MHC class II diversity of koala (Phascolarctos cinereus) populations across their range

Heredity

Volumn 113, Issue 4, 2014, Pages 287-296

  Lau, Q ^a   Jaratlerdsiri, W ^a   Griffith, J E ^a   Gongora, J ^a   Higgins, D P ^a  

^a UNIVERSITY OF SYDNEY   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

PHASCOLARCTIDAE; PHASCOLARCTOS CINEREUS;

HLA D ANTIGEN;

AMINO ACID SEQUENCE; ANIMAL; AUSTRALIA; CHEMISTRY; CLASSIFICATION; FEMALE; GENE; GENETIC DRIFT; GENETIC VARIABILITY; GENETICS; KOALA; MALE; MOLECULAR GENETICS; PHYLOGENY; POPULATION GENETICS; SEQUENCE ALIGNMENT;

AMINO ACID SEQUENCE; ANIMALS; AUSTRALIA; FEMALE; GENES, MHC CLASS II; GENETIC DRIFT; GENETIC VARIATION; GENETICS, POPULATION; HLA-D ANTIGENS; MALE; MOLECULAR SEQUENCE DATA; PHASCOLARCTIDAE; PHYLOGENY; SEQUENCE ALIGNMENT;

EID: 84927176832     PISSN: 0018067X     EISSN: 13652540     Source Type: Journal    
DOI: 10.1038/hdy.2014.30     Document Type: Article

References (58)

1. Agudo R, Alcaide M, Rico C, Lemus JA, Blanco G, Hiraldo F et al. (2011). Major histocompatibility complex variation in insular populations of the Egyptian vulture: inferences about the roles of genetic drift and selection. Mol Ecol 20: 2329-2340.
2. Balakrishnan K, Adams LE (1995). The role of the lymphocyte in an immune response. Immunol Investig 24: 233-244.
3. Bernatchez L, Landry C (2003). MHC studies in nonmodel vertebrates: what have we learned about natural selection in 15 years? J Evol Biol 16: 363-377.
4. Brown JH, Jardetzky TS, Gorga JC, Stern LJ, Urban RG, Strominger JL et al. (1993). Three-dimensional structure of the human class II histocompatibility antigen HLA-DR1. Nature 364: 33-39.
5. Cockram FA, Jackson AR (1974). Letter: isolation of a Chlamydia from cases of keratoconjunctivitis in koalas. Aust Vet J 50: 82-83.
6. Cristescu R, Cahill V, Sherwin WB, Handasyde K, Carlyon K, Whisson D et al. (2009). Inbreeding and testicular abnormalities in a bottlenecked population of koalas (Phascolarctos cinereus). Wildl Res 36: 299-308.
7. Daszak P, Cunningham AA, Hyatt AD (2000). Emerging infectious diseases of wildlife-threats to biodiversity and human health. Science 287: 443-449.
8. Doeschl-Wilson AB, Davidson R, Conington J, Roughsedge T, Hutchings MR, Villanueva B (2011). Implications of host genetic variation on the risk and prevalence of infectious diseases transmitted through the environment. Genetics 188: 683-693.
9. Doherty PC, Zinkernagel RM (1975). A biological role for the major histocompatibility antigens. Lancet 1: 1406-1409.
10. DSE (2004). Victoria's Koala Management Strategy. Victorian Government Department of Sustainability and Environment. pp 12-13.
11. Earl D, vonHoldt B (2012). STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method. Conservation Genet Resour 4: 359-361.
12. Ekblom R, Saether SA, Jacobsson P, Fiske P, Sahlman T, Grahn M et al. (2007). Spatial pattern of MHC class II variation in the great snipe (Gallinago media). Mol Ecol 16: 1439-1451.
13. Evanno G, Regnaut S, Goudet J (2005). Detecting the number of clusters of individuals using the software structure: a simulation study. Mol Ecol 14: 2611-2620.
14. Excoffier L, Lischer HE (2010). Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour 10: 564-567.
15. Falush D, Stephens M, Pritchard JK (2007). Inference of population structure using multilocus genotype data: dominant markers and null alleles. Mol Ecol Notes 7: 574-578.
16. Gordon G, Hrdina F, Patterson R (2006). Decline in the distribution of the koala Phascolarctos cinereus in Queensland. Aust Zool 33: 345-354.
17. Griffith JE, Dhand NK, Krockenberger MB, Higgins DP (2013). A retrospective study of admission trends of koalas to a rehabilitation facility over thirty years. J Wildl Dis 49: 18-28.
18. Gubler DJ, Reiter P, Ebi KL, Yap W, Nasci R, Patz JA (2001). Climate variability and change in the United States: potential impacts on vector-and rodent-borne diseases. Environ Health Perspect 109: 223-233.
19. Houlden BA, England PR, Taylor AC, Greville WD, Sherwin WB (1996). Low genetic variability of the koala Phascolarctos cinereus in south-eastern Australia following a severe population bottleneck. Mol Ecol 5: 269-281.
20. Huelsenbeck JP, Ronquist F (2001). MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754-755.
21. Jackson M, White N, Giffard P, Timms P (1999). Epizootiology of Chlamydia infections in two free-range koala populations. Vet Microbiol 65: 255-264.
22. Jaratlerdsiri W, Isberg SR, Higgins DP, Gongora J (2012). MHC class I of saltwater crocodiles (Crocodylus porosus): polymorphism and balancing selection. Immunoge-netics 64: 825-838.
23. Jobbins SE, Sanderson CE, Griffith JE, Krockenberger MB, Belov K, Higgins DP (2012). Diversity of MHC class II DAB1 in the koala (Phascolarctos cinereus). Aust J Zool 60: 1-9.
24. Keane T, Creevey C, Pentony M, Naughton T, Mclnerney J (2006). Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified. BMC Evol Biol 6: 29.
25. Krockenberger A (2003). Meeting the energy demands of reproduction in female koalas, Phascolarctos cinereus: evidence for energetic compensation. J Comp Physiol B Biochem Syst Environ Physiol 173: 531-540.
26. Lau Q, Jobbins SE, Belov K, Higgins DP (2013). Characterisation of four major histocompatibility complex class II genes of the koala (Phascolarctos cinereus). Immunogenetics 65: 37-46.
27. Lee KE, Ellis WAH, Carrick FN, Corley SW, Johnston SD, Baverstock PR et al. (2012). Anthropogenic changes to the landscape resulted in colonization of koalas in north-east New South Wales, Australia. Austral Ecol 38: 355-363.
28. Lee KE, Seddon JM, Corley SW, Ellis WAH, Johnston SD, de Villiers D et al. (2009). Genetic variation and structuring in the threatened koala populations of Southeast Queensland. Conserv Genet 11: 2091-2103.
29. Lee T, Zenger KR, Close RL, Jones M, Phalen DN (2010). Defining spatial genetic structure and management units for vulnerable koala (Phascolarctos cinereus) populations in the Sydney region, Australia. Wildl Res 37: 156-165.
30. Lee T, Zenger KR, Close RL, Phalen DN (2011). Genetic analysis reveals a distinct and highly diverse koala (Phascolarctos cinereus) population in South Gippsland, Victoria, Australia. Aust Mammal 34: 68-74.
31. Lunney D, Crowther MS, Shannon I, Bryant JV (2009). Combining a map-based public survey with an estimation of site occupancy to determine the recent and changing distribution of the koala in New South Wales. Wildl Res 36: 262-273.
32. Martin LB, Weil ZM, Nelson RJ (2006). Refining approaches and diversifying directions in ecoimmunology. Integr Comp Biol 46: 1030-1039.
33. Martin R, Handasyde KA (1999). The Koala: Natural History, Conservation and Management, 2nd edn. University of New South Wales Press Ltd: Sydney.
34. Mason R, Browning T, Eldridge M (2011). Reduced MHC class II diversity in island compared to mainland populations of the black-footed rock-wallaby (Petrogale lateralis lateralis). Conserv Genet 12: 91-103.
35. Masters P, Duka T, Berris S, Moss G (2004). Koalas on Kangaroo Island: from introduction to pest status in less than a century. Wildl Res 31: 267-272.
36. McAlpine CA, Rhodes JR, Callaghan JG, Bowen ME, Lunney D, Mitchell DL et al. (2006). The importance of forest area and configuration relative to local habitat factors for conserving forest mammals: a case study of koalas in Queensland, Australia. Biol Conserv 132: 153-165.
37. McLean N (2003). Ecology and Management of Overabundant Koala (Phascolarctos Cinereus) Populations. PhD thesis University of Melbourne: Melbourne.
38. Melzer A, Carrick F, Menkhorst P, Lunney D, John BS (2000). Overview, critical assessment, and conservation implications of koala distribution and abundance. Conserv Biol 14: 619-628.
39. Menkhorst P (2008). Hunted, marooned, re-introduced, contracepted: a history of Koala management in Victoria. In: Lunney D, Munn A, Meikle W (eds) Too Close for Comfort: Contentious Issues in Human-Wildlife Encounters. Royal Zoological Society of New South Wales: Sydney, pp 73-92.
40. Meyer-Lucht Y, Otten C, Püttker T, Pardini R, Metzger J, Sommer S (2010). Variety matters: adaptive genetic diversity and parasite load in two mouse opossums from the Brazilian Atlantic forest. Conserv Genet 11: 2001-2013.
41. Miller HC, Allendorf F, Daugherty CH (2010). Genetic diversity and differentiation at MHC genes in island populations of tuatara (Sphenodon spp.). Mol Ecol 19: 3894-3908.
42. Miller HC, Lambert DM (2004). Genetic drift outweighs balancing selection in shaping post-bottleneck major histocompatibility complex variation in New Zealand robins (Petroicidae). Mol Ecol 13: 3709-3721.
43. Nye ER (2007). Global warming and possums: contributors in the future to new mosquito-borne human diseases in New Zealand? New Zea Med J 120: U2839.
44. O'Brien SJ, Evermann JF (1988). Interactive influence of infectious disease and genetic diversity in natural populations. Trends Ecol Evol 3: 254-259.
45. Obendorf DL (1981). Pathology of the female reproductive tract in the koala, Phascolarctos cinereus (Goldfuss), from Victoria, Australia. J Wildl Dis 17: 587-592.
46. Old JM, Deane EM (2005). Antibodies to the Ross River virus in captive marsupials in urban areas of eastern New South Wales, Australia. J Wildl Dis 41: 611-614.
47. Parola P, Socolovschi C, Jeanjean L, Bitam I, Fournier P-E, Sotto A et al. (2008). Warmer weather linked to tick attack and emergence of severe rickettsioses. PLoS Negl Trop Dis 2: e338.
48. Pritchard JK, Stephens M, Donnelly P (2000). Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
49. Radwan J, Biedrzycka A, Babik W (2010). Does reduced MHC diversity decrease viability of vertebrate populations? Biol Conserv 143: 537-544.
50. Rozas J (2009). DNA sequence polymorphism analysis using DnaSP. Methods Mol Biol 537: 337-350.
51. Seddon JM, Baverstock PR (1999). Variation on islands: major histocompatibility complex (MHC) polymorphism in populations of the Australian bush rat. Mol Ecol 8: 2071-2079.
52. Simmons GS, Young PR, Hanger JJ, Jones K, Clarke D, McKee JJ et al. (2012). Prevalence of koala retrovirus in geographically diverse populations in Australia. Aust Vet J 90: 404-409.
53. Sommer S (2005). The importance of immune gene variability (MHC) in evolutionary ecology and conservation. Front Zool 2: 16.
54. Spielman D, Brook BW, Briscoe DA, Frankham R (2004). Does inbreeding and loss of genetic diversity decrease disease resistance? Conserv Genet 5: 439-448.
55. Stamatakis A (2006). RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688-2690.
56. Sutton JT, Nakagawa S, Robertson BC, Jamieson IG (2011). Disentangling the roles of natural selection and genetic drift in shaping variation at MHC immunity genes. Mol Ecol 20: 4408-4420.
57. Wilson DJ, McVean G (2006). Estimating diversifying selection and functional constraint in the presence of recombination. Genetics 172: 1411-1425.
58. Yates A, Antia R, Regoes RR (2006). How do pathogen evolution and host heterogeneity interact in disease emergence? Proc Biol Sci 273: 3075-3083.