Abstract
One of the major negative effects of roads is the creation of barriers to the movement of wildlife, ultimately disconnecting populations and increasing extinction risk. We collected genetic data from a threatened brown bear population in the central part of the Pindos mountain range in northwestern Greece to provide information about this, as yet genetically undescribed, population and to evaluate its status prior to the construction of a major highway. We used noninvasive genetic sampling methods and microsatellite analysis to investigate nuclear genetic diversity, population genetic structure, demographic history, relatedness within the population and estimated effective and total population size. Brown bears in the study area were found to possess a relatively high level of nuclear genetic diversity and low levels of inbreeding; the population did not show any signs of substructuring but seems to have gone through a genetic bottleneck in the recent past. The estimated effective population size was 29, and the total population size estimate obtained by two different methods was 33 and 51 individuals, respectively. Our results indicate a good conservation status of this bear population and provide baseline genetic data for the future evaluation of the effects on bears from the construction of a major highway, for monitoring the genetic status of this and other bear populations in Greece and for assessing gene flow in bear populations in southern Europe.
Similar content being viewed by others
References
Arandjelovic M, Head J, Kuhl H, Boesch C, Robbins MM, Maisels F, Vigilant L (2010) Effective non-invasive genetic monitoring of multiple wild western gorilla groups. Biol Conserv 143:1780–1791. doi:10.1016/j.biocon.2010.04.030
Balkenhol N, Waits LP (2009) Molecular road ecology: exploring the potential of genetics for investigating transportation impacts on wildlife. Mol Ecol 18:4151–4164. doi:10.1111/j.1365-294X.2009.04322.x
Barnosky AD, Matzke N, Tomiya S, Wogan GOU, Swartz B, Quental TB, Marshall C, McGuire JL, Lindsey EL, Maguire KC, Mersey B, Ferrer EA (2011) Has the Earth’s sixth mass extinction already arrived? Nature 471:51–57. doi:10.1038/nature09678
Beja-Pereira A, Oliveira R, Alves PC, Schwartz MK, Luikart G (2009) Advancing ecological understanding through technological transformations in noninvasive genetics. Mol Ecol Resour 9:1279–1301. doi:10.1111/j.1755-0998.2009.02699.x
Belkhir K, Borsa P, Chikhi L, Raufaste N, Bonhomme F (1996–2004). GENETIX 4.05, logiciel sous Windows TM pour la génétique des populations. Montpellier (France)
Bellemain E, Ali Nawaz M, Valentini A, Swenson JE, Taberlet P (2007) Genetic tracking of the brown bear in northern Pakistan and implications for conservation. Biol Conserv 134:537–547. doi:10.1016/j.biocon.2006.09.004
Botstein D, White RI, Skolnick M, Davis RW (1980) Construction of genetic linkage maps in man using restriction fragment length polymorphism. Am J Hum Genet 32:314–331
Boulanger J, Kendall KC, Stetz JB, Roon DA, Waits LP, Paetkau D (2008) Multiple data sources improve DNA-based mark-recapture population estimates of grizzly bears. Ecol Appl 18:577–589. doi:10.1890/06-1941.1
Brandenburg DM (1996) Effects of roads on behavior and survival of black bears in coastal North Carolina. MSc thesis, University of Tennessee
Brody AJ, Pelton MR (1989) Effects of roads on black bear movements in western North Carolina. Wildl Soc Bull 17:5–10
Buchanan FC, Littlejohn RP, Galloway SM, Crawford AM (1993) Microsatellites and associated repetitive elements in the sheep genome. Mamm Genome 4:258–264. doi:10.1007/BF00417432
Coffin AW (2007) From roadkill to road ecology: a review of the ecological effects of roads. J Trans Geol 15:394–396. doi:10.1016/j.jtrangeo.2006.11.006
Cornuet JM, Luikart GL (1996) Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data. Genetics 144:2001–2014
Creel S, Spong G, Sands JL, Rotella J, Zeigle J, Joe L, Murphy KM, Smith DW (2003) Population size estimation in Yellowstone wolves with error-prone noninvasive microsatellite genotypes. Mol Ecol 12:2003–2009. doi:10.1046/j.1365-294X.2003.01868.x
de Barba M, Waits LP, Genovesi P, Randi E, Chirichella R, Cetto E (2010) Comparing opportunistic and systematic sampling methods for non-invasive genetic monitoring of a small translocated brown bear population. J Appl Ecol 47:172–181
Di Rienzo A, Peterson AC, Garza JC, Valdes AM, Slatkin M, Freimer NB (1994) Mutational processes of simple-sequence repeat loci in human populations. Proc Natl Acad Sci USA 91:3166–3170
Dixon JD, Oli MK, Wooten MC, Eason TH, McCown JW, Paetkau D (2006) Effectiveness of a regional corridor in connecting two Florida black bear populations. Conserv Biol 20:155–162. doi:10.1111/j.1523-1739.2006.00292.x
Dixon JD, Oli M, Wooten M, Eason T, McCown J, Cunningham M (2007) Genetic consequences of habitat fragmentation and loss: the case of the Florida black bear (Ursus americanus floridanus). Conserv Genet 8:455–464. doi:10.1007/s10592-006-9184-z
Eggert L, Eggert J, Woodruff D (2003) Estimating population sizes for elusive animals: the forest elephants of Kakum National Park, Ghana. Mol Ecol 12:1389–1402
Egnatia Odos (2010) The construction of the Egnatia motorway. http://www.egnatia.eu/page/default.asp?la=2&id=3460. Accessed 13/03/2011
Ennis S, Gallagher T (1994) A PCR based sex determination assay in cattle based on bovine Amelogenin locus. Anim Genet 25:425–427. doi:10.1111/j.1365-2052.1994.tb00533.x
Ernest HB, Boyce WM, Penedob MCT, May P, Syvanen M (2000) Molecular tracking of mountain lions in the Yosemite Valley region in California: genetic analysis using microsatellites and faecal DNA. Mol Ecol 9:433–441
Forman RTT, Sperling D, Bissonette JA, Clevenger AP, Cutshall CD, Dale VH, Fahrig L, France R, Goldman CR, Heanue K, Jones JA, Swanson FJ, Turrentine T, Winter TC (2003) Road ecology. Science and solutions. Island Press, Washington
Frankham R, Ballou JD, Briscoe DA (2002) Introduction to conservation genetics. Cambridge Univ. Press, Cambridge
Garza JC, Williamson EG (2001) Detection of reduction in population size using data from microsatellite loci. Mol Ecol 10:305–318. doi:10.1046/j.1365-294X.2001.01190.x
Hale KA, Briskie JV (2007) Decreased immunocompetence in a severely bottlenecked population of an endemic New Zealand bird. Anim Conserv 10:2–10. doi:10.1111/j.1469-1795.2006.00059.x
Hedrick PW, Miller PS (1992) Conservation genetics: techniques and fundamentals. Ecol Appl 2:30–46
Holderegger R, Di Giulio M (2010) The genetic effects of roads: A review of empirical evidence. Basic Appl Ecol 11:522–531. doi:10.1016/j.baae.2010.06.006
Ihaka R, Gentleman R (1996) R: A language for data analysis and graphics. J Comput Graph Stat 5:299–314
Jarne P, Lagoda PJL (1996) Microsatellites, from molecules to populations and back. Trends Ecol Evol 11:429. doi:10.1016/0169-5347(96)10049-5
Johnson JA, Tingay RE, Culver M, Hailer F, Clarke ML, Mindell DP (2009) Long-term survival despite low genetic diversity in the critically endangered Madagascar fish-eagle. Mol Ecol 18:54–63. doi:10.1111/j.1365-294X.2008.04012.x
Kaczensky P, Huber D, Knauer F, Roth H, Wagner A, Kusak J (2006) Activity patterns of brown bears (Ursus arctos) in Slovenia and Croatia. J Zool 269:474–485. doi:10.1111/j.1469-7998.2006.00114.x
Karamanlidis AA (2007) Building highways in Greece the bear-friendly way: the “E65” highway. Int Bear News 16:14
Karamanlidis AA (2008) Development of an innovative method for studying genetic, demographic and behavioural aspects of the brown bear (Ursus arctos). PhD thesis, Aristotle University of Thessaloniki
Karamanlidis AA, Georgiadis L (2009) Brown bear habitat fragmentation in Greece: monitoring effects of the construction of the “E65” highway. Int Bear News 18:16
Karamanlidis AA, Mertzanis G (2003) Paving a new way for brown bears in Greece. Int Bear News 12:8–9
Karamanlidis AA, Youlatos D, Sgardelis S, Scouras Z (2007) Using sign at power poles to document presence of bears in Greece. Ursus 18:54–61
Karamanlidis AA, Krambokoukis L, Kantiros D (2008) Challenges and problems arising from the range expansion of brown bears in Greece. Int Bear News 17:17
Karamanlidis AA, de Barba M, Filacorda S, Georgiadis L, Groff C, Kocijan I, Kruckenhauser L, Rauer G, Sindicic M, Skrbinšek T, Straka M, Jelenčič M, Huber Đ (2010a) Bringing together genetic research on brown bears in the Alps–Dinara–Pindos and Carpathian Mountains. In: 19th International Conference on Bear Research and Management: 79. Tbilisi, Georgia, 79
Karamanlidis AA, Drosopoulou E, de Gabriel HM, Georgiadis L, Krambokoukis L, Pllaha S, Zedrosser A, Scouras Z (2010b) Non-invasive genetic studies of brown bears using power poles. Eur J Wildl Res 56:693–702. doi:10.1007/s10344-010-0363-3
Karanth KU, Chellam R (2009) Carnivore conservation at the crossroads. Oryx 43:1–2. doi:10.1017/S003060530843106X
Kasworm WF, Manley TL (1990) Road and trail influences on grizzly bears and black bears in northwest Montana. Int Conf Bear Res Manag 8:79–84
Kocijan I, Galov A, Cetkovic H, Kusak J, Gomercic T, Huber Ð (2011) Genetic diversity of Dinaric brown bears (Ursus arctos) in Croatia with implications for bear conservation in Europe. Mamm Biol 76:615–621. doi:10.1016/j.mambio.2010.12.003
Kohn MH, York EC, Kamradt DA, Haught G, Sauvajot RM, Wayne RK (1999) Estimating population size by genotyping faces. Proc R Soc Lond B 266:657–663
Lacy RC (1997) Importance of genetic variation to the viability of mammalian populations. J Mamm 78:320–335
Linnell JDC, Swenson JE, Andersen R (2001) Predators and people: conservation of large carnivores is possible at high human densities if management policy is favourable. Anim Conserv 4:345–349. doi:10.1017/S1367943001001408
Liu K, Muse SV (2005) PowerMarker: integrated analysis environment for genetic marker data. Bioinformatics 21:2128–2129. doi:10.1093/bioinformatics/bti282
Lorenzini R, Posillico M, Lovari S, Petrella A (2004) Non-invasive genotyping of the endangered Apennine brown bear: a case study not to let one’s hair down. Anim Conserv 7:199–209. doi:10.1017/S1367943004001301
Luikart GL, Allendorf FW, Cornuet JM, Sherwin WB (1998) Distortion of allele frequency distribution provides a test for recent population bottlenecks. J Hered 89:238–247. doi:10.1093/jhered/89.3.238
Lynch M, Ritland K (1999) Estimation of pairwise relatedness with molecular markers. Genetics 152:1753–1766
Matocq MD, Villablanca FX (2001) Low genetic diversity in an endangered species: recent or historic pattern? Biol Conserv 98:61–68. doi:10.1016/S0006-3207(00)00142-7
Maudet C, Miller C, Bassano B, Breitenmoser Wursten C, Gauthier D, Obexer-Ruff G, Michallet J, Taberlet P, Luikart G (2002) Microsatellite DNA and recent statistical methods in wildlife conservation management: applications in Alpine ibex [Capra ibex (ibex)]. Mol Ecol 11:421–436. doi:10.1046/j.0962-1083.2001.01451.x
McCown JW, Kubilis P, Eason TH, Scheick BK (2009) Effect of traffic volume on American black bears in central Florida, USA. Ursus 20:39–46. doi:10.2192/08GR004R2.1
Mertzanis G (1994) Brown bear in Greece: distribution, present status—ecology of a northern Pindus subpopulation. Int Conf Bear Res Manag 9:187–197
Mertzanis Y, Isaak I, Mavridis A, Nikolaou O, Tragos A (2005) Movements, activity patterns and home range of a female brown bear (Ursus arctos, L.) in the Rodopi Mountain Range, Greece. Belg J Zool 135:217–221
Mertzanis G, Giannakopoulos A, Pylidis C (2009) Ursus arctos (Linnaeus, 1758). In: Legakis A (ed) Red data book of the threatened animal species of Greece. Maragou P. Athens, Hellenic Zoological Society, pp 387–389
Miller CR, Joyce P, Waits LP (2005) A new method for estimating the size of small populations from genetic mark-recapture data. Mol Ecol 14:1991–2005. doi:10.1111/j.1365-294X.2005.02577.x
Mills LS, Allendorf FW (1996) The one-migrant-per-generation rule in conservation and management. Conserv Biol 10:1509–1518. doi:10.1046/j.1523-1739.1996.10061509.x
Mowat G, Strobeck C (2000) Estimating population size of grizzly bears using hair capture, DNA profiling, and mark–recapture analysis. J Wildl Manag 64:183–193
Nei M (1978) Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89:583–590
Newman D, Pilson D (1997) Increased probability of extinction due to decreased genetic effective size: experimental populations of Clarkia pulchella. Evolution 51:354–362
Paetkau D (2003) An empirical exploration of data quality in DNA-based population inventories. Mol Ecol 12:1375–1387. doi:10.1046/j.1365-294X.2003.01820.x
Paetkau D, Strobeck C (1994) Microsatellite analysis of genetic variation in black bear populations. Mol Ecol 3:489–495. doi:10.1111/j.1365-294X.1994.tb00127.x
Paetkau D, Calvert W, Stirling I, Strobeck C (1995) Microsatellite analysis of population structure in Canadian polar bears. Mol Ecol 4:347–354. doi:10.1111/j.1365-294X.1995.tb00227.x
Paetkau D, Shields GF, Strobeck C (1998) Gene flow between insular, coastal and interior populations of brown bears in Alaska. Mol Ecol 7:1283–1292. doi:10.1046/j.1365-294x.1998.00440.x
Paetkau D, Slade R, Burden M, Estoup A (2004) Genetic assignment methods for the direct, real-time estimation of migration rate: a simulation-based exploration of accuracy and power. Mol Ecol 13:55–65. doi:10.1046/j.1365-294X.2004.02008.x
Peakall R, Smouse PE (2006) GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research. Mol Ecol 6:288–295. doi:10.1111/j.1471-8286.2005.01155.x
Pérez T, Vazquez F, Naves J, Fernandez A, Corao A, Albornoz J, Dominguez A (2009) Non-invasive genetic study of the endangered Cantabrian brown bear (Ursus arctos). Conserv Genet 10:291–301. doi:10.1007/s10592-008-9578-1
Pimm SL, Russell GJ, Gittleman JL, Brooks TM (1995) The future of biodiversity. Science 269:347–350. doi:10.1126/science.269.5222.347
Piry S, Luikart GL, Cornuet J-M (1999) BOTTLENECK: a computer program for detecting recent reductions in the effective size using allele frequency data. J Hered 90:502–503. doi:10.1093/jhered/90.4.502
Piry S, Alapetite A, Cornuet J-M, Paetkau D, Baudouin L, Estoup A (2004) GENECLASS2: a software for genetic assignment and first-generation migrant detection. J Hered 95:536–539. doi:10.1093/jhered/esh074
Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure multilocus genotype data. Genetics 155:945–959
Proctor MF, McLellan BN, Strobeck C (2002) Population fragmentation of grizzly bears in southeastern British Columbia, Canada. Ursus 13:153–160
Proctor MF, McLellan BN, Strobeck C, Barclay RMR (2005) Genetic analysis reveals demographic fragmentation of grizzly bears yielding vulnerably small populations. Proc R Soc B 272:2409–2416. doi:10.1098/rspb.2005.3246
Prugh LR, Ritland CE (2005) Molecular testing of observer identification of carnivore feces in the field. Wildl Soc Bull 33:189–194. doi:10.2193/0091-7648(2005)33[189:MTOOIO]2.0.CO;2
Queller DC, Goodnight KF (1989) Estimating relatedness using molecular markers. Evolution 43:258–275
Raymond M, Rousset F (1995) GENEPOP (version 1.2); population genetics software for exact tests and ecumenicism. J Hered 86:248–249
Reed DH, Nicholas AC, Stratton GE (2007) Genetic quality of individuals impacts population dynamics. Anim Conserv 10:275–283. doi:10.1111/j.1469-1795.2007.00120.x
Rice WR (1989) Analyzing tables of statistical tests. Evolution 43:223–225
Roon DA, Waits LP, Kendall KC (2003) A quantitative evaluation of two methods for preserving hair samples. Mol Ecol Notes 3:163–166. doi:10.1111/j.1469-1795.2007.00120.x
Shepard DB, Kuhns AR, Dreslik MJ, Philips CA (2007) Roads as barriers to animal movement in fragmented landscapes. Anim Conserv 11:288–296. doi:10.1111/j.1469-1795.2008.00183.x
Simmons JM, Sunnucks P, Taylor AC, van der Ree R (2010) Beyond roadkill, radiotracking, recapture and FST—a review of some genetic methods to improve understanding of the influence of roads on wildlife. Ecol Soc 15:9
Sokal RR, Rohlf FJ (1994) Biometry: the principles and practice of statistics in biological research. W.H. Freeman, New York
Straka M, Paule L, Ionescu O, Štofík J, Adamec M (2011) Microsatellite diversity and structure of Carpathian brown bears (Ursus arctos): consequences of human caused fragmentation. Conserv Genet. doi:10.1007/s10592-011-0271-4
Swenson JE, Taberlet P, Bellemain E (2011) Genetics and conservation of European brown bears Ursus arctos. Mamm Rev. doi:10.1111/j.1365-2907.2010.00179.x
Taberlet P, Camarra J-J, Griffin S, Uhres E, Hanotte O, Waits LP, Dubois-Paganon C, Burke T, Bouvet J (1997) Noninvasive genetic tracking of the endangered Pyrenean brown bear population. Mol Ecol 6:869–876. doi:10.1046/j.1365-294X.1997.00251.x
Tallmon DA, Bellemain E, Swenson JE, Taberlet P (2004) Genetic monitoring of Scandinavian brown bear effective population size and immigration. J Wildl Manag 68:960–965. doi:10.2193/0022-541X(2004)068[0960:GMOSBB]2.0.CO;2
Tallmon DA, Koyuk A, Luikart G, Beaumont MA (2008) ONeSAMP: a program to estimate effective population size using approximate Bayesian computation. Mol Ecol Resour 8:299–301. doi:10.1111/j.1471-8286.2007.01997.x
Valiere N (2002) GIMLET: a computer program for analysing genetic individual identification data. Mol Ecol Notes 2:377–379. doi:10.1046/j.1471-8286.2002.00228.x-i2
van Oosterhout C, Hutchinson WF, Wills DPM, Shimley P (2004) MICRO-CHECKER: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes 4:535–538. doi:10.1111/j.1471-8286.2004.00684.x
Waits LP, Luikart G, Taberlet P (2001) Estimating the probability of identity among genotypes in natural populations: cautions and guidelines. Mol Ecol 10:249–256
Waller JS, Servheen C (2005) Effects of transportation infrastructure on grizzly bears in northwestern Montana. J Wildl Manag 69:985–1000. doi:10.2193/0022-541X(2005)069[0985:EOTIOG]2.0.CO;2
Wandeler P, Hoeck PEA, Keller LF (2007) Back to the future: museum specimens in population genetics. Trends Ecol Evol 22:634–642. doi:10.1016/j.tree.2007.08.017
Wang J (2002) An estimator for pairwise relatedness using molecular markers. Genetics 160:1203–1215
Wang J (2011) COANCESTRY: a program for simulating, estimating and analysing relatedness and inbreeding coefficients. Mol Ecol Resour 11:141–145. doi:10.1111/j.1755-0998.2010.02885.x
Whiteman NK, Matson KD, Bollmer JL, Parker PG (2006) Disease ecology in the Galapagos hawk (Buteo galapagoensis): host genetic diversity, parasite load and natural antibodies. Proc R Soc Lond B 273:797–804. doi:10.1098/rspb.2005.3396
Williamson-Natesan EG (2005) Comparison of methods for detecting bottlenecks from microsatellite loci. Conserv Genet 6:551–562. doi:10.1007/s10592-005-9009-5
Wooding JB, Maddrey RC (1994) Impacts of roads on black bears. East Black Bear Workshop 12:124–129
Woods JG, Paetkau D, Lewis D, McLellan BN, Proctor M, Strobeck C (1999) Genetic tagging of free-ranging black and brown bears. Wildl Soc Bull 27:616–627
Zedrosser A, Dahle B, Swenson JE, Gerstl N (2001) Status and management of the brown bear in Europe. Ursus 12:9–20
Acknowledgments
We would like to thank G. Mertzanis and the field team of ARCTUROS for their assistance in the field in collecting the samples and the Hellenic Ministry of Rural Development and Food for providing the necessary research permits; all research activities carried out comply with the current laws of the Hellenic Republic. A big part of the genetic analyses was carried out at the labs of Wildlife Genetics International. We thank Renee Prive and David Paetkau for their outstanding work and cooperation and Kate Kendall for guidance in setting up the project. The first 2 years of the study (2003–2004) were carried out within the framework of the “Monitoring project on the evaluation of the impact of the construction of the Egnatia highway (stretch 4.1) on large mammals in the area of Grevena,” co-funded by Egnatia Odos, the Hellenic Ministry of Environment, Planning & Public Works, and the E.U. (DG Regio); the final year of the study (2005) was funded by the NGO ARCTUROS.
Author Contributions
AAK, ED, and ZS conceived and designed the experiments, AAK and MGH collected the field data, AAK and MS performed the experiments, AAK, IK, and MS analyzed the data and MS, LP, ED and ZS contributed reagents/materials/analysis tools. AAK, IK, LP, MS, ED and ZS wrote the paper.
Author information
Authors and Affiliations
Corresponding author
Additional information
Communicated by C. Gortázar
Rights and permissions
About this article
Cite this article
Karamanlidis, A.A., Straka, M., Drosopoulou, E. et al. Genetic diversity, structure, and size of an endangered brown bear population threatened by highway construction in the Pindos Mountains, Greece. Eur J Wildl Res 58, 511–522 (2012). https://doi.org/10.1007/s10344-011-0598-7
Received:
Revised:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s10344-011-0598-7