Spatial heterogeneity in genetic relatedness among house sparrows along an urban–rural gradient as revealed by individual-based analysis

Molecular Ecology

Volumn 20, Issue 22, 2011, Pages 4643-4653

  Vangestel, Carl ^a   Mergeay, Joachim ^b   Dawson, Deborah A ^c   Vandomme, Viki ^a   Lens, Luc ^a  

^a GHENT UNIVERSITY   (Belgium)

^b RESEARCH INSTITUTE FOR NATURE AND FOREST INBO   (Belgium)

^c UNIVERSITY OF SHEFFIELD   (United Kingdom)

Author keywords

Fine scale genetic structure; Kinship; Passer domesticus; Urbanization

Indexed keywords

MICROSATELLITE DNA;

ANIMAL; ARTICLE; BELGIUM; BIOLOGICAL MODEL; DNA SEQUENCE; ENVIRONMENT; GENETIC DRIFT; GENETICS; GENOTYPE; GEOGRAPHY; POPULATION GENETICS; SPARROW;

ANIMALS; BELGIUM; ENVIRONMENT; GENETIC DRIFT; GENETICS, POPULATION; GENOTYPE; GEOGRAPHY; MICROSATELLITE REPEATS; MODELS, GENETIC; SEQUENCE ANALYSIS, DNA; SPARROWS;

EID: 80054114867     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/j.1365-294X.2011.05316.x     Document Type: Article

References (69)

1. Anderson TR (2006) Biology of the Ubiquitous House Sparrow. Oxford Univ. Press, Oxford.
2. Bell CP, Baker SW, Parkes NG, Brooke MD, Chamberlain DE (2010) The role of the Eurasian sparrowhawk (Accipiter nisus) in the decline of the house sparrow (Passer domesticus) in Britain. Auk, 127, 411-420.
3. Blouin MS (2003) DNA-based methods for pedigree reconstruction and kinship analysis in natural populations. Trends in Ecology and Evolution, 18, 503-511.
4. Blumstein DT, Daniel JC (2005) The loss of anti-predator behaviour following isolation on islands. Proceedings of the Royal Society of London, 272, 1663-1668.
5. Chace JF, Walsh JJ (2006) Urban effects on native avifauna: a review. Landscape and Urban Planning, 74, 46-69.
6. Chamberlain DE, Toms MP, Cleary-McHarg R, Banks AN (2007) House sparrow (Passer domesticus) habitat use in urbanized landscapes. Journal of Ornithology, 148, 453-462.
7. Chiron F, Julliard R (2007) Responses of songbirds to magpie reduction in an urban habitat. Journal of Wildlife Management, 71, 2624-2631.
8. Danchin E, Giraldeau L-A, Cézilly F (2008) Behavioural Ecology. Oxford University Press, Oxford.
9. Dawson DA, Horsburgh GJ, Kupper C et al. (2010) New methods to identify conserved microsatellite loci and develop primer sets of high cross-species utility—as demonstrated for birds. Molecular Ecology Resources, 10, 475-494.
10. De Laet J, Summers-Smith JD (2007) The status of the urban House Sparrow Passer domesticus in North-Western Europe: a review. Journal of Ornithology, 148, S275-S278.
11. Dingemanse NJ, Both C, van Noordwijk AJ, Rutten AL, Drent PJ (2003) Natal dispersal and personalities in great tits (Parus major). Proceedings of the Royal Society of London, 270, 741-747.
12. Griffith SC, Stewart IRK, Dawson DA, Owens IPF, Burke T (1999) Contrasting levels of extra-pair paternity in mainland and island populations of the house sparrow (Passer domesticus): is there an ‘island effect’? Biological Journal of the Linnean Society, 68, 303-316.
13. Griffith SC, Dawson DA, Jensen H et al. (2007) Fourteen polymorphic microsatellite loci characterized in the house sparrow Passer domesticus (Passeridae, Aves). Molecular Ecology Notes, 7, 333-336.
14. Heij CJ (1985) Comparative ecology of the house sparrow Passer domesticus in rural, suburban and urban situations. PhD Thesis, Vrije Universiteit Amsterdam, Netherlands.
15. Heij CJ, Moeliker CW (1990) Population dynamics of dutch House Sparrows in urban, suburban and rural habitats. In: Granivorous Birds in the Agricultural Landscape (eds Pinowski J, Summers-Smith JD), pp. 59-85. Polish Scientific Publishers, Warszawa.
16. Hole DG, Whittingham MJ, Bradbury RB et al. (2002) Widespread local house sparrow extinctions—agricultural intensification is blamed for the plummeting populations of these birds. Nature, 418, 931-932.
17. Johnson JB, Peat SM, Adams BJ (2009) Where’s the ecology in molecular ecology? Oikos, 118, 1601-1609.
18. Kekkonen J, Seppa P, Hanski I et al. (2010) Low genetic differentiation in a sedentary bird: house sparrow population genetics in a contiguous landscape. Heredity, 106, 183-190.
19. Keller LF, Waller DM (2002) Inbreeding effects in wild populations. Trends in Ecology and Evolution, 17, 230-241.
20. Lendvai AZ, Giraudeau M, Chastel O (2007) Reproduction and modulation of the stress response: an experimental test in the house sparrow. Proceedings of the Royal Society B-Biological Sciences, 274, 391-397.
21. Li CC, Weeks DE, Chakravarti A (1993) Similarity of DNA fingerprints due to chance and relatedness. Human Heredity, 43, 45-52.
22. Liker A, Bokony V, Kulcsar A et al. (2009) Genetic relatedness in wintering groups of house sparrows (Passer domesticus). Molecular Ecology, 18, 4696-4706.
23. Lowe WH, Allendorf FW (2010) What can genetics tell us about population connectivity? Molecular Ecology, 19, 3038-3051.
24. Luikart G, Cornuet J-M (1998) Empirical evaluation of a test for identifying recently bottlenecked populations from allele frequency data. Conservation Biology, 12, 228-237.
25. Lunn DJ, Thomas A, Best N, Spiegelhalter D (2000) WinBUGS—a Bayesian modelling framework: concepts, structure, and extensibility. Statistics and Computing, 10, 325-337.
26. Lynch M, Ritland K (1999) Estimation of pairwise relatedness with molecular markers. Genetics, 152, 1753-1766.
27. Lynch M, Walsh B (1998) Genetics and Analysis of Quantitative Traits. Sinauer Associates, Sunderland, Massachusetts.
28. Marzluff JM, Bowman R, Donnelly R (2001) Avian Ecology and Conservation in an Urbanizing World. Kluwer Academic Publishers, Norwell, Massachusetts.
29. Massot M, Clobert J (2000) Processes at the origin of similarities in dispersal behaviour among siblings. Journal of Evolutionary Biology, 13, 707-719.
30. Matthysen E, Van de Casteele T, Adriaensen F (2005) Do sibling tits (Parus major, P. caeruleus) disperse over similar distances and in similar directions? Oecologia, 143, 301-307.
31. Matthysen E, Van Overveld T, Van de Casteele T, Adriaensen F (2010) Family movements before independence influence natal dispersal in a territorial songbird. Oecologia, 162, 591-597.
32. Milligan BG (2003) Maximum-likelihood estimation of relatedness. Genetics, 163, 1153-1167.
33. Nakagawa S, Ockendon N, Gillespie DOS, Hatchwell BJ, Burke T (2007) Assessing the function of house sparrows’ bib size using a flexible meta-analysis method. Behavioral Ecology, 18, 831-840.
34. Neumann K, Wetton JH (1996) Highly polymorphic microsatellites in the house sparrow Passer domesticus. Molecular Ecology, 5, 307-309.
35. Peach WJ, Vincent KE, Fowler JA, Grice PV (2008) Reproductive success of house sparrows along an urban gradient. Animal Conservation, 11, 493-503.
36. Peacock MM (1997) Determining natal dispersal patterns in a population of North American pikas (Ochotona princeps) using direct mark-resight and indirect genetic methods. Behavioral Ecology, 8, 340-350.
37. Peakall R, Smouse PE (2006) Genalex 6: genetic analysis in excel. Population genetic software for teaching and research. Molecular Ecology Notes, 6, 288-295.
38. Peakall R, Ruibal M, Lindenmayer DB (2003) Spatial autocorrelation analysis offers new insights into gene flow in the Australian bush rat, Rattus fuscipes. Evolution, 57, 1182-1195.
39. Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics, 155, 945-959.
40. Queller DC, Goodnight KF (1989) Estimating relatedness using genetic markers. Evolution, 43, 258-275.
41. Raymond M, Rousset F (1995) Genepop (version-1.2)—population-genetics software for exact tests and ecumenicism. Journal of Heredity, 86, 248-249.
42. Ritland K (1996) A marker-based method for inferences about quantitative inheritance in natural populations. Evolution, 50, 1062-1073.
43. Rodewald AD, Shustack DP (2008) Urban flight: understanding individual and population-level responses of Nearctic-Neotropical migratory birds to urbanization. Journal of Animal Ecology, 77, 83-91.
44. Rodewald AD, Kearns LJ, Shustack DP (2011) Anthropogenic resource subsidies decouple predator-prey relationships. Ecological Application, 21, 936-943.
45. Rousset F (2008) Genepop ‘007: a complete re-implementation of the Genepop software for Windows and Linux. Molecular Ecology Resources, 8, 103-106.
46. Ruzzante DE, Hansen MM, Meldrup D (2001) Distribution of individual inbreeding coefficients, relatedness and influence of stocking on native anadromous brown trout (Salmo trutta) population structure. Molecular Ecology, 10, 2107-2128.
47. Shaw LM, Chamberlain D, Evans M (2008) The House Sparrow Passer domesticus in urban areas: reviewing a possible link between post-decline distribution and human socioeconomic status. Journal of Ornithology, 149, 293-299.
48. Shochat E, Warren PS, Faeth SH, McIntyre NE, Hope D (2006) From patterns to emerging processes in mechanistic urban ecology. Trends in Ecology & Evolution, 21, 186-191.
49. Smouse PE, Peakall R (1999) Spatial autocorrelation analysis of individual multiallele and multilocus genetic structure. Heredity, 82, 561-573.
50. Spong G, Creel S (2001) Deriving dispersal distances from genetic data. Proceedings of the Royal Society of London Series B-Biological Sciences, 268, 2571-2574.
51. Steadman DW (2006) Extinction and Biogeography of Tropical Pacific Birds. University of Chicago Press, Chicago, Illinois.
52. Sweigart A, Karoly K, Jones A, Willis JH (1999) The distribution of individual inbreeding coefficients and pairwise relatedness in a population of Mimulus guttatus. Heredity, 83, 625-632.
53. Tóth Z, Bokony V, Lendvai AZ et al. (2009) Effects of relatedness on social-foraging tactic use in house sparrows. Animal Behaviour, 77, 337-342.
54. Vallone PM, Butler JM (2004) Autodimer: a screening tool for primer-dimer and hairpin structures. BioTechniques, 37, 226-231.
55. Van de Casteele T, Matthysen E (2006) Natal dispersal and parental escorting predict relatedness between mates in a passerine bird. Molecular Ecology, 15, 2557-2565.
56. Van de Casteele T, Calbusera P, Matthysen E (2001) A comparison of microsatellite-based pairwise relatedness estimators. Molecular Ecology, 10, 1539-1549.
57. Van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P (2004) Micro-checker: software for identifying and correcting genotyping errors in microsatellite data. Molecular Ecology Notes, 4, 535-538.
58. Vangestel C, Braeckman BP, Matheve H, Lens L (2010) Constraints on home range behaviour affect nutritional condition in urban house sparrows (Passer domesticus). Biological Journal of the Linnean Society, 101, 41-50.
59. Vangestel C, Mergeay J, Dawson DA, Vandomme V, Lens L (2011) Developmental stability covaries with genome-wide and single-locus heterozygosity in house sparrows. PLoS ONE, 6, e21569.
60. Vekemans X, Hardy OJ (2004) New insights from fine-scale spatial genetic structure analyses in plant populations. Molecular Ecology, 13, 921-935.
61. Vincent K (2005) Investigating the causes of the decline of the urban house sparrow Passer domesticus population in Britain. PhD Thesis, De Montfort University, UK.
62. Walsh PS, Metzger DA, Higuchi R (1991) Chelex-100 as a medium for simple extraction of dna for pcr-based typing from forensic material. BioTechniques, 10, 506-513.
63. Wang J (2002) An estimator for pairwise relatedness using molecular markers. Genetics, 160, 1203-1215.
64. Wang J (2011) COANCESTRY: a program for simulating, estimating and analysing relatedness and inbreeding coefficients. Molecular Ecology Resources, 11, 141-145.
65. Weidinger K (2009) Nest predators of woodland open-nesting songbirds in central Europe. Ibis, 151, 352-360.
66. Weir B (1990) Genetic Data Analysis: Methods for Discrete Population Genetic Data. Sinauer Associates, Sunderland, Massachusetts.
67. Weir BS, Anderson AD, Hepler AB (2006) Genetic relatedness analysis: modern data and new challenges. Nature Review Genetics, 7, 771-780.
68. Whitlock MC, McCauley DE (1999) Indirect measures of gene flow and migration: Fst „ 1 ⁄ (4 Nm + 1). Heredity, 82, 117-125.
69. Zamudio KR, Wieczorek AM (2007) Fine-scale spatial genetic structure and dispersal among spotted salamander (Ambystoma maculatum) breeding populations. Molecular Ecology, 16, 257-274.