Cryptococcus gattii in North American Pacific Northwest: Whole-population genome analysis provides insights into species evolution and dispersal

David M. Engelthaler, Nathan D. Hicks, John D. Gillece, Chandler C. Roe, James M. Schupp, Elizabeth M. Driebe, Felix Gilgado, Fabian Carriconde, Luciana Trilles, Carolina Firacative, Popchai Ngamskulrungroj, Elizabeth Castañeda, Marcia Dos Santos Lazera, Marcia S C Melhem, Åsa Pérez-Bercoff, Gavin Huttley, Tania C. Sorrell, Kerstin Voelz, Robin C. May, Matthew C. FisherGeorge R. Thompson, Shawn R. Lockhart, Paul S Keim, Wieland Meyer

Research output: Contribution to journalArticle

70 Citations (Scopus)

Abstract

The emergence of distinct populations of Cryptococcus gattii in the temperate North American Pacific Northwest (PNW) was surprising, as this species was previously thought to be confined to tropical and semitropical regions. Beyond a new habitat niche, the dominant emergent population displayed increased virulence and caused primary pulmonary disease, as opposed to the predominantly neurologic disease seen previously elsewhere. Whole-genome sequencing was performed on 118 C. gattii isolates, including the PNW subtypes and the global diversity of molecular type VGII, to better ascertain the natural source and genomic adaptations leading to the emergence of infection in the PNW. Overall, the VGII population was highly diverse, demonstrating large numbers of mutational and recombinational events; however, the three dominant subtypes from the PNW were of low diversity and were completely clonal. Although strains of VGII were found on at least five continents, all genetic subpopulations were represented or were most closely related to strains from South America. The phylogenetic data are consistent with multiple dispersal events from South America to North America and elsewhere. Numerous gene content differences were identified between the emergent clones and other VGII lineages, including genes potentially related to habitat adaptation, virulence, and pathology. Evidence was also found for possible gene introgression from Cryptococcus neoformans var. grubii that is rarely seen in global C. gattii but that was present in all PNW populations. These findings provide greater.

IMPORTANCE Cryptococcus gattii emerged in the temperate North American Pacific Northwest (PNW) in the late 1990s. Beyond a new environmental niche, these emergent populations displayed increased virulence and resulted in a different pattern of clinical disease. In particular, severe pulmonary infections predominated in contrast to presentation with neurologic disease as seen previously elsewhere. We employed population-level whole-genome sequencing and analysis to explore the genetic relationships and gene content of the PNW C. gattii populations. We provide evidence that the PNW strains originated from South America and identified numerous genes potentially related to habitat adaptation, virulence expression, and clinical presentation. Characterization of these genetic features may lead to improved diagnostics and therapies for such fungal infections. The data indicate that there were multiple recent introductions of C. gattii into the PNW. Public health vigilance is warranted for emergence in regions where C. gattii is not thought to be endemic.

Original languageEnglish (US)
Article numbere01464-14
JournalmBio
Volume5
Issue number4
DOIs
StatePublished - Jul 15 2014

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Cryptococcus gattii
Northwestern United States
Genome
Population
Virulence
South America
Ecosystem
Genes
Nervous System Diseases
Cryptococcus neoformans
Mycoses
North America
Infection
Lung Diseases
Public Health
Clone Cells

ASJC Scopus subject areas

  • Microbiology
  • Virology

Cite this

Engelthaler, D. M., Hicks, N. D., Gillece, J. D., Roe, C. C., Schupp, J. M., Driebe, E. M., ... Meyer, W. (2014). Cryptococcus gattii in North American Pacific Northwest: Whole-population genome analysis provides insights into species evolution and dispersal. mBio, 5(4), [e01464-14]. https://doi.org/10.1128/mBio.01464-14

Cryptococcus gattii in North American Pacific Northwest : Whole-population genome analysis provides insights into species evolution and dispersal. / Engelthaler, David M.; Hicks, Nathan D.; Gillece, John D.; Roe, Chandler C.; Schupp, James M.; Driebe, Elizabeth M.; Gilgado, Felix; Carriconde, Fabian; Trilles, Luciana; Firacative, Carolina; Ngamskulrungroj, Popchai; Castañeda, Elizabeth; Dos Santos Lazera, Marcia; Melhem, Marcia S C; Pérez-Bercoff, Åsa; Huttley, Gavin; Sorrell, Tania C.; Voelz, Kerstin; May, Robin C.; Fisher, Matthew C.; Thompson, George R.; Lockhart, Shawn R.; Keim, Paul S; Meyer, Wieland.

In: mBio, Vol. 5, No. 4, e01464-14, 15.07.2014.

Research output: Contribution to journalArticle

Engelthaler, DM, Hicks, ND, Gillece, JD, Roe, CC, Schupp, JM, Driebe, EM, Gilgado, F, Carriconde, F, Trilles, L, Firacative, C, Ngamskulrungroj, P, Castañeda, E, Dos Santos Lazera, M, Melhem, MSC, Pérez-Bercoff, Å, Huttley, G, Sorrell, TC, Voelz, K, May, RC, Fisher, MC, Thompson, GR, Lockhart, SR, Keim, PS & Meyer, W 2014, 'Cryptococcus gattii in North American Pacific Northwest: Whole-population genome analysis provides insights into species evolution and dispersal', mBio, vol. 5, no. 4, e01464-14. https://doi.org/10.1128/mBio.01464-14
Engelthaler, David M. ; Hicks, Nathan D. ; Gillece, John D. ; Roe, Chandler C. ; Schupp, James M. ; Driebe, Elizabeth M. ; Gilgado, Felix ; Carriconde, Fabian ; Trilles, Luciana ; Firacative, Carolina ; Ngamskulrungroj, Popchai ; Castañeda, Elizabeth ; Dos Santos Lazera, Marcia ; Melhem, Marcia S C ; Pérez-Bercoff, Åsa ; Huttley, Gavin ; Sorrell, Tania C. ; Voelz, Kerstin ; May, Robin C. ; Fisher, Matthew C. ; Thompson, George R. ; Lockhart, Shawn R. ; Keim, Paul S ; Meyer, Wieland. / Cryptococcus gattii in North American Pacific Northwest : Whole-population genome analysis provides insights into species evolution and dispersal. In: mBio. 2014 ; Vol. 5, No. 4.
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abstract = "The emergence of distinct populations of Cryptococcus gattii in the temperate North American Pacific Northwest (PNW) was surprising, as this species was previously thought to be confined to tropical and semitropical regions. Beyond a new habitat niche, the dominant emergent population displayed increased virulence and caused primary pulmonary disease, as opposed to the predominantly neurologic disease seen previously elsewhere. Whole-genome sequencing was performed on 118 C. gattii isolates, including the PNW subtypes and the global diversity of molecular type VGII, to better ascertain the natural source and genomic adaptations leading to the emergence of infection in the PNW. Overall, the VGII population was highly diverse, demonstrating large numbers of mutational and recombinational events; however, the three dominant subtypes from the PNW were of low diversity and were completely clonal. Although strains of VGII were found on at least five continents, all genetic subpopulations were represented or were most closely related to strains from South America. The phylogenetic data are consistent with multiple dispersal events from South America to North America and elsewhere. Numerous gene content differences were identified between the emergent clones and other VGII lineages, including genes potentially related to habitat adaptation, virulence, and pathology. Evidence was also found for possible gene introgression from Cryptococcus neoformans var. grubii that is rarely seen in global C. gattii but that was present in all PNW populations. These findings provide greater.IMPORTANCE Cryptococcus gattii emerged in the temperate North American Pacific Northwest (PNW) in the late 1990s. Beyond a new environmental niche, these emergent populations displayed increased virulence and resulted in a different pattern of clinical disease. In particular, severe pulmonary infections predominated in contrast to presentation with neurologic disease as seen previously elsewhere. We employed population-level whole-genome sequencing and analysis to explore the genetic relationships and gene content of the PNW C. gattii populations. We provide evidence that the PNW strains originated from South America and identified numerous genes potentially related to habitat adaptation, virulence expression, and clinical presentation. Characterization of these genetic features may lead to improved diagnostics and therapies for such fungal infections. The data indicate that there were multiple recent introductions of C. gattii into the PNW. Public health vigilance is warranted for emergence in regions where C. gattii is not thought to be endemic.",
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T1 - Cryptococcus gattii in North American Pacific Northwest

T2 - Whole-population genome analysis provides insights into species evolution and dispersal

AU - Engelthaler, David M.

AU - Hicks, Nathan D.

AU - Gillece, John D.

AU - Roe, Chandler C.

AU - Schupp, James M.

AU - Driebe, Elizabeth M.

AU - Gilgado, Felix

AU - Carriconde, Fabian

AU - Trilles, Luciana

AU - Firacative, Carolina

AU - Ngamskulrungroj, Popchai

AU - Castañeda, Elizabeth

AU - Dos Santos Lazera, Marcia

AU - Melhem, Marcia S C

AU - Pérez-Bercoff, Åsa

AU - Huttley, Gavin

AU - Sorrell, Tania C.

AU - Voelz, Kerstin

AU - May, Robin C.

AU - Fisher, Matthew C.

AU - Thompson, George R.

AU - Lockhart, Shawn R.

AU - Keim, Paul S

AU - Meyer, Wieland

PY - 2014/7/15

Y1 - 2014/7/15

N2 - The emergence of distinct populations of Cryptococcus gattii in the temperate North American Pacific Northwest (PNW) was surprising, as this species was previously thought to be confined to tropical and semitropical regions. Beyond a new habitat niche, the dominant emergent population displayed increased virulence and caused primary pulmonary disease, as opposed to the predominantly neurologic disease seen previously elsewhere. Whole-genome sequencing was performed on 118 C. gattii isolates, including the PNW subtypes and the global diversity of molecular type VGII, to better ascertain the natural source and genomic adaptations leading to the emergence of infection in the PNW. Overall, the VGII population was highly diverse, demonstrating large numbers of mutational and recombinational events; however, the three dominant subtypes from the PNW were of low diversity and were completely clonal. Although strains of VGII were found on at least five continents, all genetic subpopulations were represented or were most closely related to strains from South America. The phylogenetic data are consistent with multiple dispersal events from South America to North America and elsewhere. Numerous gene content differences were identified between the emergent clones and other VGII lineages, including genes potentially related to habitat adaptation, virulence, and pathology. Evidence was also found for possible gene introgression from Cryptococcus neoformans var. grubii that is rarely seen in global C. gattii but that was present in all PNW populations. These findings provide greater.IMPORTANCE Cryptococcus gattii emerged in the temperate North American Pacific Northwest (PNW) in the late 1990s. Beyond a new environmental niche, these emergent populations displayed increased virulence and resulted in a different pattern of clinical disease. In particular, severe pulmonary infections predominated in contrast to presentation with neurologic disease as seen previously elsewhere. We employed population-level whole-genome sequencing and analysis to explore the genetic relationships and gene content of the PNW C. gattii populations. We provide evidence that the PNW strains originated from South America and identified numerous genes potentially related to habitat adaptation, virulence expression, and clinical presentation. Characterization of these genetic features may lead to improved diagnostics and therapies for such fungal infections. The data indicate that there were multiple recent introductions of C. gattii into the PNW. Public health vigilance is warranted for emergence in regions where C. gattii is not thought to be endemic.

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