Institute of Evolution and Ecology (EvE)

List of publications


D.T. Baldassare, L. Campagna, H.A. Thomassen, M. Chu, L.H. Crampton, R.C. Fleischer, C. Riehl. GPS tracking and population genomics suggest itinerant breeding across drastically different habitats in the Phainopepla. The Auk. In press.


M.S. Tiee, R.J. Harrigan, H.A. Thomassen, T.B. Smith. Ghosts of infections past: using archival samples to understand a century of monkeypox virus prevalence among host communities across space and time. Royal Society Open Science 5: 171089. DOI:10.1098/rsos.171089.

H.A. Thomassen*, R.J. Harrigan*, K. Semple Delaney, S.P.D. Riley, L.E.K. Serieys, K. Pease, R.K. Wayne, T.B. Smith. Natural environment and urbanization shape wildlife population structure in the Santa Monica Mountains, California. Conservation Biology. DOI:10.1111/cobi.12969 (*these authors contributed equally to this work).


S. Ntie, A.R. Davis, K. Hils, P. Mickala, H.A. Thomassen, K. Morgan, H. Vanthomme, M.K. Gonder, N.M. Anthony. Evaluating the role of Pleistocene refugia, rivers and environmental variation in the diversification of central African duikers (genera Cephalophus and Philantomba). BMC Evolutionary Biology. DOI:10.1186/s12862-017-1054-4.


J.C. Geue, C.I. Vágási, M. Schweizer, P.L. Pap, H.A. Thomassen. Environmental selection is a main driver of divergence in house sparrows (Passer domesticus) in Romania and Bulgaria. Ecology and Evolution. Early view: DOI: 10.1002/ece3.2509.


H.A. Thomassen, E.M. Tompkins, O. Thalmann, D.J. Anderson, K. Foerster. Development and characterization of SNP markers in Nazca boobies using Ion Torrent sequencing and high resolution melt analysis. Conservation Genetics Resources DOI:10.1007/s12686-015-0458-y.

M.W. Mitchell, S. Locatelli, P.R. Sesink Clee, H.A. Thomassen, M.K. Gonder. Environmental variation and rivers govern the structure of chimpanzee genetic diversity in a biodiversity hotspot. BMC Evolutionary Biology 15:1 DOI:10.1186/s12862-014-0274-0.

B. Larison, R.J. Harrigan, H.A. Thomassen, D.I. Rubenstein, A. Chan-Golston, E. Li, T.B. Smith. How the zebra got its stripes: A problem with too many solutions. Royal Society Open Science DOI:10.1098/rsos.140452


R.J. Harrigan, H.A. Thomassen, W. Buermann, T.B. Smith. A continental risk assessment of West Nile virus under climate change. Global Change Biology 20: 2417-2425.


D.T. Baldassarre, H.A. Thomassen, J. Karubian, M.S. Webster. The role of ecological variation in driving divergence of sexual and non-sexual traits in the red-backed fairy-wren (Malurus melanocephalus). BMC Evolutionary Biology DOI:10.1186/1471-2148-13-75.

H.A. Thomassen, A. Freedman, D.M. Brown, W. Buermann, D.K. Jacobs. Regional differences in seasonal timing of rainfall discriminate between genetically distinct East African giraffe taxa. PloS ONE 8: e77191.

H.A. Thomassen, T. Fuller, S. Asefi-Najafabady, J.H.G. Shiplacoff, P.M. Mulembakani, S. Blumberg, S.C. Johnston, N.K. Kisalu, T.K. Lutete, J.N. Fair, N.D. Wolfe, R.L. Shongo, P. Formenty, H. Meyer, L.L. Wright, J.-J. Muyembe, W. Buermann, E. Okitolonda, L. Hensley, J.O. Lloyd-Smith, T.B. Smith, A.W. Rimoin. Pathogen-host associations and predicted range shifts of human Monkeypox in response to climate change in Central Africa. PloS ONE 8: e66071.

T.L. Fuller, H.A. Thomassen, M. Peralvo, W. Buermann, B. Milá, C.M. Kieswetter, P. Jarrín-V, S.E. Cameron Devitt, E. Mason, R.M. Schweizer, J. Schlunegger, J. Chan, P. Wang, C.J. Schneider, J.P. Pollinger, S. Saatchi, C.H. Graham, R.K. Wayne, T.B. Smith. Intraspecific morphological and genetic variation of common species predicts ranges of threatened ones. Proceedings of the Royal Society B 280: 20130423.


E. Mendoza, T. Fuller, H.A. Thomassen, W. Buermann, T.B. Smith. Preliminary assessment of the effectiveness of the Mesoamerican Biological Corridor for protecting potential Baird's tapir (Tapirus bairdii Gill, 1865) habitat in southern Mexico. Integrative Zoology DOI: 10.1111/1749-4877.12005.

M.D. Carling, H.A. Thomassen. The role of environmental heterogeneity in maintaining reproductive isolation between hybridizing Passerina (Aves: Cardinalidae) buntings. International Journal of Ecology DOI:10.1155/2012/295463.

C. Loiseau, R.J. Harrigan, A. Robert, R.C.K. Bowie, H.A. Thomassen, T.B. Smith, R.N.M. Sehgal. Host and habitat specialization of avian malaria in Africa. Molecular Ecology 21: 431-441.


T.B. Smith, H.A. Thomassen, R.N.M. Sehgal, W. Buermann, C. Bonneaud, S. Saatchi, J.P. Pollinger, B. Milá, D.B. Pires, G. Valkiunas, R.K. Wayne. Patterns of divergence in the olive sunbird Cyanomitra olivacea (Aves: Nectariniidae) across the African rainforest-savanna ecotone. Biological Journal of the Linnean Society 103: 821-835.

T. Fuller, H.A. Thomassen, P.M. Mulembakani, S. Johnston, J.O. Lloyd-Smith, N.K. Kisalu, T.K. Lutete, S. Blumberg, J.N. Fair, N.D. Wolfe, R.L. Shongo, P. Formenty, H. Meyer, L.L. Wright, J.-J. Muyembe, W. Buermann, S.S. Saatchi, E. Okitolonda, L. Hensley, T.B. Smith, A.W. Rimoin. Using remote sensing to map the risk of human monkeypox virus in the Congo Basin. EcoHealth 8: 14-25. DOI:10.1007/s10393-010-0355-5.

H.A. Thomassen, T. Fuller, W. Buermann, B. Milá, C.M. Kieswetter, P. Jarrín-V., S.E. Cameron, E. Mason, R. Schweizer, J. Schlunegger, J. Chan, O. Wang, M. Peralvo, C.J. Schneider, C.H. Graham, J.P. Pollinger, S. Saatchi, R.K. Wayne, T.B. Smith. Mapping evolutionary process: a multi-taxa approach to conservation prioritization. Evolutionary Applications 4: 397-413.


A.W. Rimoin, P.D. Mulembakani, S. Johnston , J.O. Lloyd-Smith, N.K. Kisalu, T.K. Lutete, S. Blumberg, H.A. Thomassen, B.L. Pike, N.D. Wolfe, R.L. Shongo, B.S. Graham, P. Formenty, E. Okitolonda, L. Hensley, H. Meyer, L.L. Wright, J.-J. Muyembe. A major increase in the incidence of human monkeypox thirty years after smallpox vaccination campaigns cease in the Democratic Republic of Congo. Proceedings of the National Academy of Sciences 107: 16262-16267.

R.J. Harrigan*, H.A. Thomassen*, W. Buermann, R. Cummings, M.E. Kahn, T.B. Smith. Economic conditions predict prevalence of West Nile virus. PloS ONE 5: e15437. (*these authors contributed equally to this work)

A.H. Freedman, H.A. Thomassen, W. Buermann, T.B. Smith. Genomic signals of diversification along ecological gradients in a tropical lizard. Molecular Ecology 19: 3773-3788.

H.A. Thomassen, Z.A. Cheviron, A.H. Freedman, R.J. Harrigan, R.K. Wayne, T.B. Smith. Spatial modeling and landscape-level approaches for visualizing intra-specific variation. Molecular Ecology 19: 3532-3548. (Invited Review)

T. Fuller, S. Saatchi, E.E. Curd, E. Toffelmier, H.A. Thomassen, W. Buermann, D.F. DeSante, M.P. Nott, J.F. Saraco, C.J. Ralph, J. Alexander, J.P. Pollinger, T.B. Smith. Mapping the risk of avian influenza in wild birds in the US. BMC Infectious Diseases 10: 187, DOI 10.1186/1471-2334-10-187.

H.A. Thomassen, W. Buermann, B. Milá, C.H. Graham, S.E. Cameron, C. J. Schneider, J. Pollinger, S. Saatchi, R.K. Wayne, T.B. Smith. Modeling environmentally associated morphological and genetic variation in a rainforest bird, and its application for conservation prioritization. Evolutionary Applications 3: 1-16.


H.A. Thomassen, K.C. Jones, J.P. Pollinger, T.B. Smith. Characterization of novel microsatellite loci for Myzomela cardinalis and M. rubrata honeyeaters, and cross-amplification in other species. Conservation Genetics Resources DOI 10.1111/j.1752-4571.2009.00093.x.


H.A. Thomassen, S. Gea, S. Maas, R.G. Bout, J.J.J. Dirckx, W.F. Decraemer, G.D.E. Povel . Do Swiftlets have an ear for echolocation? Functional morphology of Swiftlets’ middle ears. Hearing Research 225: 25-37.


H.A. Thomassen, G.D.E. Povel. Comparative and phylogenetic analysis of the echo-clicks and social vocalizations of Swiftlets (Aves: Apodidae). Biological Journal of the Linnean Society 88: 631-643.


H.A. Thomassen, R.-J. den Tex, M.A.G. de Bakker, G.D.E. Povel. Phylogenetic relationship amongst Swifts and Swiftlets; a multilocus approach. Molecular Phylogenetics and Evolution 37: 264-277.


H.A. Thomassen. Elemans, C.P.H. 2004: How do birds sing? Sound analysis - mechanical modelling - muscular control. (Ph.D. dissertation review) Ardea 93: 145-146.

H.A. Thomassen, U.M. Djasim, G.D.E. Povel. Echoclick design in Swiftlets: single and double clicks. Ibis 146: 173-174.


H.A. Thomassen, A.T. Wiersema, M.A.G. de Bakker, P. de Knijff, E. Hetebrij, G.D.E. Povel. A new phylogeny of swiftlets (Aves: Apodidae) based on cytochrome-b DNA. Molecular Phylogenetics and Evolution 29: 86-93.