuals resulting from the mating between genetically related parents. However, strong competitive ability of a few good pollen donors would result in the opposite effect on genetic diversity. Therefore, quality and diversity of the offspring is strongly affected by biparental inbreeding depression and pollen donor abundance and diversity.
Wild cherry, Prunus avium (L.) (Rosaceae), is used as a timber species and occurs in Europe, Western Asia and Northern Africa (Ducci and Santi, 1997) in mixed deciduous forests. The species is light-demanding and individuals are scattered. Adult trees can live up to 100 years and flowering generally occurs for diameter at breast height of 4 cm. P. avium reproduces sexually and auto-fertilization is prevented by a gametophytic incompatibility system (Granger, 2004; De Cuyper et al., 2005; Schueler et al., 2006; Marchese et al., 2007; Vaughan et al., 2008). This means that two individuals carrying the same genotype at the S-locus will not be compatible. Pollen is dispersed by bees, and seeds by gravity and birds, resulting in low dispersal distances (Granger, 2004; Schueler, 2005; Stoeckel, 2006) and consequently in significant spatial genetic structure (Vaughan et al., 2007b; Jolivet et al., 2011). Vegetative propagation through root-suckering commonly occurs and, as a consequence, clusters of clonal individuals can be identified within the stands (Ducci and Santi, 1997; Schueler, 2005; Schueler et al., 2006; Vaughan et al., 2007a; Jolivet et al., 2011). Although mating patterns have been extensively studied (Schueler, 2005; Stoeckel, 2006; Cottrell et al., 2009), their effect on offspring fitness has not been studied yet.
P. avium has been used for reforestation for the last decades and produces highly valuable timber. Furthermore, germplasm conservation is of great value, as it may provide useful genetic variation for cherry cultivars. Therefore, management strategies should optimize both genetic diversity and quality of reproductive material for forestry purposes. High genetic variation, and in particular excess of heterozygosity in mature trees have been reported P. avium (Stoeckel et al., 2006). Although heterosis effects could have lead to heterozygote excess in the adult stage, the authors conclude this is rather a consequence of clonal propagation because fixation indexes did not significantly differ among seeds and adults. In fact, simulations studies also showed that fixation indexes decreased with rate of clonal propagation (Jolivet and Degen, 2011). However, these studies did not address the effects of genetic relatedness between mates on offspring performance. Lack of significant differences in fixation index from seeds to adults in the population analysed (Stoeckel et al., 2006), could result from sampling patterns, population structure or stand management. Indeed, P. avium stands can differ in rate of clonal propagation, extent of spatial genetic structure and patterns of pollen dispersal (Stoeckel, 2006; Jolivet et al., 2011), and variation in paternal success within stands also occurs (Cottrell et al., 2009). This calls for more comprehensive studies taking into account mating patterns, clonal propagation and offspring fitness to unravel mechanisms underlying the distribution of heterozygosity in P. avium.
In this study, we addressed biparental inbreeding depression and the effects of the number of pollen donors and diversity on offspring growth and survival in three P. avium stands utilized for production of forest reproductive material. In particular, we aimed at answering the following questions: (1) Does loss of genetic diversity occur along life-stages? (2) Is offspring performance affected by genetic similarity between mates and among genetic similarity of pollen donors? (3) How is offspring performance affected by clonal propagation? We further discuss the implication of the present results for conservation of genetic resources in wild cherry.
Materials and methods
Three P. avium natural stands currently used by foresters for seed regeneration were studied. They are located in Germany, in three different regions (Figure 1) and consisted of mixed deciduous forests. The Brandenburg stand was an isolated forest fragment of 50 ha, whereas the Bayern and North Rhine Westfalia (NRW) stands were plots within a larger forest, of respectively 13 and 7.6 ha. In winter 2008–2009, we sampled in each plot leaves or buds from all cherry individuals with a diameter at breast height superior to 4 cm and recorded spatial coordinates (Table 1). In summer 2008, seeds were sampled from 38 to 40 seed-trees per population by the foresters. Seed-trees represented the source individuals used by foresters for seed regeneration. Of the seeds collected, a first sample was used for seed quality testing, a second for genetic analysis and a third for planting in common garden.
Seed quality testing and nursery
Seed viability was estimated with a Tetrazolium test (Santos et al., 2007) on 200 seeds per seed-tree. Analyses were conducted for each stand by a local certified laboratory for seed quality testing and seed certification according to the ISTA rules (International Seed Testing Association).
A few days after fruit harvesting in the stands, fruit flesh was removed and seeds were dried at 20–25 °C until water content reached 9%. The seeds were then stored at −5 °C. Seed stratification started in January 2009 and consisted of 2 weeks storage at 20 °C then at 4 °C in moist conditions. The nursery was located in Bad Waldliesborn (NRW, Germany) and was characterized by sandy soil. In May 2009, seeds were sown by hand in 1 × 100 m plots consisting of five 2 cm deep drills, with a seed density of 100 per running metre. In autumn 2009, we sampled leaves from 24 seedlings per seed-tree for genetic analysis and root pruning was conducted to ensure even dormancy. In March 2010, seedlings were uprooted and stored at 4 °C. In May 2010, seedlings were again planted in seedbeds consisting of five rows separated by 25 cm, with a density of 12–14 per running metre. In autumn 2010, seedling survival, height and root collar diameter were measured.
DNA from adult trees, saplings and seeds was isolated according to Dumolin et al. (1995). The DNA was quantified on a NanoDrop system (Thermo Fisher Scientific, Schwerte, Germany) and diluted to a standardized DNA concentration of 10 ng μl−1. We amplified eight microsatellite loci (Testolin et al., 2000; Dirlewanger et al., 2002; Schueler et al., 2003), using the combinations and conditions described in Jolivet et al. (2011), with the only difference being the labelling from primers UDP98_411 (FAM), UDP98_412 (FAM) and BPPCT_040 (HEX). Fragments were analysed on a Megabace genetic analyser (Amersham Biosciences, Buckinghamshire, UK) using the Megabace ET 400-R size standard (GE Healthcare, Munich, Germany). Allele binning and scoring was performed with the software MegaBace Fragment Profiler v1.2 (Amersham Biosciences). Microsatellite loci were controlled for presence of null alleles, large allele dropout and stuttering errors on adult genotypes with MicroChecker v 2.2.3 (Van Oosterhout et al., 2004). No misbehaviour was detected, therefore we used all microsatellite loci for further analysis.
Gametophytic incompatibility system genotypes were characterized for all adults and seeds, by amplification of the first intron of the S-RNase gene and the S-haplotype-specific F-box (SFB) 5′ untranslated region intron and fragment analysis, following Vaughan et al. (2008). Fragments were run on a Megabace genetic analyser (Amersham Biosciences) using the Megabace ET 550-R size standard (GE Healthcare). When amplification of the SFB intron was not successful and the S-allele could not be identified, we also amplified the second intron of the S-RNase gene (Sonneveld et al., 2003; Vaughan et al., 2008). We used 60 ng DNA, 2.5 μl 10 × Buffer, 2 mM MgCl2, 0.2 mM dNTP, 0.2 mM of each forward and reverse primer, 1.25 μl W-1 buffer (Invitrogen, Darmstadt, Germany) and 1.25 U Taq polymerase for a total reaction volume of 25 μl. PCR was conducted with the following conditions: 2 min denaturing at 94 °C, followed by 10 cycles of 10 s at 94 °C, 2 min at 58 °C and 2 min at 68 °C, then 25 cycles of 10 s at 94 °C, 2 min at 58 °C and 2 min at 68 °C, with an increment of the last step of 10 s at each cycle. The fragments were separated on a 1.3% agarose gel for 16 h at 60 V. For both methods, alleles were identified according to Vaughan et al. (2008).
As asexual reproduction occurs in wild cherry, we compared genotypes of individual trees at the eight microsatellite loci and at the S-locus among adults to detect clonal ramets. We allowed one mismatch among genotypes to take into account genotyping errors. In all subsequent analysis, we removed all ramets of the same clone and replaced them by a single virtual individual to which was attributed the most frequent genotype, the largest diameter at breast height and the centroïd as spatial coordinates. All seed-trees were considered as single individuals for mating parameters estimation, even if ramets of the same clone were sampled.
We first addressed genetic diversity within life-stages in each stand. To take into account the effect of rare alleles, we estimated the effective number of alleles Ae per locus. To take into account variation in sample size and sampling effects on observed diversity, we also report allelic richness Ar (ElMousadik and Petit, 1996). We conducted paired t-tests on Ae and Ar per microsatellite locus among life-stages to address genetic erosion in seeds and seedlings.
As genotypes at the S-locus are always heterozygous, we only calculated the fixation index F based on microsatellite markers. Significance was tested with 10 000 randomizations of alleles among individuals within-populations (null hypothesis, F=0). A significant positive value indicates an excess of homozygotes, whereas a significant negative value indicates an excess of heterozygotes. As selection against inbred individuals could lead to a decrease in fixation index in older individuals, we tested for variation in fixation index among ontogenic stages with paired t-tests on per-locus estimates. All genetic parameters were estimated with Fstat v. 18.104.22.168 (Goudet, 1995) and GDA_NT (Degen, unpublished), statistical analysis were conducted with R v 2.0.6 (R Development Core Team, 2004).
We conducted paternity analysis on seeds to estimate mating patterns with CERVUS v. 3.0.3 (Marshall et al., 1998; Kalinowski et al., 2007). Allele frequencies were estimated from the adult group. Simulations were conducted with 50 000 offspring, 20 candidate fathers and 1% genotyping errors. Number of candidate fathers was based on direct and indirect estimates of the number and effective number of fathers per seed-tree (Jolivet et al., 2012). Selfing was not allowed. We considered that 60%, 90% and 90% of the candidate fathers were sampled in Bayern, NRW and Brandenburg, respectively. Paternity of a given seed was assigned to the compatible candidate father showing the highest LOD score (logarithm (base of 10) of odds), based on the eight microsatellite loci and on the S-locus, with a minimum of six loci genotyped. Seeds for which no compatible father was assigned by the software with a confidence of 95% were excluded. Only one mismatch at the microsatellite loci was allowed and genotypes were controlled individually to distinguish potential genotyping errors, by instance, because of stuttering. No mismatch was allowed at the S-locus.
The unbiased effective number of fathers (K) (Nielsen et al., 2003) was addressed in each seed-tree to provide an indication of diversity sampled by seed-trees. As spatial genetic structure is common in wild cherry stands (Jolivet et al., 2011) and might result in biparental inbreeding, we also estimated the average kinship (Loiselle et al., 1995) per seed-tree among mothers and fathers, as well as the average kinship among male gametes within each seed-tree. The analysis was conducted with SpaGedi v 1.3c (Hardy and Vekemans, 2002). Kinship among mother and fathers provides an estimate of genetic relatedness among parents and might allow detecting the expected level of inbreeding in offspring, whereas the kinship among male gametes provides an estimate of the genetic diversity sampled by seed-trees, independent of paternity analysis.
We tested whether the matting system has an effect on offspring fitness (seed viability, seedling survival, seed mass, seedling height and diameter). For each response variable, we conducted a multiple regression including kinship among seed-tree and father, kinship among male gametes and effective number of fathers. We used generalized linear models with binomial errors for seed viability and seedling survival, and linear models with response variable transformation, when necessary, for seed mass, seedling height and diameter. We used analysis of deviance and model simplification to find the minimum adequate model.
Genetic diversity and structure among life-stages
Rate of clonal propagation varied among stand, stand Bayern showing lower clonal diversity (Table 1). A low clonal diversity not only indicates a large proportion of clonal individuals, but also that clonal groups include a large number of ramets. Several seed-trees were ramets of the same clone, leaving 19, 37 and 30 mother genotypes for Bayern, NRW and Brandenburg, respectively (Supplementary File 1).
Genetic diversity (effective number of alleles and allelic richness) was the strongest in the highly clonally propagated stand Bayern and the lowest in Brandenburg (Table 2) at both microsatellites and S-locus. In the stand Bayern, among adults and seeds, effective number of alleles and allelic richness significantly decreased (Ae: t7=4.18, P=0.004; Ar: t7=2.52, P=0.039), whereas among seeds and seedlings only allelic richness significantly decreased (Ar: t7=4.24, P=0.004). In stands NRW and Brandenburg, no significant variation in Ae and Ar was observed (all P-values >0.05). Thus, seed sampling resulted in loss of genetic diversity only in the highly clonally propagated and genetically diverse Bayern stand.
Fixation index was mostly negative in stands Bayern and NRW, and showed significant heterozygote excess in seeds and seedlings from Bayern and in adults from NRW. In contrast, significant homozygote excess occurred in seeds and seedlings from Brandenburg (Figure 2, Supplementary Files 2a and b). Fixation index among seeds and adults did not differ significantly in the stand Bayern (t-test, P>0.1). However, there was a significant decrease in fixation index from seed to adult stages in stands NRW (t7=3.71, P=0.007) and Brandenburg (t7=3.49, P=0.01; Figure 2). Among adults and seedlings, as well as among seeds and seedlings, no significant variation in fixation index could be observed (all P-values >0.5). This suggests that selection against homozygotes occurs, but it is unclear whether this effect is stronger at early or later life-stages.
A father was assigned to 84%, 77% and 92% of the seeds analysed for Bayern, NRW and Brandenburg, respectively. In stands Bayern and NRW, no relatedness was observed among mates, whereas in stand Brandenburg, average kinship among seed-trees and pollen donors was 0.12, therefore showing inbreeding in the offspring (Supplementary File 1). In stands NRW and Brandenburg, effective number of fathers was high (31.7 and 34.8, respectively) and kinship among male gametes was similar to the kinship values among mates. In contrast, effective number of fathers was lower in stand Bayern (15.2) and male gametes were related (Fw=0.1).
For subsequent analysis, estimates of kinship among male gametes, kinship among mates and effective number of fathers were averaged among seed-trees belonging to the same clonal ramet in order to avoid non-independence in the data because of mother genotype effect.
Effects of mate diversity and relatedness on offspring fitness
Within-populations, no difference was detected among clonal and non-clonal seed-trees in seed quality (viability, survival) and seedling size (height, diameter) (Kruskall–Wallis rank sum test, all P-values >0.1). Thus, clonality status of seed-trees does not seem to provide fitness advantage to offspring. We therefore did not include clonality status in further analysis. Populations differed significantly for all offspring quantitative traits (Kruskall–Wallis rank sum test, all P-values <0.05; Figure 3).
Mate diversity within seed-families
In the high clonal stand Bayern, seed viability and seedling survival increased significantly with the effective number of fathers, and kinship among male gametes influences negatively seedling survival, thus indicating that diversity sampled by seed-trees positively affected fitness at early life-stages (Table 3). In stand NRW, there were contrasting effects on seedling survival. Survival was negatively influenced by kinship among males, but was lower in families showing high number of effective fathers. The same pattern was observed for seed viability in stand Brandenburg, whereas there was a clear positive effect of kinship among males on seedling survival (that is, negative effect of diversity on seedling survival).
Relatedness among mates
In stand Bayern, seedlings stemming from genetically distant parents were significantly larger (Table 4). Thus, offspring fitness was lower in seedlings from related parents, therefore indicating biparental inbreeding depression at late life-stages. In contrast, seed viability and seedling survival increased with mate genetic similarity indicating rather disadvantage of offspring from genetically unrelated individuals.
In stand NRW, seed viability and seedling survival significantly decreased with kinship among mates, thus indicating biparental inbreeding depression at early life-stages (Table 3), whereas no effect was observed on seedling size.
In stand Brandenburg, offspring from genetically unrelated individuals showed a disadvantage at the earliest life-stage (seed viability), but an advantage at later life-stages (seedling survival and seedling height). This indicates biparental inbreeding depression at late life-stages, although no effect was identified on diameter.
Genetic diversity across life-stages
In this study, we collected seeds from 40 P. avium seed-trees in three stands in Germany to estimate genetic diversity and quality of seed material. The stand Bayern showed the strongest genetic diversity (effective number of alleles, allelic richness), although rate of clonal propagation was high and one clonal group represented 24% of the total number of individuals (Table 1). This result is surprising, given that simulation studies on P. avium showed a significant decrease in the number of genotypes when clonal propagation was strong, whereas no effect was reported on the effective number of alleles (Jolivet and Degen, 2011). However, the lower diversity in the stand Brandenburg could be explained by its smaller density (Jolivet and Degen, 2011) and its spatial isolation. Although stands Bayern and NRW are located within a continuous forest, stand Brandenburg is a forest fragment surrounded by fields. Habitat fragmentation and absence of fragment connectivity has indeed been reported as a cause for reduced mate availability and increased inbreeding (Fuchs et al., 2003; Lazaro and Traveset, 2006; Campbell and Husband, 2007; Sebbenn et al., 2010; Kamm et al., 2011). Isolation of this P. avium population may have thus resulted in loss of genetic diversity and homozygote excess in seed and seedlings, as a consequence of low pollen immigration (Hanson et al., 2008; Sebbenn et al., 2010), significant spatial genetic structure (see Supplementary File 3; Waser and Price, 1994; Isagi et al., 2007; Grindeland, 2008; Hasegawa et al., 2009; Takeuchi et al., 2010), inbreeding (see Supplementary Material 1) or generation overlapping (Litrico et al., 2005).
Seed sampling and seed germination resulted in loss of genetic diversity in the stand Bayern only. As a consequence of clonal propagation, the number of genotypes among seed-trees was reduced to 19 (see Supplementary File 1). Sampling ramet seed-trees or seed-trees surrounded by many clonal ramets might have affected the genetic composition of the offspring (Charpentier, 2001; Cottrell et al., 2009). Although effective number of fathers was much lower in this stand and that kinship among males gametes was high (Supplementary File 1), this indicates a reduced sampling of diversity by seed-trees. Clonal groups consisting of a large number of clonal ramets might strongly have affected mate availability, but we found no significant positive relationship between the effective number of fathers and mate availability (analysis not shown, but see Supplementary File 1). As sampling ramet seed-trees shows contrasting results among stands (no loss of diversity in stand Brandenburg), further work involving simulations could be useful to determine the role of spatial arrangement of mature trees and clonal propagation on the genetic diversity of seed-families.
Seedlings also experienced a reduced allelic richness compared with seeds in this stand, indicating that seed viability and seedling survival affected the genetic composition of the seedling sample. Seeds from one seed-tree (M3) even did not germinate. Loss of genetic diversity could be explained by a reduced fitness in seeds and seedlings leading to mortality, by instance through biparental inbreeding depression (Cheliak et al., 1985; Rajora et al., 2000; Hufford and Hamrick, 2003; Naito et al., 2005; Isagi et al., 2007; Duminil et al., 2009; Hasegawa et al., 2009). However, our data rather showed higher survival of offspring from related parents and fixation index showed excess of heterozygotes.
Effects of mate diversity on offspring fitness
Strong pollen competition should favour siring by donors providing fitness advantage and consequently increase average offspring fitness. We observed a positive effect of effective number of fathers on seed viability and seedling survival in stand Bayern, whereas contrasting results were observed in stands NRW and Brandenburg. Therefore, our results do not deliver a clear pattern, as also shown in the literature (positive effects: Paschke et al., 2005; Vandepitte et al., 2009; no effects: Snow, 1990). In fact, effect of pollen diversity on offspring performance varies among populations and could be affected by environmental stress (Snow, 1990; Paschke et al., 2005). In our study, we observed a positive effect of pollen diversity in the population exhibiting the smallest effective number of fathers but the highest clonality levels (see Supplementary File 1). Although no correlation among the effective number of fathers and mate availability was detected, mate availability decreased in clonal seed-families (analysis not shown, but see Supplementary File 1) in this stand. Therefore, in this situation, poor-quality pollen might sire more offspring in clonal seed-tree through relaxed pollen competition through the style and induce poorer offspring fitness. However, fitness of offspring from clonal seed-trees in this stand tended to be higher, although not significant. Therefore, it is unlikely that the reduced pollen competition among compatible donors because of clonality levels resulted in positive effects of mate diversity on survival traits.
In stands NRW and Brandenburg, fixation indexes decreased from seeds to adults. Loss of homozygote individuals seems indeed to be common in tree species (Cheliak et al., 1985; Hufford and Hamrick, 2003; Naito et al., 2005; Tamaki et al., 2009) and may result from very intensive competition for seedling establishment (Petit and Hampe, 2006) and heterozygote advantage (heterosis).
Surprisingly, excess of heterozygotes was significant in the seeds and seedlings of stand Bayern and tended to decrease from seeds to adults. High clonal propagation enhances excess of heterozygotes in P. avium (Stoeckel et al., 2006; Jolivet and Degen, 2011), however, this was only tested on mature individuals. Some authors hypothesize (Stoeckel et al., 2006) that excess of heterozygotes in wild cherry is a consequence of fitness advantage of heterozygous clones. If such heterozygote advantage would have occurred in stand Bayern, we would have observed heterozygote excess in adults as well. Therefore, the low fixation index observed in seeds is more likely a consequence of mating patterns in the sampled seed-families. Indeed, gametophytic self-incompatibility prevents mating between two individuals sharing the same S-genotype. Sampled seed-trees were mostly originating from clonal propagation and were surrounded by clonal ramets, which reduced mate availability through incompatibility. This might have induced mating with few but unrelated compatible mates, and favoured heterozygosity in the offspring, at least at loci linked to the S-locus (Stoeckel et al., 2006). Furthermore, our study population was a plot within a larger forest. P. avium also occurred outside the study area (Jolivet, personal observation) and pollen flow from outside might have happened, as suggested by the16% non-assigned seeds. As spatial genetic structure was significant in our study plot (Supplementary File 3), pollen immigration could also have induced heterozygosity in the seeds. Yet, kinship among seed-trees and pollen donors in stand Bayern was not lower than kinship levels observed in stand NRW (see Supplementary File 1), which fails to provide evidence of mating with strongly unrelated pollen donors as a consequence of high clonality levels, or of pollen immigration. Therefore, our results on genetic patterns alone do not provide clear insights on the causes of the low fixation index within seeds in stand Bayern.
Biparental inbreeding depression
Analysis of offspring fitness at early seed life-stage (seed viability) and seedling life-stage (seedling survival, seedling height and seedling diameter) revealed contrasting patterns across populations. In stand Bayern, survival traits (seed viability and seedling survival) indicated disadvantage of offspring from unrelated individuals, whereas one seedling growth trait (diameter) strongly indicated biparental inbreeding depression. Outbreeding depression at very early life-stages could indeed explain that fixation index tended to be lower in seeds. Offspring fitness might show an optimum over the whole parental dissimilarity range as reported in Ranunculus reptans (Willi and Van Buskirk, 2005), but our results are surprising because outbreeding depression rarely occurs within-population (Waser and Price, 1994; Grindeland, 2008), usually because of low environmental heterogeneity within stands (Frankham et al., 2011). This result might also be an artefact resulting from the high variation of kinship within families (Supplementary Material 1). Surprisingly, fixation index did not decrease from seeds to seedlings, as would have suggested the lower fitness of seedlings from genetically related parents. However, seedlings were sampled for genetic analysis one year before phenotyping and biparental inbreeding depression could have occurred after this sampling or might had not yet resulted in seedling mortality. Yet, absence of heterozygote excess within adults suggests no biparental inbreeding depression effects from seedlings to adults, although the number of loci used in our study might be too low to allow a correlation between inbreeding and heterozygosity (Balloux et al., 2004). Environmental stress could also lead to different expression levels of inbreeding (Waser and Price, 1994; Paschke et al., 2005). The nursery was located in a region differing from the region of origin of the stand for soil, water and climate conditions. This could have exacerbated effects of biparental inbreeding depression because of maladaptation of the seedlings, whereas adult trees on the stand would not have suffered strong environmental stress leading heterosis. Absence of hetererozygote excess in the adults could also have resulted from ancient management strategies of the stand, by instance planting of several seed sources (thus explaining the strong genetic diversity), followed by relaxed selection levels, which would have minimized effects of biparental inbreeding depression.
In stand NRW, we found clear evidence of biparental inbreeding depression at survival traits only. Strong inbreeding depression at early life-stages is very likely a consequence of lethal recessive alleles. In self-compatible species, lethal recessive alleles are expected to be rapidly purged from the population, whereas in outcrossed, and especially self-incompatible species, these will be maintained because of heterozygosity. Therefore, inbreeding depression should be stronger at early life-stages in predominantly outcrossed species (Husband and Schemske, 1996), although this has not always been confirmed in the literature (Nason and Ellstrand, 1995; Teixeira et al., 2009). In contrast, in highly self-fertilized species, inbreeding depression should be higher at late life-stages (Husband and Schemske, 1996; Grindeland, 2008; Tamaki et al., 2009). However, long-lived species, especially woody perennials, tend to accumulate mitotic mutations over individuals’ lifespan, thus inducing mild inbreeding depression at late life-stages (Ishida, 2006; Petit and Hampe, 2006; Duminil et al., 2009), and resulting in overall strong selection against inbred individuals (Duminil et al., 2009). In our study, we only addressed offspring fitness until the seedling stage, and biparental inbreeding depression because of mild deleterious mutations may not have affected the offspring yet (Waser and Price, 1994). This probably also explains why biparental inbreeding depression was only detected at later life-stages in seedlings from stand Brandenburg. As homozygote excess was observed in this stand, lethal alleles could have been already purged from the population, by instance through ancient isolation of this stand. In stand NRW, mild biparental inbreeding depression might not have affected seedling fitness yet. As seedlings from each seed-tree have been planted in a stand in June 2011, fitness could further be monitored in the next years.
Effects of seed-tree clonality status
We also aimed at addressing the effect of seed-tree clonality status on offspring fitness. First, clonal genotypes might provide a selective advantage to the offspring through higher survival of clonal ramets in the stand, thus resulting in overall stronger fitness of seed-families stemming from clonal seed-trees. Second, as strong geitonogamy probably occurs (Charpentier, 2001), we also expected stronger style saturation by non-compatible pollen and stronger competition among compatible pollen donors favouring good pollen donors. We did not detect any fitness advantage of seed-families collected on clonal ramets. However, we only addressed realized pollen dispersal patterns. Therefore, pollen counts on style and pollination experiments would be necessary to further address extent of pollen competition in clonal and non-clonal seed-trees as well as the consequences of style saturation with non-compatible pollen on mating patterns and offspring success.
Implications for conservation of forest genetic resources
In this study, we analysed genetic diversity and fitness of seed-families stemming from seed-trees used by foresters to produce seed material. Efficient conservation of forest genetic resources requires that no loss of diversity occurs in the sampled reproductive material through sampling effects and biparental inbreeding depression. Estimation of inbreeding depression magnitude together with the underlying mechanisms is therefore of great importance for improved management of certified seed stands. In two of our study stands, fixation indexes decreased in later life-stages. In stand NRW, this effect could be attributed to biparental inbreeding depression at early life-stages, but no loss of genetic diversity was detected. Our results suggest that biparental inbreeding depression in P. avium does not strongly affect conservation of genetic resources, but the quality of the seed material. In stand Bayern, we did observe a decrease in diversity in seeds and seedlings, probably resulting from sampling of seed-trees belonging to a very large clonal group and to inbred advantage at early life-stages. This call for a better understanding of the effect of clonal propagation, especially size of clonal groups and spatial arrangement of reproductive trees on open pollinated seed-family genetic diversity. To answer this question, we propose to conduct simulations to provide insights on the effect of seed-tree sampling scheme on offspring genetic diversity.
Data deposited in the Dryad repository: doi:10.5061/dryad.p1g31.
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We thank Carolin Herzog, Monika Spauszus, Dieter Boedecker, and Matthias Wellern for field work, Christoph Nolte and Rainer Ständer for work in the nursery, Alexandra Meier, Susanne Jelkmann, Stefan Jencsik and Inge Schulze for laboratory work, Jarek Burczyk, Silvio Schueler and three anonymous reviewers for constructive comments on the manuscript. This work was supported 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’).
The authors declare no conflict of interest.
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Jolivet, C., Rogge, M. & Degen, B. Molecular and quantitative signatures of biparental inbreeding depression in the self-incompatible tree species Prunus avium. Heredity 110, 439–448 (2013). https://doi.org/10.1038/hdy.2012.103
- biparental inbreeding depression
- pollen competition
- clonal propagation
- genetic resources
- Prunus avium
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