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2024​

• de Flamingh, A., Tom P. Gnoske, Julian C. Kerbis Peterhans, Velizar Simeonovski, Nduhiu Gitahi, Ogeto Mwebi, Bernard R. Agwanda, Julian M. Catchen, Alfred L. Roca, and Ripan Singh Malhi. (In Press - Current Biology) Compacted Hair in Broken Carnivore Teeth Reveal Dietary Prey of Historic Lions. Available at SSRN 4839630.

• First Rider, D., Crop Eared Wolf, A., Murray, J., de Flamingh, A., Lanoe, F., DeGiorgio, M., Lindo, J., Zedeno, M.N., Malhi, R.S. & Tsosie, C. (2024) Genomic analyses correspond with deep persistence of Blackfoot Confederacy from glacial times. Science Advances 10.14 (2024): eadl6595

• de Flamingh, A., Gnoske, T., Rivera-Colón, A.G., Simeonovski, V., Kerbis Peterhans, J.C., Yamaguchi, N., Witt, K.E., Catchen, J., Roca, A.L. & Malhi, R.S. (2024) Genomic analysis supports Cape Lion population connectivity prior to colonial eradication and extinction. Journal of Heredity (Editors Choice & Cover) 115.2 (2024): 155-165. https://doi.org/10.1093/jhered/esad081

• Thomas, A.E., Hill, M.E., Stricker, L., Lavin, M., Givens, D., de Flamingh, A., Witt, K.E., Malhi, R.S. and Kitchen, A. (2024) The Dogs of Tsenacomoco: Ancient DNA Reveals Presence of Local Dogs at Jamestown Colony in Early Seventeenth Century. American Antiquity (2024): 1-19.

• de Flamingh, A., Alexander, N., Schooley, R.L., Guldemondt, R., Malhi, R.S., van Aarde, R.J. & Roca, A.L.(2024) Integrating habitat use modeling with gene flow improves delineation of landscape connections among African savanna elephants. Biodiversity Conservation 33: 3231-3252.

• Alexander, N., de Flamingh, A., Cosentino, B.J. & Schooley, R.L. (2024) Phylogenetic assessment within a species complex of a subterranean rodent (Geomys bursarius) with conservation implications for an isolated subspecies.​ Journal of Heredity, 115(5), 565-574

• Lanoë, F., Reuther, J., Fields, S., […], de Flamingh, A., Kemp, B.M., Malhi, R.S., Witt, K. (Accepted pending minor revision; Science Advances) Late Pleistocene onset of mutualistic human/canid (Canis spp.) relationships in subarctic Alaska.

​2023

• Rogers-LaVanne, M.P., Bader, A., de Flamingh, A. […]  Ripan S. Malhi (2023) Association between gene methylation and experiences of historical trauma in Alaska Native Peoples. International Journal for Equity in Health, 22, 182. https://doi.org/10.1186/s12939-023-01967-7

• Perrin-Stowe, T., Coon, J.J., Lynch, L.R., de Flamingh, A., Alexander, N.B., Golebie, E., Swartz, T.M., Bader, A.C., & Halsey, S.J. (2023) “Where do I even start?” Recommendations for faculty diversifying syllabi in the Life and Environmental Sciences. Ecology and Evolution, 13(1), e9719. https://doi.org/10.1002/ece3.9719 ** top 5% of all research outputs (altmetric)

• de Flamingh, A., Rivera-Colón, A. G., Gnoske, T. P., Kerbis Peterhans, J. C., Catchen, J., Malhi, R. S., & Roca, A. L. (2023). Numt Parser: Automated identification and removal of nuclear mitochondrial pseudogenes (numts) for accurate mitochondrial genome reconstruction in Panthera. Journal of Heredity, 114(2), 120-130. https://doi.org/10.1093/jhered/esac065

• de Flamingh, A., Ishida, Y., Pečnerová, P., Vilchis, S., Siegismund, H. R., Malhi, R. S., & Roca, A. L. (2023). Combining methods for non-invasive fecal DNA enables whole genome and metagenomic analyses in wildlife biology. Frontiers in Genetics, 13. https://doi.org/10.3389/fgene.2022.1021004 ** top 5% of all research outputs (altmetric)

​2022

• Severson, A.L., Byrd, B.F., Mallott, E.K., Owings, A.C., DeGiorgio, M., de Flamingh, A., Nijmeh, C., Arellano, M., Leventhal, A., Rosenberg, N.A. & Malhi, R.S. (2022) Ancient and modern genomics of the Ohlone Indigenous population of California. PNAS: Proceedings of the National Academy of Sciences 119: e2111533119. https://doi.org/10.1073/pnas.2111533119 ** top 5% of all research outputs (altmetric)

• Bautista, C., Alfuraiji, N., Drangowska-Way, A., Ganwani, K., de Flamingh, A. & Bourne, P. (2022) Ten simple rules for improving communication among scientists. PLOS Computational Biology 18.6:e1010130

• Yarlagadda, K., Zachwieja, A., de Flamingh, A., Phungviwatnikul, T., Rivera-Colón, A., Roseman, C., Shackleford, L., Swanson, K., Malhi, R. (2022) Non-Western Canid Sampling Provides Novel Insights into Pre-Industrial Microbiomes. In Press, Proceedings of the Royal Society B: Biological Sciences

​2021

• de Flamingh, A., Coutu, A., Sealy, J., Chirikure, S., Bastos, A.D.S., Libanda-Mubusisi, N.M., Malhi, R.S., Roca, A.L. (2021) Sourcing Elephant Ivory from a Sixteenth-Century Portuguese Shipwreck. Current Biology 31: 621-628, DOI:https://doi.org/10.1016/j.cub.2020.10.086

​2020

• Buonasera, T., Eerkens, J., de Flamingh, A., Engbring, L., Yip, J., Li, H., Haas, R., DiGiuseppe, D., Grant, D., Salemi, M., Nijmeh, C., Arellano, M., Leventhal, A., Phinney, B., Byrd, B., Malhi, R.S. & Parker, G. (2020) A Comparison of Proteomic, Genomic, and Osteological Methods of Archaeological Sex Estimation. Scientific Reports 10:11897 DOI: https://doi.org/10.1038/s41598-020-68550-w

• Borthwick, R., de Flamingh, A., Hesselbarth, M., Parandhaman, A., Holland, J., Wagner, H.H., and Abdel Moniem, H.E. (2020) Alternative quantifications of landscape complementarity to model gene flow in Banded Longhorn Beetle (Typocerus velutinus velutinus). Frontiers in Genetics, 11: 307 DOI: https://doi.org/10.3389/fgene.2020.00307

• de Flamingh, A., Coutu, A., Chirikure, S., Roca, A.L. & Malhi, R.S. (2020) Accurate sex identification of ancient elephant and other animal remains using low coverage DNA shotgun sequencing data G3: Genes, Genomes, Genetics, 10: 1427–1432,  DOI: https://doi.org/10.1534/g3.119.400833

​2019

• Zhao, K., Ishida, Y., Green, C.E., Davidson, A.G., Sitam, F.A.T., Donnelly, C.L., de Flamingh, A., Perrin-Stowe, T.I.N., Bourgeois, S., Brandt, A.L., Mundis, S.J., van Aarde, R.J., Greenberg, J.A., Malhi, R.S., Georgiadis, N.J., McEwing, R. and Roca, A.L. (2019) Loxodonta Localizer: a software tool for inferring the provenance of African elephants and their ivory using mitochondrial DNA, Journal of Heredity 110 (7): 761-768 DOI: https://doi.org/10.1093/jhered/esz058

​2018 

• de Flamingh, A., Roca, A.L. and van Aarde, R. (2018) Origin and phylogeography of African savannah elephants (Loxodonta africana) in Kruger and nearby parks in southern Africa. Conservation Genetics, 19:155-167 DOI: https://doi.org/10.1007/s10592-017-1005-z

• de Flamingh, A., Malhi, R.S., Roca, A.L. (2018) Species identification and mitochondrial genomes of ancient fish bones from the Riverine Kachemak tradition of the Kenai Peninsula, Alaska. Mitochondrial DNA: Part B, 3: 409-411 DOI:  https://doi.org/10.1080/23802359.2018.1456371​

​Pre-PhD Graduate studies​​

• de Flamingh, A., Sole, C.L. and van Aarde, R. (2015) Genetic evidence for spatial structuring in a continuous African elephant (Loxodonta africana) population, Conservation Genetics 16:613-623 DOI: https://doi.org/10.1007/s10592-014-0686-9

• de Flamingh, A., Sole, C.L. and van Aarde, R. (2014) Microsatellite repeat motif and amplicon length affect amplification success of degraded faecal DNA. Conservation Genetics Resources, 6:503-505 DOI: https://doi.org/10.1007/s12686-014-0160-5

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​Books & Book Chapters

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• van Aarde, R.J., de Flamingh, A., Fourie, J., Guldemond, R., Lee, T., Mole, M., Norgaard, C., Ntumi, C., Olivier, P., D’Araujo, S.R., Roever, C., Trimble, M., & Young, K. 2013. Elephants: A way forward. Conservation Ecology Research Unit, University of Pretoria and the International Fund for Animal Welfare, Cape Town, South Africa. (https://issuu.com/ifaw/docs/a_way_forward_ceru-ifaw)