In Review

Boyd, B.M., N.-P. Nguyen, J.M. Allen, R.M. Waterhouse, K.B. Vo, A.D. Sweet, D.H. Clayton, S.E. Bush, M.D. Shapiro, and K.P. Johnson. Long-distance dispersal and host switching facilitate speciation by parasitic insects. Biology Letters. In Review.

Smith, A.D., M.J. Kamiński, K. Kanda, A.D. Sweet, J.L. Betancourt, C.A. Holmgren, E. Hempel, F. Alberti, M. Hofreiter. Recovery and analysis of ancient insect DNA from subfossil packrat middens using high-throughput sequencing. Molecular Biology and Evolution. In Review.


Sweet, A.D., K.P. Johnson, Y. Cao, R.S. de Moya, R.K. Skinner, M. Tan, S. Virrueta-Herrera, and S.L. Cameron. Structure, gene order, and nucleotide composition of mitochondrial genomes in parasitic lice from Amblycera. Gene. In Press.

Doña, J. A.D. Sweet, and K.P. Johnson. 2020. Comparing rates of introgression in parasitic feather lice with differing dispersal capabilities. Communications Biology. 3: 610.

de Moya, R.S., K. Yoshizawa, K.K.O. Walden, A.D. Sweet, C.H. Dietrich, and K.P. Johnson. Phylogenomics of parasitic and non-parasitic lice (Insecta: Psocodea): exploring compositional bias in Next Generation datasets. Systematic Biology. In Press.

Najer, T., I. Papousek, O. Sychra, A. Sweet, K. Johnson. 2020. Combining nuclear and mitochondrial loci provides phylogenetic information in the Philopterus complex of lice. Journal of Medical Entomology.

Sweet, A.D., R.E. Wilson, S.A. Sonsthagen, and K.P. Johnson. 2020. Lousy grouse: comparing evolutionary patterns in Alaska galliform lice to understand host evolution and host-parasite interactions. Ecology and Evolution. 10(15): 8379-8393.

Sweet, A.D., K.P. Johnson, and S.L. Cameron. 2020. Mitochondrial genomes of Columbicola feather lice are highly fragmented, indicating repeated evolution of minicircle-type genomes in parasitic lice. PeerJ. 8: e8759.

Virrueta-Herrera, S., A.D. Sweet, J.M. Allen, K.K.O. Walden, J.D. Weckstein, and K.P. Johnson. 2020. Extensive in situ radiation of feather lice on tinamous. Proceedings of the Royal Society B. 287: 20193005.

Tyagi, K., R. Chakraborty, S.L. Cameron, A.D. Sweet, K. Chandra, and V. Kumar. 2020. So few thrips, so many mitochondrial genome rearrangements: Expanded sampling reveals extensive genomic evolution within Thysanoptera. Scientific Reports. 10: 695.

Skinner, R.K., C.H. Dietrich, K.K.O. Walden, E. Gordon, A.D. Sweet, L. Podsiadlowski, M. Petersen, C. Simon, D.M. Takiya, and K.P. Johnson. Phylogenomics of Auchenorrhynca (Insecta: Hemiptera) using transcriptomes. Systematic Entomology. 45(1): 85-113.

de Moya, R.S., J.M. Allen, A.D. Sweet, K.K.O. Walden, R.L. Palma, V.S. Smith, S.L. Cameron, M.P. Valim, T.D. Galloway, J.D. Weckstein, and K.P. Johnson. 2019. Extensive host-switching of avian lice following the Cretaceous-Paleogene mass extinction. Communications Biology. 2: 445.

de Moya, R.S., Weirauch, C., A.D. Sweet, R. Skinner, K.K.O. Walden, D.R. Swanson, C. Dietrich, and K.P. Johnson. 2019. Deep instability in the phylogenetic backbone of Heteroptera is only partly overcome by transcriptome-based phylogenomics. Insect Systematics and Diversity. 3: 7.

de Moya, R.S, J.K. Brown, A.D. Sweet, K.K.O. Walden, J.R. Paredes-Montero, R.M. Waterhouse, and K.P. Johnson. 2019. Nuclear orthologs derived from whole genome sequencing indicate cryptic diversity in the Bemisia tabaci (Insecta: Aleyrodidae) complex of whiteflies. Diversity. 11: 151.

Nowak, J.E.*†, A.D. Sweet†, J.D. Weckstein, and K.P. Johnson. 2019. A molecular phylogenetic analysis of the genera of fruit doves and allies using dense taxonomic sampling. Illinois Natural History Survey Bulletin. 42: 2019001.
        † Contributed equally to the work


Leonardi, M.S., S. Virrueta Herrera, A. Sweet, J. Negrete, and K.P. Johnson. 2019. Phylogenomics and population genomics of seal lice. Systematic Entomology. 44(4): 699-708.

Catanach, T.A.†, A.D. Sweet†, N.D. Nguyen, R.M. Peery, A.H. Debevec, A.K. Thomer, A.C. Owings, B.M. Boyd, A.D. Katz, F.N. Soto-Adames, and J.M. Allen. 2019. Fully automated sequence alignment methods are comparable to, and much faster than, traditional methods in large data sets: an example with hepatitis B virus. PeerJ. 7:e6142.

† Contributed equally to the work

Sweet, A.D. and K.P. Johnson. 2018. The role of parasite dispersal in shaping a host-parasite system at multiple evolutionary scales. Molecular Ecology. 27: 5104-5119.

Johnson, K.P., N. Nguyen, A.D. Sweet, B.M. Boyd, T. Warnow, and J.M. Allen. 2018. Simultaneous radiation of bird and mammal lice following the K-Pg boundary. Biology Letters. 14(5). 

Soto, J., G. Londono, K.P. Johnson, J.D. Weckstein, J.E. Avendano, J. Jankowski, T.A. Catanach, A.D. Sweet, and J.M. Allen. 2018. Composition and distribution of lice (Insecta: Phthiraptera) on Colombian and Peruvian birds: New data on host-louse association in the Neotropics. Biodiversity Data Journal. 6: e21635.

Sangster, G., A.D. Sweet, and K.P. Johnson. 2018. Paraclaravis, a new genus for the Purple-winged and Maroon-chested Ground-doves (Aves: Columbidae). Zootaxa. 4461(1): 134-140.

Sweet, A.D., S.E. Bush, D.R. Gustafsson, J.M. Allen, E. DiBlasi, H.R. Skeen, J.D. Weckstein, and K.P. Johnson. 2018. Host and parasite morphology influence congruence between host and parasite phylogenies. International Journal for Parasitology. 48: 641-648.

Sweet, A.D., B.M. Boyd, J.M. Allen, S.M. Villa, M.P. Valim, J.L. Rivera-Parra, R.E. Wilson, and K.P. Johnson. 2018. Integrating phylogenomic and population genomic patterns in avian lice provides a more complete picture of parasite evolution. Evolution. 72(1): 95-112.


Yoshizawa, K., K.P. Johnson, A.D. Sweet, I. Yao, R. Ferreira, and S. Cameron. Mitochondrial phylogenomics and genome rearrangements in the barklice (Insecta: Psocodea). 2017. Molecular Phylogenetics and Evolution. 119: 118-127.

Dona, J., A.D. Sweet, K.P. Johnson, D. Serrano, S. Mironov, and R. Jovani. 2017. Cophylogenetic analyses reveal extensive host-shift speciation in a highly specialized and host-specific symbiont system. Molecular Phylogenetics and Evolution. 115: 190-196.
Sweet, A.D., R.T. Chesser, and K.P. Johnson. 2017. Comparative cophylogenetics of Australian phabine pigeons and doves (Aves: Columbidae) and their feather lice (Insecta: Phthiraptera). International Journal for Parasitology. 47: 347-356.
Boyd, B.M., J.M. Allen., N. Nguyen, A.D. Sweet, T. Warnow, M.D. Shapiro, S.M. Villa, S.E. Bush, D.H. Clayton, and K.P. Johnson. Phylogenomics using target-restricted assembly resolves intra-generic relationships of parasitic lice (Phthiraptera: Columbicola). Systematic Biology.
Sweet, A.D., J.D. Maddox, and K.P. Johnson. 2017. A complete molecular phylogeny of Claravis confirms its paraphyly within small New World ground-doves (Aves: Peristerinae) and implies multiple plumage state transitions. Journal of Avian Biology. 48: 459-464.
Sweet, A.D. and K.P. Johnson. 2016. Cophylogenetic analysis of New World ground-doves (Aves: Columbidae) and their parasitic wing lice (Insecta: Phthiraptera: Columbicola). Molecular Phylogenetics and Evolution. 103: 122-132.
Boyd, B.M., J.M. Allen, R. Koga, T. Fukatsu, A.D. Sweet, K.P. Johnson, and D.L. Reed. 2016. Two bacteria, Sodalis and Rickettsia, associated with the seal louse Proechinophthirus fluctus (Phthiraptera: Anoplura). Applied and Environmental Microbiology. 82(11): 3185-3197.
Sweet, A.D., B.M. Boyd, and K.P. Johnson. 2016. Cophylogenetic patterns are uncorrelated between two lineages of parasites on the same hosts. Biological Journal of the Linnean Society. 118(4): 813-828.
Escalante, G.C.*, A.D. Sweet, K.G. McCracken, D. Gustaffson, R. Wilson, and K.P. Johnson. 2016. Patterns of cryptic host specificity in duck lice based on molecular data. Medical and Veterinary Entomology. 30(2): 200-208.
Sweet, A.D. and K.P. Johnson. 2015. Patterns of diversification in small New World ground doves are consistent with major geologic events. The Auk. 132: 300-312.
Sweet, A.D., J.M. Allen, and K.P. Johnson. 2014. Novel primers from informative nuclear loci for louse molecular phylogenetics (Insecta: Phthiraptera). Journal of Medical Entomology. 51(6): 1122-1126.