Morphological and genomic characterization of Filobasidiella depauperata: A homothallic sibling species of the pathogenic Cryptococcus species complex

PLoS ONE

Volumn 5, Issue 3, 2010, Pages

  Rodriguez Carres, Marianela ^a   Findley, Keisha ^a   Sun, Sheng ^a   Dietrich, Fred S ^a   Heitman, Joseph ^a  

^a DUKE UNIVERSITY MEDICAL CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

FUNGAL DNA;

ALLELE; ARTICLE; CHROMOSOME TRANSLOCATION; CRYPTOCOCCUS; CRYPTOCOCCUS GATTII; CRYPTOCOCCUS NEOFORMANS; FILOBASIDIELLA DEPAUPERATA; GENE LOCUS; GENETIC CONSERVATION; GENETIC LINKAGE; GENETIC TRAIT; MONOPHYLY; MORPHOLOGY; NONHUMAN; NUCLEOTIDE SEQUENCE; PATHOGENICITY; PHYLOGENY; SPECIES; SYNTENY; BASIDIOMYCETES; BIOLOGICAL MODEL; CHROMOSOME; FLUORESCENCE MICROSCOPY; FUNGAL GENE; GENETICS; GENOTYPE; METHODOLOGY; NUCLEIC ACID HYBRIDIZATION; PHYSIOLOGY; POLYMERASE CHAIN REACTION; SCANNING ELECTRON MICROSCOPY; SPECIES DIFFERENCE; TRANSMISSION ELECTRON MICROSCOPY;

ANIMALIA; CRYPTOCOCCUS GATTII; FILOBASIDIELLA DEPAUPERATA; FILOBASIDIELLA NEOFORMANS; HEXAPODA;

ALLELES; BASIDIOMYCOTA; CHROMOSOMES, FUNGAL; CRYPTOCOCCUS; GENES, FUNGAL; GENES, MATING TYPE, FUNGAL; GENOTYPE; MICROSCOPY, ELECTRON, SCANNING; MICROSCOPY, ELECTRON, TRANSMISSION; MICROSCOPY, FLUORESCENCE; MODELS, GENETIC; NUCLEIC ACID HYBRIDIZATION; PHYLOGENY; POLYMERASE CHAIN REACTION; SPECIES SPECIFICITY;

EID: 77949667217     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0009620     Document Type: Article

References (65)

1. Hurst LD, Pál CP, Lercher MJ (2004) The evolutionary dynamics of eukaryotic gene order. Nature Reviews 5: 299-310.
2. Fraser JA, Diezmann S, Subaran RL, Allen A, Lengeler KB, et al. (2004) Convergent evolution of chromosomal sex-determining regions in the animal and fungal kingdoms. PLoS Biology 2: 2243-2255.
3. Casselton LA, Olesnicky NS (1999) Molecular genetics of mating recognition in basidiomycete fungi. Microbiol Mol Biol Rev 62: 55-70.
4. Kahmann RR, Romeis T, Bolker M, Kamper J (1995) Control of mating and development in Ustilago maydis. Curr Opin Genet Dev 5: 559-564.
5. Kronstad JW, Staben C (1997) Mating type in filamentous fungi. Annu Rev Genet 31: 245-276.
6. Lin X, Heitman J (2006) The biology of the Cryptococcus neoformans species complex. Annu Rev Microbiol 60: 69-105.
7. Lin X, Hull CM, Heitman J (2005) Sexual reproduction between partners of the same mating type in Cryptococcus neoformans. Nature 434: 1017-1021.
8. Wickes BL, Mayorga ME, Edman U, Edman JC (1996) Dimorphism and haploid fruiting in Cryptococcus neoformans: association with the α-mating type. Proc Natl Acad Sci USA 93: 7327-7331.
9. Lin X (2009) Cryptococcus neoformans: Morphogenesis, infection, and evolution. Infection, Genetics and Evolution 9: 401-416.
10. Fraser JA, Giles SS, Wenink EC, Geunes-Boyer SG, Wright JR, et al. (2005) Same-sex mating and the origin of the Vancouver Island Cryptococcus gattii outbreak. Nature 437: 1360-1364.
11. Lin X, Patel S, Litvintseva AP, Floyd A, Mitchell TG, et al. (2009) Diploids in the Cryptococcus neoformans serotype A population homozygous for the α mating type originate via unisexual mating. PLoS Pathog 5: e1000283.
12. Hsueh Y-P, Fraser JA, Heitman J (2008) Transitions in sexuality: Recapitulation of an ancestral tri- and tetrapolar mating system in Cryptococcus neoformans. Eukaryot Cell 7: 1847-1855.
13. Kurtzman CP, Fell JW (1998) The Yeasts: A taxonomic study. New York: Elsevier Science.
14. Findley K, Rodriguez-Carres M, Metin B, Kroiss J, Fonseca A, et al. (2009) Phylogeny and phenotypic characterization of pathogenic Cryptococcus species and closely related saprobic taxa in the Tremellales. Eukaryot Cell 8: 353-361.
15. Kwon-Chung KJ, Chang YC, Bauer R, Swan EC, Taylor JW, et al. (1995) The characteristics that differentiate Filobasidiella depauperata from Filobasidiella neoformans. Stud Mycol 38: 67-79.
16. Samson RA, Stalpers JA, Weijman ACM (1983) On the taxonomy of the entomogenous fungus Filobasidiella arachnophila. Antonie van Leeuwenhoek 49: 447-456.
17. Kwon-Chung KJ, Chang YC, Penoyer L (1997) Species of the genus Filobasidiella differ in the organization of their 5S rRNA genes. Mycologia 89: 244-249.
18. Mitchell TG, White TJ, Taylor JW (1992) Comparison of 5.8S ribosomal DNA sequences among the basidiomycetous yeast genera Cystofilobasidium, Filobasidium and Filobasidiella. J Med Vet Mycol 30: 207-218.
19. Sivakumaran S, Bridge P, Roberts P (2002) Genetic relatedness among Filobasidiella species. Mycopathologia 156: 157-162.
20. Kent CR, Ortiz-Bermúdez P, Giles SS, Hull CM (2008) Formulation of a defined V8 medium for induction of sexual development of Cryptococcus neoformans. Appl Environ Microbiol 74: 6248-6253.
21. Xue C, Tada Y, Dong X, Heitman J (2007) The human fungal pathogen Cryptococcus can complete its sexual cycle during a pathogenic association with plants. Cell Host & Microbe 1: 263-273.
22. Velegraki A, Kambouris M, Kostourou A, Chalevelakis G, Legakis NJ (1999) Rapid extraction of fungal DNA from clinical samples for PCR amplification. Med Mycol 37: 69-73.
23. Lengeler KB, Fox DS, Fraser JA, Allen A, Forrester K, et al. (2002) Mating-type locus of Cryptococcus neoformans: a step in the evolution of sex chromosomes. Eukaryot Cell 1: 704-718.
24. Gordon D (2004) Viewing and editing assembled sequences using consed. In: Baxevanis AD, Davison DB, eds. Current Protocols in Bioinformatics. New York: John Wiley & Co. pp 11.12.11-11.12.43.
25. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22: 4673-4680.
26. Maddison WP, Maddison DR (2003) MacClade 4. Analysis of phylogeny and character evolution. 4.06 ed. Sunderland, MA: Sinauer Associates, Inc.
27. Swofford DL (1999) PAUP*. Phylogenetic analysis using parsimony (*and other methods). 4 ed. Sunderland, MA: Sinauer Associates, Inc.
28. Posada D, Crandall KA (1998) MODELTEST: testing the model of DNA substitution. Bioinformatics 14: 817-818.
29. Tesler G (2002) Efficient algorithms for multichromosomal genome rearrangements. Journal of Computer and System Sciences 65: 587-609.
30. Tesler G (2002a) GRIMM: genome rearrangements web server. Bioinformatics 18: 492-493.
31. Bahn YS, Xue C, Idnurm A, Rutherford JC, Heitman J, et al. (2007) Sensing the environment: lessons from fungi. Nat Rev Microbiol 5: 57-69.
32. Idnurm A, Heitman J (2005) Light controls growth and development via a conserved pathway in the fungal kingdom. PLoS Biology 3: 615-626.
33. McClelland CM, Chang YC, Varma A, Kwon-Chung J (2004) Uniqueness of the mating system in Cryptococcus neoformans. Trends in Microbiology 12: 208-212.
34. McLaughlin DJ, Frieders EM, Lü H (1995) A microscopist's view of heterobasidiomycete phylogeny. Stud Mycol 38: 87-101.
35. Moore RT, McAlear JH (1962) Fine Structure of mycota. Observations on septa of ascomycetes and basidiomycetes. Am J Botany 49: 86-94.
36. Kwon-Chung KJ, Popkin TJ (1976) Ultrastructure of septal complex in Filobasidiella neoformans (Cryptococcus neoformans). J Bacteriol 126: 524-528.
37. Loftus BJ, Fung E, Roncaglia P, Rowley D, Amedeo P, et al. (2005) The genome of the basidiomycetous yeast and human pathogen Cryptococcus neoformans. Science 307: 1321-1324.
38. Fries BC, Goldman DL, Casadevall A (2002) Phenotypic switching in Cryptococcus neoformans. Microbes Infect 4: 1345-1352.
39. Fries BC, Goldman DL, Cherniak R, Ju R, Casadevall A (1999) Phenotypic switching in Cryptococcus neoformans results in changes in cellular morphology and glucuronoxylomannan structure. Infect Immun 67: 6076-6083.
40. Gunde-Cimerman N, Plemenitas A (2006) Ecology and molecular adaptations of the halophilic black yeast Hortaea werneckii. Rev Environ Sci Biotechnol 5: 323-331.
41. Onofri S, Selbmann L, de Hoog GS, Grube M, Barreca D, et al. (2007) Evolution and adaptation of fungi at boundaries of life. Adv Space Res 40: 1657-1664.
42. Selbmann L, de Hoog FS, Mazzaglia A, Friedmann EI, Onofri S (2005) Fungi at the edge of life: cryptoendolithic black fungi from Antarctic desert. Stud Mycol 51: 1-32.
43. Hsueh Y-P, Idnurm A, Heitman J (2006) Recombination hotspots flank the Cryptococcus mating-type locus: Implications for the evolution of a fungal sex chromosome. PLoS Genet 2: e184.
44. Lin X, Heitman J (2007) Mechanisms of homothallism in fungi and transitions between heterothallism and homothallism. In: Heitman J, Kronstad JW, Taylor JW, Casselton LA, eds. Sex in Fungi. Washington: ASM Press. pp 35-58.
45. Butler G, Rasmussen MD, Lin MF, Santos MAS, Sakthikumar S, et al. (2009) Evolution of pathogenicity and sexual reproduction in eight Candida genomes. Nature 459: 657-662.
46. Hull CM, Boily M-J, Heitman J (2005) Sex-specific homeodomain proteins Sxi1α and Sxi2a coordinately regulate sexual development in Cryptococcus neoformans. Eukaryot Cell 4: 526-535.
47. Hull CM, Heitman J (2002) Genetics of Cryptococcus neoformans. Annu Rev Genet 36: 557-615.
48. Galagan JE, Calvo SE, Cuomo C, Ma LJ, Wortman JR, et al. (2005) Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae. Science 438: 1105-1115.
49. Paoletti M, Seymour FA, Alcocer MJ, Kaur N, Calvo AM, et al. (2007) Mating type and the genetic basis of self-fertility in the model fungus Aspergillus nidulans. Curr Biol 17: 1384-1389.
50. Rydholm C, Dyer PS, Lutzoni F (2007) DNA sequence characterization and molecular evolution of MAT1 and MAT2 mating-type loci of the self-compatible ascomycete mold Neosartorya fischeri. Eukaryot Cell 6: 868-874.
51. Yun SH, Berbee ML, Yoder OC, Turgeon BG (1999) Evolution of the fungal self-fertile reproductive life style from self-sterile ancestors. Proc Natl Acad Sci U S A 96: 5592-5597.
52. Pöggeler S, Risch S, Kück U, Osiewacz HD (1997) Mating-type genes from the homothallic fungus Sordaria macrospora are functionally expressed in a heterothallic ascomycete. Gene 147: 567-580.
53. Yun SH, Arie T, Kaneko I, Yoder OC, Turgeon BG (2000) Molecular organization of mating type loci in heterothallic, homothallic, and asexual Gibberella/Fusarium species. Fungal Genet Biol 31: 7-20.
54. Dietrich FS, Voegeli S, Brachat S, Lerch A, Gates K, et al. (2004) The Ashbya gossypii genome as a tool for mapping the ancient Saccharomyces cerevisiae genome. Science 304: 304-307.
55. Lengeler KB, Davidson RC, D'Souza C, Harashima T, Shen WC, et al. (2000) Signal transduction cascades regulating fungal development and virulence. Microbiol Mol Biol Rev 64: 746-785.
56. Zhao X, Mehrabi R, Xu J (2007) Mitogen-activated protein kinase pathways and fungal pathogenesis. Eukaryot Cell 6: 1701-1714.
57. Chung S, Karos M, Chang YC, Lukszo J, Wickes BL, et al. (2002) Molecular analysis of CPRalpha, a MATalpha-specific pheromone receptor gene of Cryptococcus neoformans. Eukaryot Cell 1: 432-439.
58. Davidson RC, Nichols CB, Cox GM, Perfect JR, Heitman J (2003) A MAP kinase cascade composed of cell type specific and non-specific elements controls mating and differentiation of the fungal pathogen Cryptococcus neoformans. Mol Microbiol 49: 469-485.
59. Kavanaugh LA, Fraser JA, Dietrich FS (2006) Recent evolution of the human pathogen Cryptococcus neoformans by intervarietal transfer of a 14-gene fragment. Mol Biol Evol 23: 1879-1890.
60. Fraser JA, Huang JC, Pukkila-Worley R, Alspaugh JA, Mitchell TG, et al. (2005) Chromosomal translocation and segmental duplication in Cryptococcus neoformans. Eukaryot Cell 4: 401-406.
61. Marra RE, Huang JC, Fung E, Nielsen K, Heitman J, et al. (2004) A genetic linkage map of Cryptococcus neoformans variety neoformans serotype D (Filobasidiella neoformans). Genetics 167: 619-931.
62. Fries BC, Chen F, Currie BP, Casadevall A (1996) Karyotype instability in Cryptococcus neoformans infection. J Clin Microbiol 34: 1631-1634.
63. Garcia-Hermoso D, Dromer F, Janbon G (2004) Cryptococcus neoformans capsule structure evolution in vitro and during murine infection. Infect Immun 72: 3359-3365.
64. Eichler EE, Sankoff D (2003) Structural dynamics of eukaryotic chromosome evolution. Science 301: 793-797.
65. Rieseberg LH (2001) Chromosomal rearrangements and speciation. Ecol and Evol Bio 16: 351-358.