Conservation Genetics

, Volume 14, Issue 3, pp 573–588 | Cite as

Concordant mitochondrial and microsatellite DNA structuring between Polish lowland and Carpathian Mountain wolves

  • Sylwia D. Czarnomska
  • Bogumiła Jędrzejewska
  • Tomasz Borowik
  • Magdalena Niedziałkowska
  • Astrid V. Stronen
  • Sabina Nowak
  • Robert W. Mysłajek
  • Henryk Okarma
  • Maciej Konopiński
  • Małgorzata Pilot
  • Wojciech Śmietana
  • Romolo Caniglia
  • Elena Fabbri
  • Ettore Randi
  • Cino Pertoldi
  • Włodzimierz Jędrzejewski
Open Access
Research Article

Abstract

Phylogeographic studies of highly mobile large carnivores suggest that intra-specific genetic differentiation of modern species might be the consequence of the most recent Pleistocene glaciation. However, the relative influence of biogeographical processes and subsequent human-induced population fragmentation requires a better understanding. Poland represents the western edge of relatively continuous distributions of many wide-ranging species, e.g. lynx (Lynx lynx), wolves (Canis lupus), moose (Alces alces) and, therefore, a key area for understanding historic and contemporary patterns of gene flow in central Europe. We examined wolf genetic structure in Poland and in a recently recolonized area in eastern Germany using microsatellite profiles (n = 457) and mitochondrial DNA sequencing (mtDNA, n = 333) from faecal samples. We found significant genetic structure and high levels of differentiation between wolves in the Carpathian Mountains and the Polish lowlands. Our findings are consistent with previously reported mtDNA subdivision between northern lowlands and southern mountains, and add new and concordant findings based on autosomal marker variation. Wolves in western Poland and eastern Germany showed limited differentiation from northeastern Poland. Although the presence of private alleles suggests immigration also from areas not sampled in this study, most individuals seem to be immigrants from northeastern Poland or their descendants. We observed moderate genetic differentiation between certain northeastern lowland regions separated by less than 50 km. Moreover, mtDNA results indicated a southeastern subpopulation near the border with Ukraine. The observed structure might reflect landscape fragmentation and/or ecological differences resulting in natal habitat-biased dispersal.

Keywords

Canis lupus Poland Eastern Germany Genetic structure mtDNA lineages Nuclear DNA Non-invasive molecular techniques 

Introduction

The Pleistocene glaciations have had profound implications for biogeographical processes such as distributions, population fragmentation and gene flow in wild species (e.g. Taberlet et al. 1998; Hewitt 2000). Data from highly mobile large carnivores indicate weak phylogeographic structuring prior to the last glacial maximum, suggesting that the current distributions of distinct genetic lineages arose in consequence of the most recent glaciation (Hofreiter et al. 2004). However, ensuing human activity has resulted in further and more recent fragmentation in populations of species such as European brown bears (Ursus arctos) (Zedrosser et al. 2001), Eurasian lynx (Lynx lynx) (Schmidt et al. 2011) and Canadian wolves (Canis lupus) (Stronen et al. 2012). The extent to which historical biogeographical processes and recent human-induced fragmentation have contributed to shape the extant population genetic subdivisions in vagile taxa requires further understanding.

An abrupt ecological transition between the Great European Plains and the Carpathian Mountains occurs in southern Poland. These areas represent potential contact zones between genetically divergent lineages of organisms that recolonized central Europe during the Holocene from different glacial refugia in the Balkans, the Carpathians, and in other parts of eastern Europe (Bhagwat and Willis 2008 and references therein) In several species, contact zones between different mitochondrial DNA (mtDNA) lineages have been detected in Poland. Examples include the Norway spruce Picea abies (Tollefsrud et al. 2008), the bank vole Myodes glareolus (Wójcik et al. 2010), and the red deer Cervus elaphus (Niedziałkowska et al. 2011). Poland represents the western edge of relatively continuous distributions of wide-ranging Palaearctic species, including the lynx (Schmidt et al. 2009), moose (Alces alces) (Schmölcke and Zachos 2005), and wolf (Jędrzejewski et al. 2010). Some of these populations are now expanding westward, recolonizing parts of central Europe [e.g., the moose (Schmölcke and Zachos 2005, and references therein); the wolf (Nowak et al. 2011)]. Other populations are geographically and perhaps genetically isolated. Lynx inhabiting northeastern Poland were reported to be genetically distinct from their conspecifics in Latvia and Estonia and are presumably isolated by unsuitable dispersal habitats (Schmidt et al. 2009). Moose appear to be expanding from their western range edge in Poland into the Czech Republic and Germany (reviewed in Schmölcke and Zachos 2005). Although the population structure of red deer in Poland and neighbouring countries has been mainly shaped by human translocation, some differentiation between populations in Carpathian Mountains and northern Poland is still detectable (Niedziałkowska et al. 2011, 2012 and references therein).

Wolves in eastern Europe show high levels of genetic diversity and distinct mtDNA haplogroups (Pilot et al. 2010). Two mtDNA haplogroups, which might have diverged about 200,000 years ago, converge in the Carpathian Mountains (Pilot et al. 2010). However, earlier results from microsatellite markers could not identify distinct populations in NE Poland and the Carpathian Mountain (Pilot et al. 2006), underlining the need to clarify patterns of gene flow and the origin of expanding populations.

Distinct genetic structuring of the Polish wolf population was suggested by an earlier large-scale study of central and eastern European wolves (Pilot et al. 2006). Although Pilot et al. (2006) sampled only a portion of the Polish wolf range, they detected 3–4 subpopulations delimited by mtDNA and 2 subpopulations based on microsatellite loci. Western Poland has abundant wolf habitat, and the country could support two to three times its current population of approximately 650 wolves (as estimated by Jędrzejewski et al. 2008, 2010). Wolves have recently recolonized parts of western Poland and eastern Germany, probably from northeastern Poland (Jędrzejewski et al. 2004, 2005a; Ansorge et al. 2006; Nowak et al. 2011). Consequently, Poland represents a key area for understanding historic and contemporary patterns of wolf gene flow in central Europe.

In this study we sampled the entire wolf distribution range in Poland and a portion of eastern Germany that now represents a natural extension of the population in western Poland. The wolf is a protected species, and we consequently based our investigations mainly on non-invasive molecular techniques using DNA extracted from faecal samples. The aim of our study was to answer the following questions: (1) Are wolf populations genetically structured across Poland? (2) Do mitochondrial and nuclear genetic markers show concordant results? Because the central European wolf range has expanded over the past decades, we also asked: (3) Were western Poland and eastern Germany recolonized by wolves from northeastern or southern Poland?

Materials and methods

Study area

We collected wolf scat and tissue samples throughout Poland (311,904 km2, 49°00′–54°50′N, 14°08′–24°09′E). This territory extends throughout various geographical regions, with lowlands (<300 m a.s.l.) dominating in the northern and central part and uplands (301–500 m a.s.l.) and mountains (501–2,499 m a.s.l.) in the south. The climate of Poland is temperate with transitional character (oceanic in the north and west, continental in the east). The mean annual temperature decreases from south-west (8.5 °C) to north-east (6 °C). Annual precipitation is 500–650 mm in the lowlands and 1,200–1,500 mm in the mountains. The snow cover persists from an average of 40 days in south-western Poland to 100 days in the north-eastern part of the country and 200 days in the mountains (Concise Statistical Yearbook of Poland 2011). The mean human population density is 122 inhabitants/km2 and ranges from 20 in north-western and north-eastern Poland to 500 inhabitants/km2 in Upper Silesia in south-western Poland (Demographic Yearbook of Poland 2011).

Forests cover 29 % of the country; the rest is primarily farmlands (60 %) with predominance of arable land. Most forests are coniferous stands (51 %) dominated by Scots pine (Pinus sylvestris, 60 % of the forest area) and Norway spruce (Picea abies, 6 %). Deciduous and mixed forest with oak (Quercus robur and Q. petraea), ash (Fraxinus excelsior), maple (Acer platanoides and A. pseudoplatanus), beech (Fagus sylvatica), hornbeam (Carpinus betulus), birch (Betula pubescens and B. pendula) and alder (Alnus glutinosa) constitute about one-fourth of all forest land. About 98 % of woodlands are commercial stands and only 2 % are national parks and reserves (Forestry 2011).

Almost all of Poland is inhabited by three native species of ungulates: red deer, wild boar (Sus scrofa), and roe deer (Capreolus capreolus). In north-eastern and central parts of the country, moose and three populations of European bison (Bison bonasus) occur. The Carpathian Mountains harbour isolated populations of chamois (Rupicapra rupicapra) and European bison. Populations of fallow deer (Dama dama), sika deer (Cervus nippon) and mouflon (Ovis musimon) have been introduced to certain forests (Wawrzyniak et al. 2010). Large predators—wolf and lynx—occur mainly in the north-eastern, eastern, and south-eastern parts of the country (Jędrzejewski et al. 2004, 2008; Niedziałkowska et al. 2006). However, wolves have recently been recolonizing the large woodlands of western Poland (Nowak et al. 2011) and the current range of wolves in Poland is shown in Fig. 1.
Fig. 1

Wolf (Canis lupus) genotypes analysed in this study shown on the background of wolf range and forest cover in Poland. See Table 1 for region names (1–12)

Sample collection

Wolf scat and tissue samples were collected during 2001–2009. Foresters, national park rangers, students, volunteers, and personnel of the Mammal Research Institute of the Polish Academy of Sciences (hereafter MRI PAS), the Association for Nature “Wolf”, and the Institute of Nature Conservation PAS surveyed areas within the presently known wolf range and gathered wolf scats throughout the year. Small fragments of fresh wolf faeces were either stored in plastic tubes (5–30 ml) filled with 96 % alcohol or ALS buffer (QIAGEN), or kept frozen at −20 °C. In total, 1696 scat samples were collected in Poland (Table 1). In addition, 19 scat samples from eastern Germany were added to supplement data from recently colonized areas near the Polish-German border (Lower Silesia Forest). Information on dead wolves (mainly poached or killed in vehicle collisions) was also recorded and tissue or skin samples (n = 38) were collected. We henceforth refer to geographic sampling areas as sampling regions (n = 12, Fig. 1) to distinguish these units from clustering results obtained from genetic analyses. Finally, twenty-five dog samples (blood and tissue), to be used as a reference group for detecting possible wolf-dog hybrids, were collected in Poland from private owners and from individuals killed by vehicles.
Table 1

Wolf (Canis lupus) samples collected and analysed from Poland and Eastern Germany, 2001–2009

No.

Region

Number of collected samples

Number of scat samples analysed

Number of wolf genotypes identified based on microsatellite markers

Number of individuals with mtDNA sequenced

Number of individuals genotyped at nine SNPs

1

Bieszczady Mountains and Dynów Foothills

115 (3)

100

72

62

8

2

Low and Sądecki Beskid

52

52

31

28

6

3

Gorce and Tatra Mountains, Żywiec-Silesian Beskid

107

100

44

32

12

4

Roztocze

161 (6)

143

38

25

6

5

Parczew, Sobibór and Włodawa Forests

73

56

12

10

6

Knyszyn, Białowieża and Mielnik Forests

255 (8)

184

55

39

9

7

Biebrza River Valley

168 (4)

124

45

27

9

8

Augustów Forest

272 (6)

220

40

27

10

9

Rominta and Borki Forests

84 (2)

84

17

14

4

10

Pisz Forest

125 (4)

87

26

21

11

Napiwoda-Ramuki Forest

72 (2)

62

20

15

12

Western Poland (and Eastern Germanya)

231 (3)

222

57

33

2

Total

1715 (38)

1407

457

333

66

Figure 1 shows the location of regions 1-12. Samples were scats and occasionally tissue (numbers of the latter in parentheses, quantities are included in the total numbers)

asubsample from Eastern Germany included: 19 scats collected, 19 scats analysed, 9 wolf genotypes based on microsatellite markers, and 5 individuals with mtDNA sequenced

Laboratory methods

DNA from faecal samples was isolated using the QIAamp DNA Stool Mini Kit (QIAGEN) and DNA from tissue samples was extracted with the DNAeasy tissue kit (QIAGEN).

For a portion of the samples collected in southern Poland (n = 185), DNA was isolated using a phenol–chloroform method (Sambrook and Russel 2001) with two additional phenol extractions at the beginning of the procedure, at the Institute of Nature Conservation PAS in Cracow, Poland. In order to reduce contamination risk, scat extraction was carried out in a room dedicated to non-invasive samples. Negative controls were included in each extraction set to monitor for contamination.

Amplification of a 230 bp mtDNA fragment of the HV1 region was performed using primers described by Savolainen et al. (1997). Amplifications were carried out in 10 μl reaction volumes containing 1U Taq polymerase, 200 μM dNTP, 2.0 μl 10× concentrated PCR buffer, 1.5 mM MgCl2, 0.1 mM of primers, 0.2 μl of BSA (Fermentas) plus 0.2 μl PCR Anti-inhibitor (DNA Gdańsk, Poland) and 2 or 3.6 μl of DNA extract, respectively, for tissue or scat samples. The reaction conditions were as follows: 2 min at 94 °C of initial denaturation, 30 cycles (tissue) or 36 cycles (scats) of 20 s at 94 °C, 30 s at 69 °C, 40 s at 72 °C, and the final extension step for 10 min at 72 °C. We subsequently amplified mtDNA sequences for each region using a portion of the samples identified as having distinct microsatellite profiles. PCR products were purified using Clean Up (A&A Biotechnology, Gdańsk, Poland). Sequencing reactions were carried out in 10 μl volumes using the Big Dye ver. 3.1 sequencing kit (Applied Biosystems) with the forward primer. Products were purified with the Exterminator kit (A&A Biotechnology) and separated on an ABI PRISM 3100 Genetic Analyser (Applied Biosystems). Sequencing results were analysed with ABI PRISM DNA Sequencing Analysis software and aligned by eye in BioEdit ver. 7.0.9. (Hall 1999). Haplotypes were compared to previously recorded sequences from Pilot et al. (2006) using Collapse ver. 1.1 (D. Posada, http://darwin.uvigo.es/software/collapse.html).

Microsatellite genotyping was performed using 11 polymorphic loci: FH2001, FH2010, FH2017, FH2054, FH2079, FH 2088, FH2096, FH2137, and FH2140 (Francisco et al. 1996), C213 (Ostrander et al. 1993) and VWF (Shibuya et al. 1994). Amplifications were carried out in four multiplex reactions using Multiplex PCR Kit (QIAGEN) and PCR conditions described in the manufacturer’s instructions with modifications by adding 0.1 μl BSA (Fermentas) and 0.1 μl PCR Anti-inhibitor (DNA Gdańsk). Cycling was performed on a DNA Engine Dyad Peltier Thermal Cycler (BIO RAD) with the following profile: 16 cycles of 94 °C for 30 s, 58 °C for 90 s, 72 °C for 60 s, followed by 10 cycles of 94 °C for 30 s, 57 °C for 90 s, 72 °C for 60 s and 10 cycles of 94 °C for 30 s, 56 °C for 90 s, 72 °C for 60 s with a final extension of 60 °C for 30 min, after an initial denaturation step of 95 °C for 15 min. Fragments were separated using genetic analyzer ABI3100 and allele lengths were determined with GENEMAPPER 3.5 (Applied Biosystems) and GENEMARKER 1.51 (SoftGenetics LLC). Each scat sample was amplified at least three independent times through a multiple-tube approach (Taberlet et al. 1996). We accepted alleles confirmed by a minimum of two independent PCR amplifications. Only individuals for which six or more loci had been successfully amplified were included in subsequent analyses.

Additionally, 66 samples were analysed at nine single nucleotide polymorphism (SNP) loci: 372M9, BLA22, BLB52, 168J14, 1C06, 38K22, 182B11, 218J14, 309N24, using the TaqMan Assay protocol described in Fabbri et al. (2012) at the Laboratory of Genetics at Istituto Superiore per la Protezione e la Ricerca Ambientale (ISPRA), Italy, to verify individual identification, with focus on samples genotyped at ≤9 loci. If not stated otherwise, all analyses were done at MRI PAS, Poland.

Probability of identity and test for the presence of wolf-dog hybrids

We used GIMLET 1.3.3 (Valière 2002) to identify false homozygotes (drop-out alleles) and false alleles by comparing repeated genotypes, construct a consensus genotype from the sets of PCR repetitions for each sample of faeces, and identify multiple samples from the same individual. Multilocus genotypes were analysed with 25 reference dog genotypes to detect any dogs or wolf-dog hybrids using the Bayesian clustering procedure implemented in STRUCTURE (Pritchard et al. 2000) as outlined in previous analyses of wolves from Italy (Verardi et al. 2006; Randi 2008). We ran STRUCTURE using 105 iterations, following a burn-in period of 104 iterations, to assign individuals to clusters. Five independent runs were completed for each K value (1–10). We verified that likelihood values converged for each run of K. All samples with membership qi < 0.90 in the wolf cluster (in total 17 dogs and possible wolf-dog hybrids, not concentrated in any particular region) were excluded, and we continued analyses only with samples considered to be wolves.

Probability of identity (PI) for an increasing number of loci, i.e. the probability that different individuals share an identical multilocus genotype by chance, and the PI between sibs (PIsib) (Waits et al. 2001) were calculated in GenAlEx ver. 6.1 (Peakall and Smouse 2006). Additionally, the number of matches between wolf genotypes was calculated to determine the minimum number of loci needed for individual identification.

Statistical analyses

Genetic diversity statistics for mtDNA sequences including the number of haplotypes and polymorphic sites, haplotype and nucleotide diversity were estimated using DnaSP ver. 5 (Librado and Rozas 2009). To infer population genetic structure based on mtDNA haplotype frequency we used the spatial analysis of molecular variance implemented in the SAMOVA software (Dupanloup et al. 2002). This approach defines groups of populations that are geographically homogenous and maximally differentiated from each other. The method is based on a simulated annealing procedure that aims to maximize the proportion of total genetic variance due to differences between groups of populations. This approach requires the a priori definition of the number (K) of groups. We ran SAMOVA with K ranging from 2 to 6. Each analysis was performed twice to check for consistency of results. In each run, 100 simulated annealing processes were performed. The recognition of the most probable number of groups was based on the pattern of changes in values of Φ-statistic parameters with K.

Microsatellite variability statistics, including the number of alleles per locus and the number of private alleles, observed (HO) and expected (HE) heterozygosity, and tests for departures from Hardy–Weinberg equilibrium were calculated in GenAlEx. Allelic richness, which corrects the observed number of alleles for differences in sample size, and the inbreeding estimator Wright’s FIS were computed with FSTAT ver. 2.9.3 (Goudet 1995). To test for genetic differentiation among sampling regions, pairwise FST values (Weir and Cockerham 1984) were calculated in Arlequin ver. 3.11 (Excoffier et al. 2005). Genetic differentiation between populations was characterized by exact tests (Raymond and Rousset 1995), using GENEPOP ver. 3.1. The levels of significance for multiple tests were adjusted by the sequential Bonferroni method (Rice 1989).

Two complementary Bayesian clustering algorithms, STRUCTURE ver. 2.3 (Pritchard et al. 2000) and GENELAND ver. 3.3 (Guillot et al. 2005), were applied to infer population structure and assign individuals to subpopulations (clusters) based on individual multilocus genotypes and—in GENELAND—their spatial location. The posterior probability of the data [LnP(D)] was estimated from four replicate runs for a number of groups K = 1 to 10, each with a burn-in of 104 followed by 105 iterations, using the admixture model and correlated allele frequencies (Falush et al. 2003). Inferences in GENELAND were done in a single step as recommended by the authors (Guillot 2008). This approach makes inferences faster and avoids the issue of ghost populations. Thus, we ran GENELAND 50 times allowing K to vary from 1 to 15, with the following parameters: 205 MCMC iterations, maximum rate of Poisson process fixed to 100, uncertainty attached to spatial coordinates fixed to 0.5°, and the maximum number of nuclei in the Poisson–Voronoi tessellation fixed to 300. We computed the posterior probability of subpopulation membership for each pixel of the spatial domain and the modal subpopulation for each individual in all 50 runs. Finally, we examined all runs for consistency.

Subsequently, we evaluated population genetic structure performing principal component analyses (PCA) on individual genotypes from 4 subpopulations defined by STRUCTURE (with region 4 and 5 separated from regions 8–12 because of geographic distance and the GENELAND results) using the adegenet-package (Jombart 2008) in R 2.15.0 (R development Core Team 2012). The PCA does not assume Hardy–Weinberg equilibrium (HWE) and is highly efficient in revealing genetic structure in the form of clines, which is more difficult to detect than clusters (Jombart et al. 2009). We calculated pairwise genetic distances among wolves in the 12 regions based on mitochondrial and nuclear markers, and compared the results using the partial Mantel test in R with the vegan package (Oksanen et al. 2011).

Results

Genetic variability and structuring based on mtDNA

We found six mtDNA haplotypes (H1, H2, H3, H6, H8, H14—nomenclature consistent with Fig. 2 in Pilot et al. 2006) among 333 analysed samples. They are all known from previous studies (Vila et al. 1999; Randi et al. 2000; Jedrzejewski et al. 2005a; Pilot et al. 2006). H1, H2, H3 and H8 belong to haplogroup 1, which is widespread in north-eastern and central Europe and the Iberian Peninsula, whereas H6 and H14 belong to haplogroup 2 that dominates in south-eastern Europe and Italy (Pilot et al. 2010). The number of mtDNA haplotypes per region ranged from one to four (Table 2). We observed no relationship between the number of samples and the number of haplotypes per region (r2 = 0.004, F1,10 = 0.038, P > 0.8). Notably, we found the highest number of haplotypes (4) in regions 4 (n = 25 individuals analysed) and 5 (n = 10 inds). The latter region also showed the highest number of polymorphic sites (Table 2). Conversely, samples from regions 2 (n = 28 inds) and 7 (n = 27 inds) revealed only one haplotype, which were H6 and H2, respectively.
Fig. 2

Four subpopulations (S1–S4) of wolves in Poland, based on mtDNA, delimited by SAMOVA (left panel) and haplotype frequencies for subpopulations (right). Sampling information is provided in Table 1

Fig. 3

Results of STRUCTURE analysis for Polish wolves, based on 11 microsatellite loci, assuming K = 2 to 5 subpopulations of wolves. Black lines separate wolves from different sampling regions. Sampling information is provided in Table 1

Fig. 4

Structuring of the Polish wolf population inferred by GENELAND in 50 runs. Individuals were assigned to subpopulation G1 in 43 of 50 runs and to population G2 in 40 of 50 runs. Other individuals were inconsistently clustered. Sampling information is provided in Table 1

Fig. 5

Principal Component Analysis (PCA) of Polish wolves representing 5 subpopulations suggested by STRUCTURE and GENELAND. The plot shows individual wolves organized by sampling regions (detailed in Table 1). Black ovals are 95 % inertia ellipses. Thirteen outliers (from seven different regions) were excluded to improve resolution of the figure. None of the 13 outliers appeared to have dog ancestry, and nine (for which mtDNA was analysed) had common wolf haplotypes

Fig. 6

Relationship between pairwise genetic distances for Polish wolves from the 12 sampling regions based on microsatellite (FST) and mtDNA (ΦST) markers. Sampling information is provided in Table 1

Table 2

Basic genetic variability parameters for wolves from 12 regions in Poland and eastern Germany genotyped at 11 microsatellite loci

Parameter

Region

1

2

3

4

5

6

7

8

9

10

11

12

Mitochondrial DNA

 No. of haplotypes

3

1

3

4

4

3

1

2

2

2

2

2

 No. of polymorphic sites

8

0

10

9

13

10

0

6

6

6

6

6

 Haplotype diversity (SD)

0.063

(0.042)

0.123

(0.078)

0.473

(0.013)

0.733

(0.101)

0.310

(0.085)

0.313

(0.096)

0.363

(0.130)

0.524

(0.036)

0.133

(0.112)

0.458

(0.058)

 Nucleotide diversity (SD)

0.002

(0.002)

0.004

(0.003)

0.011

(0.003)

0.020

(0.004)

0.009

(0.003)

0.008

(0.003)

0.010

(0.003)

0.014

(0.010)

0.004

(0.003)

0.012

(0.002)

Microsatellites

 Average no. of alleles/locus

6.000

6.000

5.909

5.636

4.818

6.182

4.909

5.818

4.273

5.364

5.636

6.636

 Allelic richness

4.147

4.561

4.410

4.478

4.635

4.163

3.903

4.294

3.994

4.508

4.676

4.769

 Average number of private alleles

0.091

0.091

0.091

0.091

0.091

0.091

0.364

0.182

0.455

 HO

0.524

0.576

0.557

0.517

0.538

0.537

0.513

0.507

0.452

0.545

0.475

0.520

 HE

0.650

0.644

0.626

0.670

0.671

0.652

0.629

0.651

0.628

0.689

0.661

0.688

 FIS

0.203

0.122

0.126

0.242

0.243

0.186

0.197

0.235

0.310

0.228

0.307

0.260

Figure 1 and Table 1 show sampling regions and sample sizes

HO, observed heterozygosity; HE, expected heterozygosity; FIS, inbreeding coefficient

Pairwise ΦST values between the 12 geographically predefined regions were generally very high (>0.25) and statistically significant, which indicated isolation among many regions according to the mtDNA (Table 3). Only seven of the 66 pairwise distance values were low (<0.05). These low values occurred among the regions located in the same part of the country within the lowlands and the Carpathian Mountains.
Table 3

Pairwise genetic distances (above diagonal ΦST, based on mtDNA and below diagonal Fst, based on microsatellite markers) wolves sampled from 12 regions in Poland and eastern Germany. All ΦST and FST values (except those marked NS) were statistically significant at P < 0.001 after Bonferroni correction (k = 66)

Region

1

2

3

4

5

6

7

8

9

10

11

12

1

*

0.002NS

-0.007NS

0.743

0.565

0.814

0.935

0.831

0.846

0.777

0.897

0.768

2

0.052

*

0.011NS

0.743

0.584

0.818

1.000

0.844

0.875

0.769

0.954

0.756

3

0.055

0.044

*

0.681

0.438NS

0.763

0.931

0.776

0.790

0.698

0.869

0.698

4

0.087

0.109

0.127

*

0.317

0.614

0.771

0.575

0.564

0.481

0.639

0.509

5

0.102

0.085

0.095

0.049NS

*

0.465

0.747

0.248NS

0.363NS

0.169NS

0.349NS

0.180NS

6

0.212

0.166

0.202

0.139

0.096

*

0.109NS

0.560

-0.042NS

0.229NS

0.687

0.388

7

0.160

0.171

0.205

0.067

0.064NS

0.156

*

0.803

0.246NS

0.538

0.949

0.633

8

0.136

0.111

0.144

0.075

0.069

0.108

0.111

*

0.498NS

0.132NS

0.009NS

0.015NS

9

0.121

0.111

0.176

0.065

0.099

0.119

0.095

0.047

*

0.129NS

0.672NS

0.298NS

10

0.163

0.153

0.176

0.082

0.052NS

0.066

0.091

0.055

0.071

*

0.288NS

0.003NS

11

0.149

0.129

0.172

0.053

0.063

0.063

0.081

0.076

0.043NS

0.025NS

*

0.130NS

12

0.159

0.132

0.184

0.078

0.076

0.052

0.114

0.080

0.054NS

0.040

0.011NS

*

Values of low level of differentiation (<0.05) are in italics, moderate (0.05–0.15) in regular font, high (>0.15), and very high (>0.25) are in bold

The results of SAMOVA indicated significant population genetic structure for each assumed number of groups. The highest increase in ΦCT value occurred between K = 3 and K = 4 and all parameters of the Φ-statistics stabilized from K = 4 (Appendix: Fig. 7). Thus, we assumed four subpopulations as the most parsimonious clustering configuration that maximized variation among groups. Wolves from the regions 1, 2, and 3 in the Carpathians formed subpopulation S1 (Fig. 2). Subpopulation S2 was comprised exclusively of individuals from region 4 in south-eastern Poland. Wolves from regions 5, 8, 10, 11, and 12 formed the geographically disjunct subpopulation S3. Finally, wolves from regions 6, 7, and 9 formed subpopulation S4. Subpopulation S1 in the Carpathian Mountains was strongly dominated by haplogroup 2 (97 % of the wolves), and four haplotypes from haplogroup 1 were present there at low frequencies. In contrast, subpopulations S2, S3 and S4 were primarily comprised of individuals carrying haplotypes from the previously identified haplogroup 1 (S2—88 %, S3—96 %, and S4—99 %) and included haplogroup 2 at very low frequencies (Fig. 2). Pairwise ΦST values among four subpopulations (S1–S4) were all very high (>0.25), which indicates little or no mtDNA gene flow among them (Appendix: Table 5).
Fig. 7

Changes in Φ-statistics for K = 2 to 6 subpopulations of wolves in Poland, on the basis of mtDNA and inferred from SAMOVA. ΦSC—proportion of the variance among local populations within groups. ΦST—proportion of the variance among local populations within the total population. ΦCT—proportion of the total variance explained by the grouping

Genetic differentiation and structuring based on microsatellites

We identified a total of 457 wolf genotypes. The allelic drop-out rate ranged from 0.079 to 0.360 among regions. The highest values were observed for the loci FH2010, FH2017 and FH2079 (Appendix: Table 6), which had fragment length >200 bp and thus higher probability of drop-out for low quality-samples (Broquet et al. 2007). Based on all 11 loci, the cumulative PI of all genotypes was 1.35 × 10−11 and the probability of identity between sibs (PIsib) equaled 5.0 × 10−5 (detailed data available upon request). Data from seven microsatellites were sufficient to distinguish all 457 genotypes with PI = 3.13 × 10−7. We used three samples genotyped at 6 loci. They were assigned to the region of origin, and so their inclusion is unlikely to have biased our results. SNP data for the 66 samples with ≤9 microsatellite loci amplified confirmed individual identifications with cumulative PI = 0.002 and PIsibs = 0.042. Microsatellite data for these 66 samples were therefore included in subsequent analyses.

The 11 loci were polymorphic in all regions and the average number of microsatellite alleles per locus varied between 4.27 and 6.64 (Table 2). Observed heterozygosity (HO) values (range 0.45–0.58) were lower than expected (HE, range 0.63–0.69). In the total population of Polish wolves we found significant deviation from HWE at all 11 loci (Appendix: Table 6). We also tested for HWE in subpopulations defined by STRUCTURE (Fig. 3). Four to seven of 11 loci (depending on subpopulation) showed significant deviation from HWE (after correcting for multiple tests), except for subpopulation 5 (regions 8–12) where 10 loci showed significant deviation. Only locus FH2137 displayed consistent deviation from HWE across all subpopulations, the results for other loci varied among subpopulations. FIS values ranged from 0.122 to 0.310 and were not correlated to the number of wolf genotypes per group (r2 = 0.15, F1,10 = 1.779, P > 0.2). We found no relationship between the number of mtDNA haplotypes and the number of microsatellite alleles per locus in the 12 regions (Pearson r = 0, F1,10 = 0.002, P > 0.9). Individuals from regions 5, 9, and 10 did not show private alleles (Table 2). The highest number of private alleles was found in region 12 (western Poland and eastern Germany), which comprised 57 individuals distributed across one-third of the sampling area (see Fig. 1).

Pairwise FST values between the 12 geographically predefined regions ranged from 0.011 to 0.212 (Table 3) and 59 of 66 pairwise comparisons remained significant after Bonferroni correction. FST values generally indicated high (>0.15; Balloux and Lugon-Moulin 2002) or moderate (0.05–0.15) genetic differentiation among wolves from the Carpathian Mountains (regions 1, 2, 3) and other sampling regions. Within northern Poland, we observed high differentiation only between regions 6 and 7. The lowest differentiation (FST < 0.05) was observed among regions 10, 11 and 12 (Table 3).

Microsatellite results from STRUCTURE suggested division of Polish wolves into two subpopulations: the Carpathian Mountains (regions 1–3) and the lowlands (regions 4–12) (Fig. 3). Although LnP(D) continued to increase when augmenting K in the STRUCTURE analyses, ΔK (Evanno et al. 2005) showed highest support for K = 2 followed by K = 5 groups (Appendix: Table 4). However, the pattern of individual assignment into five subpopulations only followed a visible spatial structure for four of the clusters: regions 1–3, region 4, region 6, and region 7 (Fig. 3). Removal of locus FH2137 did not change the genetic clusters identified in STRUCTURE with ΔK showing highest support for K = 2 followed by K = 4 groups.

Inferences made in GENELAND supported clear separation of the Carpathian Mountains (regions 1–3) and south-eastern areas comprising wolves from regions 4 and 5 (Fig. 4). Twenty-six of 50 runs gave a modal value at five whereas 24 gave a mode at six for the posterior distribution of K. None of the 50 runs indicated ghost populations. The location of the two southern clusters was constant among all 50 runs, and 147 wolves from regions 1, 2 and 3 were consistently assigned to the Carpathian subpopulation in 43 of 50 runs. Similarly, 35 individuals from region 4 were assigned to the southeastern subpopulation in 40 of 50 runs. The remaining 275 wolves from regions 6–12 were randomly and inconsistently divided into three or four groups.

Finally, the first two PCA components clearly divided wolves into 2 main groups. PC-1 differentiated the Carpathian wolves (region 1–3) from lowland individuals, and PC-2 separated regions 6 and 7, which both overlapped with regions 8–12 (Fig. 5). Wolves from regions 4–5 were placed on the PCA plot between the Carpathian and lowland individuals, which accords with the STRUCTURE and GENELAND results.

Genetic structuring of wolves based on microsatellite markers and inferred by three analytical tools (STRUCTURE, GENELAND, PCA) and results from mtDNA (SAMOVA) consistently divided the Polish wolf population into a Carpathian and a lowland subpopulation. Within the lowlands, only differentiation of region 4 (Roztocze) by mtDNA was supported by the microsatellite results (GENELAND, STRUCTURE with K = 5). We found concordance between pairwise genetic distances among wolves in 12 regions based on mitochondrial and nuclear markers (Fig. 6). A partial Mantel test (Smouse et al. 1986) where the geographic distance matrix was held constant, while the relationship of FST and ΦST was determined, showed a significant positive correlation of the two measures of genetic distance (Mantel r = 0.521, P = 0.001, test with 999 permutations).

Discussion

Are wolf populations structured across Poland?

We found significant genetic structure between wolf populations in the Carpathians and the Polish lowlands. Our mtDNA results seem to correspond with those reported from earlier research encompassing a larger area of eastern Europe. A Carpathian subpopulation indicated in Pilot et al. (2006) corresponds with subpopulation S1 identified in our study. Similarly, S2 corresponds with a subpopulation spanning from southeastern Poland through southern Belarus and northern Ukraine into Russia. S3 and S4 appear to be part of a subpopulation extending from northeastern Poland and eastward into Russia (Pilot et al. 2006). A subsequent study examined the historical distribution of haplogroups in (primarily) eastern Europe (Pilot et al. 2010). These findings suggest that most haplotypes from S1 belong to haplogroup 2 from southern Europe, whereas S2, S3, and S4 are principally composed of wolves from haplogroup 1. The present contact zone between the two lineages in central Europe appears to be a result of one haplogroup (1) partially replacing a more ancient haplogroup (2) that had been predominant over the last several millennia and remains widely distributed in southern Europe (Leonard et al. 2007; Pilot et al. 2010). The presence of mainly one haplotype (H6) from haplogroup 2 in the Polish Carpathians indicates low genetic diversity at its current northern range. Consequently, Poland can be seen as a meeting zone between two lineages of wolves. Despite the geographical proximity well within wolf dispersal distance (e.g. Wabakken et al. 2007), our results suggest very limited gene flow between the two areas and, hence, a restricted contact zone between the north and the south. Pilot et al. (2006) observed a single population cluster encompassing northern and southern Polish wolves. Our microsatellite results showed strong genetic structure between the Carpathians and the Polish lowlands, and thus demonstrate additional substructuring within Poland when compared with previous findings. The observed deviation from HWE may be due several reasons: the presence of null alleles, high allelic dropout rate in non-invasive studies, the existence of local genetic structure (Wahlund’s effect), lack of random mating, or the presence of closely related individuals (members of the family groups) in a sample. Although genotyping error and null alleles may have contributed to the excess of homozygotes, these factors are unlikely to explain the observed mountain-lowland structure in Polish wolves. Other studies on wolf population structure (that used tissue samples) also showed significant heterozygote deficit and positive values of FIS, which was explained by moderate inbreeding, the presence of closely related individuals, or the presence of additional undetected structure (Lucchini et al. 2004, Pilot et al. 2006, Jansson et al. 2012).

In addition to the north–south structure, our results indicated clustering within the lowland area. FST values between small groups may reflect social structure and can show relatively high values between local family groups. For example, Thiessen (2007) reported between-pack differentiation of FST = 0.179 based on n = 36 wolf packs in western Canada. Wolves typically live in social and territorial groups of 2–11 individuals (Fuller et al. 2003; Jędrzejewski et al. 2010). Although wolf social structure may have contributed to the high FST value (0.156) observed between region 6 (n = 55) and region 7 (n = 45), the samples from these regions represent members of multiple packs (Jędrzejewski et al. 2004). Consequently, wolf pack structure alone is not expected to produce such high FST values. The moderate FST values (0.05–0.15) observed between a number of lowland regions require further investigation, as well as the high FST value (0.156) seen between wolves in regions 6 and 7 that are separated by <50 km. Assessment of samples from contiguous regions, landscape features, and additional genetic markers could improve understanding of the extent to which these differences might be explained by landscape fragmentation or ecological differences resulting in natal habitat-biased dispersal (Geffen et al. 2004; Sacks et al. 2004; Pilot et al. 2006).

Factors that could maintain divisions between genetically distinct wolf populations in Poland

MtDNA and microsatellite results consistently showed differentiation between wolves in the Carpathian Mountains and the Polish lowlands. We examined only non-coding fragments of DNA, and future analyses of genes under selection (using e.g. SNP mapping within exons or regulatory sequences of functional genes) could help clarify whether adaptive genetic differences might play a role in the observed structure. Associations between environmental factors (habitat type, climate, prey abundance) and genetic variants might have resulted in the development of wolf ecotypes adapted to different habitats (e.g. Carmichael et al. 2001; Musiani et al. 2007; Muñoz-Fuentes et al. 2009). This is consistent with the findings that (1) ecological factors (habitat, prey, climate) appear to explain much of the spatial variation in wolf genetic diversity in east-central Europe (Pilot et al. 2006), and that (2) wolves from three genetically distinct populations in Poland show significant differences in prey composition and prey preferences (Jedrzejewski et al. 2012). In northeastern Poland, wolves prey on four ungulate species (moose, red and roe deer, wild boar), although only red deer was killed in a higher proportion than that expected from availability. In eastern Poland (regions 4 and 5) wolves preferred roe deer, whereas in the south-east (regions 1–3) they hunted mostly red deer and only a small proportion of roe deer and wild boar occurred in their diet (Jedrzejewski et al. 2012).

The genetic structure of wolves in Poland shows strong and abrupt spatial division, and the primary separation occurs between lowland and Carpathian Mountain wolves. Within the lowlands, both mtDNA and microsatellite results indicate a further division between region 4 (Roztocze) in the southeast and northern Poland. This appears to concur with previous mtDNA and microsatellite results that supported the presence of a subpopulation extending from southeastern Poland and eastward into Russia (Pilot et al. 2006). Interestingly, separation of Carpathian and lowland wolves by a ‘wolf-free belt’ has also been suggested to occur in Ukraine (Gursky 1985). Wolves are highly mobile (mean daily movement distance in Polish wolves: 23 km, max 64 km, Jędrzejewski et al. 2001). Moreover, long-distance dispersers can travel several hundred kilometers (Wabakken et al. 2001, 2007; Schede et al. 2010), so individuals from different populations should be able to meet and interbreed. The observed genetic isolation of Carpathian wolves is thus surprising given the species’ remarkable dispersal ability. Several factors could nevertheless contribute to the observed divisions. First, analyses of habitat structure in and around wolf ranges conducted in southern and northern Poland (Jędrzejewski et al. 2004, 2005a) showed very rapid deterioration of habitat connectivity immediately north of the Carpathians. In contrast, northeastern Poland provides better wolf habitat because the human density and network of transportation infrastructure is lower here than in southern Poland (Jędrzejewski et al. 2004, 2005a). In southern Poland, wolves occurred only in a narrow belt of <100 km, whereas in northern Poland stable wolf populations persist more than 200 km from the continuous wolf range (Jędrzejewski et al. 2004, 2005a).

Huck et al. (2010, 2011) analysed dispersal costs among patches of wolf habitat and modeled dispersal corridors in Poland, and found that dispersal from the Carpathians to any other patch would be much more costly than dispersal among other regions of the country. Densely populated and urbanized areas in southern Poland along the Carpathians may act as a serious barrier to wolf movement and limit wolf dispersal (Huck et al. 2011). Moreover, modeling of suitable wolf habitat showed that the eastern portion of Poland was already ‘filled’ by wolves (Jędrzejewski et al. 2008). Western Poland still has much suitable wolf habitat not occupied at present, which could support a large population of wolves (Jędrzejewski et al. 2008). Hence, dispersers would likely prefer to settle in western Poland than the more saturated east.

The current landscape structure and wolf distribution in Poland are important factors that are likely to limit gene flow between Carpathian and lowland wolves. However, wolves can move through highly heterogeneous and human dominated landscapes (Blanco and Cortes 2007) and cross a range of natural and anthropogenic barriers (Blanco et al. 2005; Wabakken et al. 2007; Ciucci et al. 2009). Other factors might therefore contribute to the observed structure. Natal-habitat biased dispersal seems a possible explanation in the case of Carpathian wolves, and is consistent with findings from Europe and North America (Geffen et al. 2004; Sacks et al. 2004; Pilot et al. 2006). Population genetic structure consistent with the presence of highland and lowland habitats has been reported in coyotes (Sacks et al. 2004, 2005) and merits further attention in wolf populations from the Carpathians Mountains and surrounding lowland areas. Differences in the legal status and protection of the species in the Carpathians might also influence genetic structure, as only wolves in the Polish and Czech parts of the north-western edge of the Carpathian Mountains are protected. In Slovakia and Ukraine, wolves are regularly hunted or persecuted. This probably causes a source-sink effect and thus dispersal southward from the Polish to the Slovakian and Ukrainian parts of the Carpathian Mountains, where dispersers repopulate vacant territories (Nowak et al. 2008).

Recolonization of western Poland and eastern Germany

Our results suggest that wolves colonizing western Poland and eastern Germany primarily originate from northeastern Poland. In particular, it appears that westward dispersal from regions 10 and 11 has been relatively frequent. The location of these sampling regions on the western border of the established wolf range in northeastern Poland, and the relatively contiguous forest habitat in this area (Huck et al. 2011) suggest that regions 10 and 11 represent a natural starting point for westward expansion (Jędrzejewski et al. 2008; Huck et al. 2010, 2011). Wolves in western Poland and eastern Germany appear to represent the expanding western edge of a vast, northeastern European wolf population that primarily inhabits boreal and temperate forests and extends through the Baltic States, northern Belarus, and northwestern Russia (Pilot et al. 2006, 2010).

Importantly, our study detected private alleles in region 12 (western Poland and eastern Germany). Although these alleles might be present in unsampled northeastern Polish wolves, the most likely explanation is immigration from areas not covered by our investigation. East-European countries (Belarus, Latvia) harbour the region’s largest wolf populations, although human harvest is high and potentially unsustainable in some areas (Jędrzejewski et al. 2010), which might affect source-sink dynamics (Jedrzejewski et al. 2005b). Recently documented movements of a radio-collared wolf between Germany and Belarus further support such dispersal (Schede et al. 2010). The apparent recolonization of western Poland and eastern Germany from various source populations should help ensure high levels of genetic variation and subsequent potential for adaptation to new and altered environments.

Notes

Acknowledgments

We thank the General Directorate of the State Forests and the Department of Nature Conservation of the Ministry of Environment for their cooperation during the National Wolf Census. We are grateful to numerous volunteers, students, personnel of Polish State Forests and national parks for their help in collecting wolf scats and to Barbara Marczuk for help with laboratory analyses. German samples were provided by Ilka Reinhard and Gesa Kluth. The study was financed by the Mammal Research Institute, Polish Academy of Sciences, the European Nature Heritage Fund EURONATUR (Germany), and by the grants 2 P04F 019 27 and 2 P06L 006 29 from the Ministry of Science and Higher Education, Poland. AVS was supported by the project Research Potential in Conservation and Sustainable Management of Biodiversity—BIOCONSUS in the 7th Framework Programme (contract no. 245737). CP was supported by a Marie Curie Transfer of Knowledge Fellowship (project BIORESC in the 6th FP, contract no. MTKD-CT-2005-029957). We thank the Danish Natural Science Research Council for financial support to CP (grant numbers: 11-103926, 09-065999, 95095995) and the Carlsberg Foundation (grant number 2011-01-0059). SN and RWM were supported by EURONATUR (Germany), International Fund for Animal Welfare (USA), and Wolves and Humans Foundation (Great Britain). We thank C. Vilà and three anonymous reviewers for their helpful comments on the manuscript.

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© The Author(s) 2013

Open AccessThis article is distributed under the terms of the Creative Commons Attribution License which permits any use, distribution, and reproduction in any medium, provided the original author(s) and the source are credited.

Authors and Affiliations

  • Sylwia D. Czarnomska
    • 1
  • Bogumiła Jędrzejewska
    • 1
  • Tomasz Borowik
    • 1
  • Magdalena Niedziałkowska
    • 1
  • Astrid V. Stronen
    • 1
  • Sabina Nowak
    • 2
  • Robert W. Mysłajek
    • 2
  • Henryk Okarma
    • 9
  • Maciej Konopiński
    • 3
  • Małgorzata Pilot
    • 4
  • Wojciech Śmietana
    • 3
  • Romolo Caniglia
    • 5
  • Elena Fabbri
    • 5
  • Ettore Randi
    • 5
    • 7
  • Cino Pertoldi
    • 6
    • 7
    • 8
  • Włodzimierz Jędrzejewski
    • 1
  1. 1.Mammal Research Institute, Polish Academy of SciencesBiałowieżaPoland
  2. 2.Association for Nature “Wolf”LipowaPoland
  3. 3.Institute for Nature Conservation, Polish Academy of SciencesKrakówPoland
  4. 4.Museum and Institute of Zoology, Polish Academy of SciencesWarszawaPoland
  5. 5.Laboratorio di genetica, ISPRAOzzano Emilia (BO)Italy
  6. 6.Ecology and Genetics, Department of Biological SciencesUniversity of AarhusAarhusDenmark
  7. 7.Department 18/Section of Environmental EngineeringAalborg UniversityAalborgDenmark
  8. 8.Aalborg ZooAalborgDenmark
  9. 9.Institute of Environmental SciencesJagiellonian UniversityKrakówPoland

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