Genetic differentiation, recombination and clonal expansion in environmental populations of Cryptococcus gattii in India

Environmental Microbiology

Volumn 13, Issue 7, 2011, Pages 1875-1888

  Chowdhary, Anuradha ^a   Hiremath, Sanjay S ^b   Sun, Sheng ^b,d   Kowshik, Tusharantak ^a   Randhawa, Harbans S ^a   Xu, Jianping ^b,c  

^a UNIVERSITY OF DELHI   (India)

^b MCMASTER UNIVERSITY   (Canada)

^c YUNNAN UNIVERSITY   (China)

^d DUKE UNIVERSITY MEDICAL CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA;

ARTICLE; BACTERIUM IDENTIFICATION; CLASSIFICATION; CRYPTOCOCCUS GATTII; CRYPTOCOCCUS NEOFORMANS; ECOSYSTEM; GENE FLOW; GENE LINKAGE DISEQUILIBRIUM; GENETIC RECOMBINATION; GENETIC VARIABILITY; GENETICS; GENOTYPE; GEOGRAPHY; INDIA; ISOLATION AND PURIFICATION; MICROBIOLOGY; MULTILOCUS SEQUENCE TYPING; PHYLOGENY; POPULATION GENETICS; TREE;

BACTERIAL TYPING TECHNIQUES; CRYPTOCOCCUS GATTII; CRYPTOCOCCUS NEOFORMANS; DNA, BACTERIAL; ECOSYSTEM; GENE FLOW; GENETIC VARIATION; GENETICS, POPULATION; GENOTYPE; GEOGRAPHY; INDIA; LINKAGE DISEQUILIBRIUM; MULTILOCUS SEQUENCE TYPING; PHYLOGENY; RECOMBINATION, GENETIC; TREES;

CRYPTOCOCCUS GATTII; CRYPTOCOCCUS NEOFORMANS VAR. GRUBII; EUKARYOTA; FILOBASIDIELLA NEOFORMANS;

EID: 79959852365     PISSN: 14622912     EISSN: 14622920     Source Type: Journal    
DOI: 10.1111/j.1462-2920.2011.02510.x     Document Type: Article

References (63)

1. Abegg, M.A., Cella, F.L., Faganello, J., Valente, P., Schrank, A., and Vainstein, M.H. (2006) Cryptococcus neoformans and Cryptococcus gattii isolated from the excreta of psittaciformes in a southern Brazilian zoological garden. Mycopathologia 161: 83-91.
2. Agapow, P.M., and Burt, A. (2001) Indices of multilocus linkage disequilibrium. Mol Ecol Notes 1: 101-102.
3. Baas-Becking, L.G.M. (1934) Geobiologie of Inleiding Tot de Milieukunde. The Hague, the Netherlands: Van Stockkum & Zoon.
4. Bovers, M., Hagen, F., Kuramae, E.E., and Boekhout, T. (2008) Six monophyletic lineages identified within Cryptococcus neoformans and Cryptococcus gattii by multi-locus sequence typing. Fungal Genet Biol 45: 400-421.
5. Bovers, M., Hagen, F., Kuramae, E.E., and Boekhout, T. (2009) Promiscuous mitochondria in Cryptococcus gattii. FEMS Yeast Res 9: 489-503.
6. Brown, A.H.D., Feldman, M.W., and Nevo, E. (1980) Multilocus structure of natural populations of Hordeum spontaneum. Genetics 96: 523-536.
7. Byrnes, E.J., III, Li, W., Lewit, Y., Ma, H., Voelz, K., Ren, P., etal. (2010) Emergence and pathogenicity of highly virulent Cryptococcus gattii genotypes in the Northwest United States. PLoS Pathog 6: e1000850.
8. Campbell, L.T., Currie, B.J., Krockenberger, M., Malik, R., Meyer, W., Heitman, J., and Carter, D. (2005a) Clonality and recombination in genetically differentiated subgroups of Cryptococcus gattii. Eukaryot Cell 4: 1403-1409.
9. Campbell, L.T., Fraser, J.A., Nichols, C.B., Dietrich, F.S., Carter, D., and Heitman, J. (2005b) Clinical and environmental isolates of Cryptococcus gattii from Australia that retain sexual fecundity. Eukaryot Cell 4: 1410-1419.
10. Casadevall, A., and Perfect, J.R. (1998) Cryptococcus neoformans. Washington, DC, USA: ASM Press.
11. Chakrabarti, A., Jatana, M., Kumar, P., Chantha, L., Kaushal, A., and Pad-hye, A.A. (1997) Isolation of Cryptococcus neoformans var. gattii from Eucalyptus camaldulensis in India. J Clin Microbiol 35: 3340-3342.
12. Chen, S., Sorrell, T., Nimmo, G., Speed, B., Currie, B., Ellis, D., Marriott, D., etal. (2000) Epidemiology and host- and variety-dependent characteristics of infection due to Cryptococcus neoformans in Australia and New Zealand. Australasian Cryptococcal Study Group. Clin Infect Dis 31: 499-508.
13. Davel, G., Abrantes, R., Brudny, M., Cordoba, S., Rodero, L., Canteros, C.E., and Perrotta, D. (2003) First environmental isolation of Cryptococcus neoformans var. gattii in Argentina. Rev Argent Microbiol 25: 390-397.
14. Ellis, D.H., and Pfeiffer, T.J. (1990) Natural habitat of Cryptococcus neoformans var. gattii. J Clin Microbiol 28: 1642-1644.
15. Escandón, P., Sánchez, A., Martínez, M., Meyer, W., and Castañeda, E. (2006) Molecular epidemiology of clinical and environmental isolates of the Cryptococcus neoformans species complex reveals a high genetic diversity and the presence of the molecular type VGII mating type a in Colombia. FEMS Yeast Res 6: 625-635.
16. Fraser, J.A., Subaran, R.L., Nichols, C.B., and Heitman, J. (2003) Recapitulation of the sexual cycle of the primary fungal pathogen Cryptococcus neoformans var. gattii: implications for an outbreak on Vancouver Island, Canada. Eukaryot Cell 2: 1036-1045.
17. Fraser, J.A., Giles, S.S., Wenink, E.C., Guenes-Boyer, S.G., Wright, J.R., Diezmann, S., etal. (2005) Same-sex mating and the origin of the Vancouver Island Cryptococcus gattii outbreak. Nature 437: 1360-1364.
18. Giles, S.S., Dagenais, T.R., Botts, M.R., Keller, N.P., and Hull, C.M. (2009) Elucidating the pathogenesis of spores from the human fungal pathogen Cryptococcus neoformans. Infect Immun 77: 3491-3500.
19. Granados, D.P., and Castañeda, E. (2005) Isolation and characterization of Cryptococcus neoformans varieties recovered from natural sources in Bogotá, Colombia, and study of ecological conditions in the area. Microb Ecol 49: 282-290.
20. Granados, D.P., and Castañeda, E. (2006) Influence of climatic conditions on the isolation of members of the Cryptococcus neoformans species complex from trees in Colombia from 1992-2004. FEMS Yeast Res 6: 636-644.
21. Halliday, C.L., and Carter, D.A. (2003) Clonal reproduction and limited dispersal in an environmental population of Cryptococcus neoformans var. gattii isolates from Australia. J Clin Microbiol 41: 703-711.
22. Halliday, C.L., Bui, T., Krockenberger, M.B., Malik, R., Ellis, D., and Carter, D. (1999) Presence of α and a mating types in environmental and clinical collections of Cryptococcus neoformans var. gattii strains from Australia. J Clin Microbiol 37: 2920-2926.
23. Hiremath, S.S., Chowdhary, A., Kowshik, T., Randhawa, H.S., Sun, S., and Xu, J. (2008) Long-distance dispersal and recombination in environmental populations of Cryptococcus neoformans var. grubii from India. Microbiology 154: 1513-1524.
24. Jain, N., Wickes, B.L., Keller, S.M., Fu, J., Casadevall, A., Jain, P., etal. (2005) Molecular epidemiology of clinical Cryptococcus neoformans strains from India. J Clin Microbiol 43: 5733-5742.
25. Kidd, S.E., Guo, H., Bartlett, K.H., Xu, J., and Kronstad, J.W. (2005) Comparative gene genealogies indicate that two clonal lineages of Cryptococcus gattii in British Columbia resemble strains from other geographical areas. Eukaryot Cell 4: 1629-1638.
26. Kidd, S.E., Chow, Y., Mak, S., Bach, P.J., Chen, H., Hingston, A.O., etal. (2007) Characterization of environmental sources of the human and animal pathogen Cryptococcus gattii in British Columbia, Canada, and the Pacific Northwest of the United States. Appl Environ Microbiol 73: 1433-1443.
27. Kwon-Chung, K.J. (1975) A new genus, Filobasidiella, the perfect state of Cryptococcus neoformans. Mycologia 67: 1197-1200.
28. Kwon-Chung, K.J. (1976) Morphogenesis of Filobasidiella neoformans, the sexual state of Cryptococcus neoformans. Mycologia 68: 821-833.
29. Kwon-Chung, K.J., and Bennett, J.E. (1978) Distribution of alpha and alpha mating types of Cryptococcus neoformans among natural and clinical isolates. Am J Epidemiol 108: 337-340.
30. Laurenson, I.F., Lalloo, D.G., Naraqi, S., Seaton, R.A., Trevett, A.J., Matuka, A., and Kevau, I.H. (1997) Cryptococcus neoformans in Papua New Guinea: a common pathogen but an elusive source. J Med Vet Mycol 35: 437-440.
31. Litvintseva, A.P., Thakur, R., Reller, L.B., and Mitchell, T.G. (2005) Prevalence of clinical isolates of Cryptococcus gattii serotype C among patients with AIDS in Sub-Saharan Africa. J Infect Dis 192: 888-892.
32. Litvintseva, A.P., Xu, J., and Mitchell, T.G. (2010) Population structure and ecology of Cryptococcus. In Cryptococcus and Cryptococcosis. Heitman, J., Kwon-Chung, J., Perfect, J., and Casadevall, A. (eds). Washington, DC, USA: ASM Press, pp. 97-111.
33. Mahmoud, Y.A. (1999) First environmental isolation of Cryptococcus neoformans var. neoformans and var. gatti from the Gharbia Governorate, Egypt. Mycopathologia 148: 83-86.
34. Martiny, J.B.H., Bohannan, B.J.M., Brown, J.H., Colwell, R.K., Fuhrman, J.A., and Green, J.L. (2006) Microbial biogeography: putting microorganisms on the map. Nat Rev Microbiol 4: 102-113.
35. Meyer, W., Castañeda, A., Jackson, S., Huynh, M., Castañeda, E., and IberoAmerican Cryptococcal Study Group. (2003) Molecular typing of IberoAmerican Cryptococcus neoformans isolates. Emerg Infect Dis 9: 189-195.
36. Meyer, W., Aanensen, D.M., Boekhout, T., Cogliati, M., Diaz, M.R., Esposto, M.C., etal. (2009) Consensus multi-locus sequence typing scheme for Cryptococcus neoformans and Cryptococcus gattii. Med Mycol 47: 561-570.
37. Montenegro, H., and Paula, C.R. (2000) Environmental isolation of Cryptococcus neoformans var. gattii and C. neoformans var. neoformans in the city of São Paulo, Brazil. Med Mycol 38: 385-390.
38. Ngamskulrungroj, P., Gilgado, F., Faganello, J., Litvintseva, A.P., Leal, A.L., Tsui, K.M., etal. (2009) Genetic diversity of the Cryptococcus species complex suggests that Cryptococcus gattii deserves to have varieties. PLoS ONE 4: e5862.
39. Peakall, R., and Smouse, P.E. (2006) GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research. Mol Ecol Notes 6: 288-295.
40. Pfeiffer, T.J., and Ellis, D. (1992) Environmental isolation of Cryptococcus neoformans var. gattii from Eucalyptus tereticornis. J Med Vet Mycol 30: 407-408.
41. Randhawa, H.S., Kowshik, T., and Khan, Z.U. (2003) Decayed wood of Syzygium cumini and Ficus religiosa living trees in Delhi/New Delhi metropolitan area as natural habitat of Cryptococcus neoformans. Med Mycol 41: 199-209.
42. Randhawa, H.S., Kowshik, T., and Khan, Z.U. (2005) Efficacy of swabbing versus a conventional technique for isolation of Cryptococcus neoformans from decayed wood in tree trunk hollows. Med Mycol 43: 67-71.
43. Randhawa, H.S., Kowshik, T., Preeti Sinha, K., Chowdhary, A., Khan, Z.U., Yan, Z., etal. (2006) Distribution of Cryptococcus gattii and Cryptococcus neoformans in decayed trunk wood of Syzygium cumini trees in north-western India. Med Mycol 44: 623-630.
44. Randhawa, H.S., Kowshik, T., Chowdhary, A., Preeti Sinha, K., Khan, Z.U., Sun, S., and Xu, J. (2008) The expanding host tree species spectrum of Cryptococcus gattii and Cryptococcus neoformans and their isolations from surrounding soil in India. Med Mycol 18: 1-11.
45. Saul, N., Krockenberger, M.B., and Carter, D.A. (2008) Evidence of recombination in mixed mating type and α-only populations of Cryptococcus gattii sourced from single Eucalyptus tree hollows. Eukaryot Cell 7: 727-734.
46. Sorrell, T.C. (2001) Cryptococcus neoformans variety gattii. Med Mycol 39: 155-168.
47. Stephen, C., Lester, S., Black, W., Fyfe, M., and Raverty, S. (2002) Multispecies outbreak of cryptococcosis on southern Vancouver Island, British Columbia. Can Vet J 43: 792-794.
48. Swofford, D.L. (2002) PAUP*: Phylogenetic Analysis Using Parsimony (and Other Methods). Sunderland, MA, USA: Sinauer Associates.
49. Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F., and Higgins, D.G. (1997) The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 24: 4876-4882.
50. Trilles, L., Lazéra, M., Wanke, B., Theelen, B., and Boekhout, T. (2003) Genetic characterization of environmental isolates of the Cryptococcus neoformans species complex from Brazil. Med Mycol 41: 383-390.
51. Tscharke, R.L., Lazéra, M., Chang, Y.C., Wickes, B., and Kwon-Chung, K.J. (2003) Haploid fruiting in Cryptococcus neoformans is not mating type specific. Fungal Genet Biol 39: 230-237.
52. Velagapudi, R., Hsueh, Y.P., Geunes-Boyer, S., Wright, J.R., and Heitman, J. (2009) Spores as infectious propagules of Cryptococcus neoformans. Infect Immun 77: 4345-4355.
53. Weir, B.S. (1996) Genetics Data Analysis, 2nd edn, Sunderland, MA, USA: Sinauer Associates.
54. Wickes, B.L., Mayorga, M.E., Edman, U., and Edman, J.C. (1996) Dimorphism and haploid fruiting in Cryptococcus neoformans: association with the alpha-mating type. Proc Natl Acad Sci USA 93: 7327-7331.
55. Xu, J. (2005) Evolutionary Genetics of Fungi. Norwich, CT, USA: Horizon Bioscience.
56. Xu, J. (2010) Microbial Population Genetics. Norwich, CT, USA: Horizon Bioscience.
57. Xu, J., and Mitchell, T.G. (2003) Comparative gene genealogical analyses of strains of serotype AD identify recombination in populations of serotypes A and D in the human pathogenic yeast Cryptococcus neoformans. Microbiology 149: 2147-2154.
58. Xu, J., Vilgalys, R., and Mitchell, T.G. (2000a) Multiple gene genealogies reveal recent dispersion and hybridization in the human pathogenic fungus Cryptococcus neoformans. Mol Ecol 9: 1471-1481.
59. Xu, J., Ramos, A., Vilgalys, R., and Mitchell, T.G. (2000b) Clonal and spontaneous origins of fluconazole resistance in Candida albicans. J Clin Microbiol 38: 1214-1220.
60. Xu, J., Luo, G., Vilgalys, R., Brandt, M.E., and Mitchell, T.G. (2002) Multiple origins of hybrid strains of Cryptococcus neoformans with serotype AD. Microbiology 148: 203-212.
61. Xu, J., Yan, Z., and Guo, H. (2009) Divergence, hybridization, and recombination in the mitochondrial genome of the human pathogenic yeast Cryptococcus gattii. Mol Ecol 18: 2628-2642.
62. Xu, J., Manosuthi, W., Banerjee, U., Zhu, L.-P., Chen, J.H., Kohno, S., etal. (2010) Cryptococcosis in Asia. In Cryptococcus and Cryptococcosis. Heitman, J., Kwon-Chung, J., Perfect, J., and Casadevall, A. (eds). Washington, DC, USA: ASM Press, pp. 287-297.
63. Yan, Z., Li, X., and Xu, J. (2002) Geographic distribution of mating type alleles of Cryptococcus neoformans in four areas of the United States. J Clin Microbiol 40: 965-972.