Publications

2019 Schnorr, S.L., C.A. Hofman, S.R. Netshifhefhe, F.D. Duncan, T.P Honap, J. Lesnik, C.M. Lewis. Taxonomic features and comparisons of the edible fungus-farming termite microbiome and implications for human evolution (Macrotermes falciger; M. natalensis). BMC Microbiology. (19) 164 doi: 10.1186/s12866-019-1540-5

2019 Austin, R.M.*, S. Sholts*, L. Williams, L. Kistler, C.A. Hofman. Opinion: To curate the molecular past, museums need a carefully considered set of best practices. (*co-first authors). Proceedings of the National Academy of Sciences. doi: 10.1073/pnas.1822038116

2019 Hofman, C.A, and C. Warinner. Ancient DNA 101: An introductory guide in the era of high-throughput sequencing. SAA Record.

2019 Rick, T.C., C.A. Hofman, L. Reeder-Myers. Why Translocate? Evaluating the Reasons for Ancient Human Translocation of Wildlife to California’s Islands. In An Archaeology of Abundance: Re-evaluating the Marginality of California’s Islands, edited by Kristina Gill, Mikael Fauvelle, and Jon Erlandson.

2018 Lindo, J., R. Haas, C.A. Hofman, M. Apata, M. Moraga, R.Verdugo, J.T. Watson, C. Viviano Llave, D. Witonsky, E. Vargas Pacheco, C. Beall, C. Warinner, J. Novembre, M. Aldenderfer, A. Di Rienzo. The genetic prehistory of the Andean highlands 7,000 Years BP though European contact. Science Advances (4)11. doi: 10.1126/sciadv.aau4921

2018 Ziesemer, K.A., J. Ramos-Madrigal, A.E. Mann, B.W. Brandt, K. Sankaranarayanan, A.T. Ozga, M. Hoogland, C.A. Hofman, D.C. Salazar-García, B. Frohlich, G.R. Milner, A.C. Stone, M. Aldenderfer, C.M. Lewis, Jr., C.L. Hofman, C. Warinner, H. Schroeder. The efficacy of whole human genome capture on ancient dental calculus and dentin. American Journal of Physical Anthropology. doi: 10.1002/ajpa.23763

2018 Hofman, C.A, T.C. Rick, J.M Erlandson, L. Reeder-Myers, A.J. Welch, M. Buckley. Collagen Fingerprinting and the Earliest Marine Mammal Hunting in North America. Scientific Reports (8)10014 doi: 10.1038/s41598-018-28224-0

2018 Hendy, J., C. Warinner, A. Bouwman, M. Collins, S. Fiddyment, R. Fischer, R. Hagan, C.A. Hofman, M. Holst, E. Chaves, L. Klaus, G. Larson, M. Mackie, K. McGrath, A. Mundorff, A. Radini, H. Rao, C. Trachsel, I. Velsko, C. Speller. Proteomic Evidence of Dietary Sources in Ancient Dental Calculus. Proceedings B (285)1883. doi: 10.1098/rspb.2018.0977

2018 Mann, A.E., S Sabin, K. Ziesemer, Å.J. Vågene, H. Schroeder, A.T. Ozga, K. Sankaranarayanan, C.A. Hofman, J. Fellows Yates, D.C. Salazar-García, B. Frohlich, M. Aldenderfer, M. Hoogland, C. Read, G. Milner, A.C. Stone, C.M. Lewis, Jr., J Krause1, C. Hofman, K. Bos, C. Warinner. Differential preservation of endogenous human and microbial DNA in dental calculus and dentin. Scientific Reports (8)19822 doi: 10.1038/s41598-018-28091-9.

2017 Morales-Arce, A.Y., C.A. Hofman, A. Duggan, M.A. Katzenberg, G. McCafferty, C. Warinner. Successful reconstruction of whole mitochondrial genomes from ancient Central America and northwestern Mexico. Scientific Reports, (7)18100. doi: 10.1038/s41598-017-18356-0

2017. Shirazi, S., T.C. Rick, J.E. Erlandson, C.A. Hofman. A tale of two mice: A trans-Holocene record of Peromyscus nesodytes and P. maniculatus at Daisy Cave, San Miguel Island, California. Holocene. doi: 10.1177/0959683617744266

2017 Hofman, C.A, and T.C. Rick. Ancient Biological Invasions and Island Ecosystems: Tracking Translocations of Wild Plants and Animals. Journal of Archaeological Research. Early Edition. PDF.

2017 Hofman, C.A.*, C. West*, S. Ebbert, S. Shirazi, S. Dunning, J.E. Maldonado. Integrating archaeology and ancient DNA analysis to address invasive species colonization in the Gulf of Alaska. Conservation Biology. Early Edition. (*co-first authors) PDF.

2016 Hofman, C.A , T.C. Rick, J.E. Maldonado, P.W. Collins, J.M Erlandson, W.C. Funk, R.C. Fleischer, C. Smith, T.S. Sillett, K.Ralls, W. Teeter, R. Vellanoweth, S.D. Newsome. Tracking the diet of an island canid across 7300 years of human cultural and environmental change. Quaternary Science Reviews. 146:147-160.

2016 Jeong C., A.T. Ozga, D. Witonsky, H. Malmström, H. Edlund, C.A. Hofman, R. Hagan, M. Jakobsson, C.M. Lewis, Jr., M. Aldenderfer, A. Di Rienzo, C. Warinner. Long-term genetic stability and a high altitude East Asian origin for the peoples of the high valleys of the Himalayan arc. PNAS. Early Edition.

2016 Rick, T.C., L. Reeder-Myers, C.A. Hofman, D. Breitburg, R. Lockwood, G. Henkes, L. Kellogg, D. Lowery, M. Luckenbach, R.L. Mann, M. Ogburn, M.J. Southworth, J. Wah, J. Wesson, A.H. Hines. Millennial-Scale Sustainability of the Chesapeake Bay Native American Oyster Fishery. PNAS. Early Edition.

2016 West, C.F., S.M. Dunning, S. Ebbert, C.A. Hofman, P.A. Saltonstall, J. Withrow. Archaeology and Invasive Species Management: The Chirikof Island Project. Journal of Island and Coastal Archaeology. 00:1-5.

2016 Funk, W.C, R.E. Lovich, P.A. Hohenlohe, C.A. Hofman, S.A. Morrison, T.S. Sillett, C.K. Ghalambor, J.E. Maldonado, T.C. Rick, M.D. Day, N.R. Polato, S.W. Fitzpatrick, T.J. Coonan, K.R. Crooks, A. Dillon, D.K. Garcelon, J.L. King, C.L. Boser, L.M. Lyren, E.E. Boydston, N. Gould, W.F. Andelt. Drift drives divergence: genomic analysis of the evolutionary mechanisms causing genetic differentiation in the island fox (Urocyon littoralis). Molecular Ecology. Early View. PDF

2016 Ozga, Andrew T., Maria A. Nieves-Colon, Tanvi P. Honap, Krithivasan Sankaranarayanan, Courtney A. Hofman, George R. Milner, Cecil M. Lewis Jr., Anne C. Stone, and Christina Warinner. Successful Enrichment and Recovery of Whole Mitochondrial Genomes From Ancient Human Dental Calculus. American Journal of Physical Anthropology. Early View. PDF

2015 Hofman, Courtney A., Torben C. Rick, Robert Fleischer, Jesus Maldonado. Conservation Archaeogenomics: Ancient DNA and Biodiversity in the Anthropocene. Trends in Ecology and Evolution 30:9, 540-549. PDF

2015 Hofman, Courtney A., Torben C. Rick, Melissa Hawkins, W. Chris Funk, Katherine Ralls, Christina Boser, Paul W. Collins, Tim Coonan, Julie King, Scott Morrison, Seth D. Newsome, T. Scott Sillett, Robert Fleischer, Jesus Maldonado. Mitochondrial genomes suggest rapid evolution of dwarf California Channel Islands foxes (Urocyon littoralis). PLOS One 10:2. PDF

2015 Hawkin, Melissa, Courtney A. Hofman, Taylor Callicrate, Molly McDonough, Mirian Tsuchiya, Eliecer Gutierrez, Kristofer Helgen, Jesus Maldonado. In Solution Hybridization for Mammalian Mitogenome enrichment: Pros, Cons, and Challenges Associated with Multiplexing Degraded DNA. Molecular Ecology Resources Early View. PDF

2014 Rick, Torben C., T. Scott Sillett, Cameron K. Ghalambor, Courtney A. Hofman, Katherine Ralls, R. Scott Anderson, Christina Boser, Todd J. Braje, Dan Cayan, Terry Chesser, Paul W. Collins, Jon M. Erlandson, Kate R. Faulkner, W. Chris Funk, Robert Fleischer, Ann Huston, Julie King, Lyndal Laughrin, Kathryn McEachern, Jesus Maldonado, Daniel R. Muhs, Seth D. Newsome, Leslie Reeder-Myers, Christopher Still, Scott A. Morrison. Ecological Change on California’s Channel Islands from the Pleistocene to the Anthropocene. BioScience, 64:8, 680-692. PDF

2014 Hofman, Courtney A., Torben C. Rick. The Dogs of CA-SRI-2: Zooarchaeology, Diet and Context  of Canis familiaris from Santa Rosa Island, California, USA.  Ethnobiology Letters 5, 65-76. PDF

2012  Rick,Torben C., Courtney A. Hofman, Todd J. Braje, Jesus Maldonado, T. Scott Sillett, Kevin Danchisko, Jon M. Erlandson. Flightless ducks, giant mice, and pygmy mammoths: Late Quaternary extinctions on California’s Channel Islands. World Archaeology 44:1, 3-20. PDF