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2. Grey wolf genomic history reveals a dual ancestry of dogs

Author

Bergström, Anders, Stanton, David WG, Taron, Ulrike H, Frantz, Laurent, Sinding, Mikkel-Holger S, Ersmark, Erik, Pfrengle, Saskia, Cassatt-Johnstone, Molly, Lebrasseur, Ophélie, Girdland-Flink, Linus, Fernandes, Daniel M, Ollivier, Morgane, Speidel, Leo, Gopalakrishnan, Shyam, Westbury, Michael V, Ramos-Madrigal, Jazmin, Feuerborn, Tatiana R, Reiter, Ella, Gretzinger, Joscha, Münzel, Susanne C, Swali, Pooja, Conard, Nicholas J, Carøe, Christian, Haile, James, Linderholm, Anna, Androsov, Semyon, Barnes, Ian, Baumann, Chris, Benecke, Norbert, Bocherens, Hervé, Brace, Selina, Carden, Ruth F, Drucker, Dorothée G, Fedorov, Sergey, Gasparik, Mihály, Germonpré, Mietje, Grigoriev, Semyon, Groves, Pam, Hertwig, Stefan T, Ivanova, Varvara V, Janssens, Luc, Jennings, Richard P, Kasparov, Aleksei K, Kirillova, Irina V, Kurmaniyazov, Islam, Kuzmin, Yaroslav V, Kosintsev, Pavel A, Lázničková-Galetová, Martina, Leduc, Charlotte, Nikolskiy, Pavel, Nussbaumer, Marc, O’Drisceoil, Cóilín, Orlando, Ludovic, Outram, Alan, Pavlova, Elena Y, Perri, Angela R, Pilot, Małgorzata, Pitulko, Vladimir V, Plotnikov, Valerii V, Protopopov, Albert V, Rehazek, André, Sablin, Mikhail, Seguin-Orlando, Andaine, Storå, Jan, Verjux, Christian, Zaibert, Victor F, Zazula, Grant, Crombé, Philippe, Hansen, Anders J, Willerslev, Eske, Leonard, Jennifer A, Götherström, Anders, Pinhasi, Ron, Schuenemann, Verena J, Hofreiter, Michael, Gilbert, M Thomas P, Shapiro, Beth, Larson, Greger, Krause, Johannes, Dalén, Love, and Skoglund, Pontus

Subjects
Africa, Animals, DNA, Ancient, Dogs, Domestication, Europe, Genome, Genomics, History, Ancient, Middle East, Mutation, North America, Phylogeny, Selection, Genetic, Siberia, Tumor Suppressor Proteins, Wolves, General Science & Technology
Abstract

The grey wolf (Canis lupus) was the first species to give rise to a domestic population, and they remained widespread throughout the last Ice Age when many other large mammal species went extinct. Little is known, however, about the history and possible extinction of past wolf populations or when and where the wolf progenitors of the present-day dog lineage (Canis familiaris) lived1-8. Here we analysed 72 ancient wolf genomes spanning the last 100,000 years from Europe, Siberia and North America. We found that wolf populations were highly connected throughout the Late Pleistocene, with levels of differentiation an order of magnitude lower than they are today. This population connectivity allowed us to detect natural selection across the time series, including rapid fixation of mutations in the gene IFT88 40,000-30,000 years ago. We show that dogs are overall more closely related to ancient wolves from eastern Eurasia than to those from western Eurasia, suggesting a domestication process in the east. However, we also found that dogs in the Near East and Africa derive up to half of their ancestry from a distinct population related to modern southwest Eurasian wolves, reflecting either an independent domestication process or admixture from local wolves. None of the analysed ancient wolf genomes is a direct match for either of these dog ancestries, meaning that the exact progenitor populations remain to be located.

Published
2022

3. Modern Siberian dog ancestry was shaped by several thousand years of Eurasian-wide trade and human dispersal

Author

Feuerborn, Tatiana R., Carmagnini, Alberto, Losey, Robert J., Nomokonova, Tatiana, Askeyev, Arthur, Askeyev, Igor, Askeyev, Oleg, Antipina, Ekaterina E., Appelt, Martin, Bachura, Olga P., Beglane, Fiona, Bradley, Daniel G., Daly, Kevin G., Gopalakrishnan, Shyam, Gregersen, Kristian Murphy, Guo, Chunxue, Gusev, Andrei V., Jones, Carleton, Kosintsev, Pavel A., Kuzmin, Yaroslav V., Mattiangeli, Valeria, Perri, Angela R., Plekhanov, Andrei V., Ramos-Madrigal, Jazmín, Schmidt, Anne Lisbeth, Shaymuratova, Dilyara, Smith, Oliver, Yavorskaya, Lilia V., Zhang, Guojie, Willerslev, Eske, Meldgaard, Morten, Gilbert, M. Thomas P., Larson, Greger, Dalén, Love, Hansen, Anders J., Sinding, Mikkel-Holger S., and Frantz, Laurent

Published
2021

5. Dire wolves were the last of an ancient New World canid lineage

Author

Perri, Angela R., Mitchell, Kieren J., Mouton, Alice, Álvarez-Carretero, Sandra, Hulme-Beaman, Ardern, Haile, James, Jamieson, Alexandra, Meachen, Julie, Lin, Audrey T., Schubert, Blaine W., Ameen, Carly, Antipina, Ekaterina E., Bover, Pere, Brace, Selina, Carmagnini, Alberto, Carøe, Christian, Samaniego Castruita, Jose A., Chatters, James C., Dobney, Keith, dos Reis, Mario, Evin, Allowen, Gaubert, Philippe, Gopalakrishnan, Shyam, Gower, Graham, Heiniger, Holly, Helgen, Kristofer M., Kapp, Josh, Kosintsev, Pavel A., Linderholm, Anna, Ozga, Andrew T., Presslee, Samantha, Salis, Alexander T., Saremi, Nedda F., Shew, Colin, Skerry, Katherine, Taranenko, Dmitry E., Thompson, Mary, Sablin, Mikhail V., Kuzmin, Yaroslav V., Collins, Matthew J., Sinding, Mikkel-Holger S., Gilbert, M. Thomas P., Stone, Anne C., Shapiro, Beth, Van Valkenburgh, Blaire, Wayne, Robert K., Larson, Greger, Cooper, Alan, and Frantz, Laurent A. F.

Published
2021
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11. The evolutionary history of dogs in the Americas

Author

Leathlobhair, Máire Ní, Perri, Angela R., Irving-Pease, Evan K., Witt, Kelsey E., Linderholm, Anna, Haile, James, Lebrasseur, Ophelie, Ameen, Carly, Blick, Jeffrey, Boyko, Adam R., Brace, Selina, Cortes, Yahaira Nunes, Crockford, Susan J., Devault, Alison, Dimopoulos, Evangelos A., Eldridge, Morley, Enk, Jacob, Gopalakrishnan, Shyam, Gori, Kevin, Grimes, Vaughan, Guiry, Eric, Hansen, Anders J., Hulme-Beaman, Ardern, Johnson, John, Kitchen, Andrew, Kasparov, Aleksei K., Kwon, Young-Mi, Nikolskiy, Pavel A., Lope, Carlos Peraza, Manin, Aurélie, Martin, Terrance, Meyer, Michael, Myers, Kelsey Noack, Omura, Mark, Rouillard, Jean-Marie, Pavlova, Elena Y., Sciulli, Paul, Sinding, Mikkel-Holger S., Strakova, Andrea, Ivanova, Varvara V., Widga, Christopher, Willerslev, Eske, Pitulko, Vladimir V., Barnes, Ian, Gilbert, M. Thomas P., Dobney, Keith M., Malhi, Ripan S., Murchison, Elizabeth P., Larson, Greger, and Frantz, Laurent A. F.

Published
2018

21. Hunting dogs as environmental adaptations in Jomon Japan

Author

Perri, Angela R.

Subjects
Anthropological research, Jomon culture -- Research, Hunting and gathering societies -- Research -- Rites, ceremonies and celebrations, Hunting dogs -- Environmental aspects -- Usage, Hunting -- Environmental aspects, Anthropology/archeology/folklore
Abstract

Was the use of hunting dogs an adaptation to the post-glacial deciduous forest environment in the northern temperate zone? Dog burials in Jomon Japan appear closely associated with a specific environment and with a related subsistence economy involving the hunting of forest ungulates such as sika deer and wild boar. Dogs were valued as important hunting technology, able to track and retrieve wounded animals in difficult, forested environments, or holding them until the hunter made the final kill. Greater numbers of dog burials during the later Jomon phases may reflect a growing dependence on hunting dogs to extract ungulate prey from forests in an increasingly resource-strained seasonal environment. Keywords: Japan, Jomon, dog burial, hunting, Introduction The Jomon culture of Japan (c. 12 500-2350 BP; Table 1) is considered one of the best contexts for analysing complex prehistoric hunter-gatherer groups (Rowley-Conwy 2001). Although often discussed [...]

Published
2016
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22. Grey wolf genomic history reveals a dual ancestry of dogs

Author

Bergström, A., Stanton, D. W. G., Taron, U. H., Frantz, L., Sinding, M. -H. S., Ersmark, E., Pfrengle, S., Cassatt-Johnstone, M., Lebrasseur, O., Girdland-Flink, L., Fernandes, D. M., Ollivier, M., Speidel, L., Gopalakrishnan, S., Westbury, M. V., Ramos-Madrigal, J., Feuerborn, T. R., Reiter, E., Gretzinger, J., Münzel, S. C., Swali, P., Conard, N. J., Carøe, C., Haile, J., Linderholm, A., Androsov, S., Barnes, I., Baumann, C., Benecke, N., Bocherens, H., Brace, S., Carden, R. F., Drucker, D. G., Fedorov, S., Gasparik, M., Germonpré, M., Grigoriev, S., Groves, P., Hertwig, S. T., Ivanova, V. V., Janssens, L., Jennings, R. P., Kasparov, A. K., Kirillova, I. V., Kurmaniyazov, I., Kuzmin, Y. V., Kosintsev, P. A., Lázničková-Galetová, M., Leduc, C., Nikolskiy, P., Nussbaumer, M., O’Drisceoil, C., Orlando, L., Outram, A., Pavlova, E. Y., Perri, A. R., Pilot, M., Pitulko, V. V., Plotnikov, V. V., Protopopov, A. V., Rehazek, A., Sablin, M., Seguin-Orlando, A., Storå, J., Verjux, C., Zaibert, V. F., Zazula, G., Crombé, P., Hansen, A. J., Willerslev, E., Leonard, J. A., Götherström, A., Pinhasi, R., Schuenemann, V. J., Hofreiter, M., Gilbert, M. T. P., Shapiro, B., Larson, G., Krause, J., Dalén, L., Skoglund, P., Bergström, A., Stanton, D. W. G., Taron, U. H., Frantz, L., Sinding, M. -H. S., Ersmark, E., Pfrengle, S., Cassatt-Johnstone, M., Lebrasseur, O., Girdland-Flink, L., Fernandes, D. M., Ollivier, M., Speidel, L., Gopalakrishnan, S., Westbury, M. V., Ramos-Madrigal, J., Feuerborn, T. R., Reiter, E., Gretzinger, J., Münzel, S. C., Swali, P., Conard, N. J., Carøe, C., Haile, J., Linderholm, A., Androsov, S., Barnes, I., Baumann, C., Benecke, N., Bocherens, H., Brace, S., Carden, R. F., Drucker, D. G., Fedorov, S., Gasparik, M., Germonpré, M., Grigoriev, S., Groves, P., Hertwig, S. T., Ivanova, V. V., Janssens, L., Jennings, R. P., Kasparov, A. K., Kirillova, I. V., Kurmaniyazov, I., Kuzmin, Y. V., Kosintsev, P. A., Lázničková-Galetová, M., Leduc, C., Nikolskiy, P., Nussbaumer, M., O’Drisceoil, C., Orlando, L., Outram, A., Pavlova, E. Y., Perri, A. R., Pilot, M., Pitulko, V. V., Plotnikov, V. V., Protopopov, A. V., Rehazek, A., Sablin, M., Seguin-Orlando, A., Storå, J., Verjux, C., Zaibert, V. F., Zazula, G., Crombé, P., Hansen, A. J., Willerslev, E., Leonard, J. A., Götherström, A., Pinhasi, R., Schuenemann, V. J., Hofreiter, M., Gilbert, M. T. P., Shapiro, B., Larson, G., Krause, J., Dalén, L., and Skoglund, P.

Abstract

The grey wolf (Canis lupus) was the first species to give rise to a domestic population, and they remained widespread throughout the last Ice Age when many other large mammal species went extinct. Little is known, however, about the history and possible extinction of past wolf populations or when and where the wolf progenitors of the present-day dog lineage (Canis familiaris) lived1–8. Here we analysed 72 ancient wolf genomes spanning the last 100,000 years from Europe, Siberia and North America. We found that wolf populations were highly connected throughout the Late Pleistocene, with levels of differentiation an order of magnitude lower than they are today. This population connectivity allowed us to detect natural selection across the time series, including rapid fixation of mutations in the gene IFT88 40,000–30,000 years ago. We show that dogs are overall more closely related to ancient wolves from eastern Eurasia than to those from western Eurasia, suggesting a domestication process in the east. However, we also found that dogs in the Near East and Africa derive up to half of their ancestry from a distinct population related to modern southwest Eurasian wolves, reflecting either an independent domestication process or admixture from local wolves. None of the analysed ancient wolf genomes is a direct match for either of these dog ancestries, meaning that the exact progenitor populations remain to be located. © 2022, The Author(s).

Published
2022

24. Impact of performance-improvement strategies on the clinical care and outcomes of patients with type 2 diabetes

Author

Stowell, Stephanie A., Baum, Howard B.A., Berry, Carolyn A., Perri, Bianca R., King, Liza, Mijanovich, Tod, Albert, Stephanie, and Miller, Sara C.

Subjects
Cholesterol, Type 2 diabetes -- Patient outcomes, Health, American Medical Association
Abstract

In 2004, the American Medical Association (AMA) approved the Performance Improvement (PI) educational process as a strategy for improving patient care. (1) Through this process, clinicians earn AMA Physician's Recognition [...]

Published
2014

26. Current Understanding of the Earliest Human Occupations in the Americas: Evaluation of Becerra-Valdivia and Higham (2020)

Author

Potter, Ben A., primary, Chatters, James C., additional, Prentiss, Anna Marie, additional, Fiedel, Stuart J., additional, Haynes, Gary, additional, Kelly, Robert L., additional, Kilby, J. David, additional, Lanoë, François, additional, Holland-Lulewicz, Jacob, additional, Miller, D. Shane, additional, Morrow, Juliet E., additional, Perri, Angela R., additional, Rademaker, Kurt M., additional, Reuther, Joshua D., additional, Ritchison, Brandon T., additional, Sanchez, Guadalupe, additional, Sánchez-Morales, Ismael, additional, Spivey-Faulkner, S. Margaret, additional, Tune, Jesse W., additional, and Haynes, C. Vance, additional

Published
2021
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27. Evaluating Claims of Early Human Occupation at Chiquihuite Cave, Mexico

Author

Chatters, James C., primary, Potter, Ben A., additional, Prentiss, Anna Marie, additional, Fiedel, Stuart J., additional, Haynes, Gary, additional, Kelly, Robert L., additional, Kilby, J. David, additional, Lanoë, François, additional, Holland-Lulewicz, Jacob, additional, Miller, D. Shane, additional, Morrow, Juliet E., additional, Perri, Angela R., additional, Rademaker, Kurt M., additional, Reuther, Joshua D., additional, Ritchison, Brandon T., additional, Sanchez, Guadalupe, additional, Sánchez-Morales, Ismael, additional, Spivey-Faulkner, S. Margaret, additional, Tune, Jesse W., additional, and Haynes, C. Vance, additional

Published
2021
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28. Dire Wolves Were the Last of an Ancient New World Canid Lineage

Author

Perri, A. R., Mitchell, K. J., Mouton, A., Álvarez-Carretero, S., Hulme-Beaman, A., Haile, J., Jamieson, A., Meachen, J., Lin, A. T., Schubert, B. W., Ameen, C., Antipina, E. E., Bover, P., Brace, S., Carmagnini, A., Carøe, C., Samaniego Castruita, J. A., Chatters, J. C., Dobney, K., dos Reis, M., Evin, A., Gaubert, P., Gopalakrishnan, S., Gower, G., Heiniger, H., Helgen, K. M., Kapp, J., Kosintsev, P. A., Linderholm, A., Ozga, A. T., Presslee, S., Salis, A. T., Saremi, N. F., Shew, C., Skerry, K., Taranenko, D. E., Thompson, M., Sablin, M. V., Kuzmin, Y. V., Collins, M. J., Sinding, M. -H. S., Gilbert, M. T. P., Stone, A. C., Shapiro, B., Van Valkenburgh, B., Wayne, R. K., Larson, G., Cooper, A., Frantz, L. A. F., Perri, A. R., Mitchell, K. J., Mouton, A., Álvarez-Carretero, S., Hulme-Beaman, A., Haile, J., Jamieson, A., Meachen, J., Lin, A. T., Schubert, B. W., Ameen, C., Antipina, E. E., Bover, P., Brace, S., Carmagnini, A., Carøe, C., Samaniego Castruita, J. A., Chatters, J. C., Dobney, K., dos Reis, M., Evin, A., Gaubert, P., Gopalakrishnan, S., Gower, G., Heiniger, H., Helgen, K. M., Kapp, J., Kosintsev, P. A., Linderholm, A., Ozga, A. T., Presslee, S., Salis, A. T., Saremi, N. F., Shew, C., Skerry, K., Taranenko, D. E., Thompson, M., Sablin, M. V., Kuzmin, Y. V., Collins, M. J., Sinding, M. -H. S., Gilbert, M. T. P., Stone, A. C., Shapiro, B., Van Valkenburgh, B., Wayne, R. K., Larson, G., Cooper, A., and Frantz, L. A. F.

Abstract

Dire wolves are considered to be one of the most common and widespread large carnivores in Pleistocene America1, yet relatively little is known about their evolution or extinction. Here, to reconstruct the evolutionary history of dire wolves, we sequenced five genomes from sub-fossil remains dating from 13,000 to more than 50,000 years ago. Our results indicate that although they were similar morphologically to the extant grey wolf, dire wolves were a highly divergent lineage that split from living canids around 5.7 million years ago. In contrast to numerous examples of hybridization across Canidae2,3, there is no evidence for gene flow between dire wolves and either North American grey wolves or coyotes. This suggests that dire wolves evolved in isolation from the Pleistocene ancestors of these species. Our results also support an early New World origin of dire wolves, while the ancestors of grey wolves, coyotes and dholes evolved in Eurasia and colonized North America only relatively recently. © 2021, The Author(s), under exclusive licence to Springer Nature Limited.

Published
2021

29. Modern Siberian Dog Ancestry was Shaped by Several Thousand Years of Eurasian-Wide Trade and Human Dispersal

Author

Feuerborn, T. R., Carmagnini, A., Losey, R. J., Nomokonova, T., Askeyev, A., Askeyev, I., Askeyev, O., Antipina, E. E., Appelt, M., Bachura, O. P., Beglane, F., Bradley, D. G., Daly, K. G., Gopalakrishnan, S., Gregersen, K. M., Guo, C., Gusev, A. V., Jones, C., Kosintsev, P. A., Kuzmin, Y. V., Mattiangeli, V., Perri, A. R., Plekhanov, A. V., Ramos-Madrigal, J., Schmidt, A. L., Shaymuratova, D., Smith, O., Yavorskaya, L. V., Zhang, G., Willerslev, E., Meldgaard, M., Gilbert, M. T. P., Larson, G., Dalén, L., Hansen, A. J., Sinding, M. -H. S., Frantz, L., Feuerborn, T. R., Carmagnini, A., Losey, R. J., Nomokonova, T., Askeyev, A., Askeyev, I., Askeyev, O., Antipina, E. E., Appelt, M., Bachura, O. P., Beglane, F., Bradley, D. G., Daly, K. G., Gopalakrishnan, S., Gregersen, K. M., Guo, C., Gusev, A. V., Jones, C., Kosintsev, P. A., Kuzmin, Y. V., Mattiangeli, V., Perri, A. R., Plekhanov, A. V., Ramos-Madrigal, J., Schmidt, A. L., Shaymuratova, D., Smith, O., Yavorskaya, L. V., Zhang, G., Willerslev, E., Meldgaard, M., Gilbert, M. T. P., Larson, G., Dalén, L., Hansen, A. J., Sinding, M. -H. S., and Frantz, L.

Abstract

Dogs have been essential to life in the Siberian Arctic for over 9,500 y, and this tight link between people and dogs continues in Siberian communities. Although Arctic Siberian groups such as the Nenets received limited gene flow from neighboring groups, archaeological evidence suggests that metallurgy and new subsistence strategies emerged in Northwest Siberia around 2,000 y ago. It is unclear if the Siberian Arctic dog population was as continuous as the people of the region or if instead admixture occurred, possibly in relation to the influx of material culture from other parts of Eurasia. To address this question, we sequenced and analyzed the genomes of 20 ancient and historical Siberian and Eurasian Steppe dogs. Our analyses indicate that while Siberian dogs were genetically homogenous between 9,500 to 7,000 y ago, later introduction of dogs from the Eurasian Steppe and Europe led to substantial admixture. This is clearly the case in the Iamal-Nenets region (Northwestern Siberia) where dogs from the Iron Age period (∼2,000 y ago) possess substantially less ancestry related to European and Steppe dogs than dogs from the medieval period (∼1,000 y ago). Combined with findings of nonlocal materials recovered from these archaeological sites, including glass beads and metal items, these results indicate that Northwest Siberian communities were connected to a larger trade network through which they acquired genetically distinctive dogs from other regions. These exchanges were part of a series of major societal changes, including the rise of large-scale reindeer pastoralism ∼800 y ago. © 2021 National Academy of Sciences. All rights reserved.

Published
2021

30. Modern Siberian dog ancestry was shaped by several thousand years of Eurasian-wide trade and human dispersal

Author

Feuerborn, T R, Carmagnini, A, Losey, R J, Nomokonova, T, Askeyev, A, Askeyev, I, Askeyev, O, Antipina, E E, Appelt, M, Bachura, O P, Beglane, F, Bradley, D G, Daly, K G, Gopalakrishnan, S, Gregersen, K M, Guo, C X, Gusev, A V, Jones, C, Kosintsev, P A, Kuzmin, Y V, Mattiangeli, V, Perri, A R, Plekhanov, A V, Ramos-Madrigal, J, Schmidt, A L, Shaymuratova, D, Smith, O, Yavorskaya, L V, Zhang, G J, Willerslev, E, Meldgaard, M, Gilbert, M T P, Larson, G, Dalen, L, Hansen, A J, Sinding, M H S, Frantz, L, Feuerborn, T R, Carmagnini, A, Losey, R J, Nomokonova, T, Askeyev, A, Askeyev, I, Askeyev, O, Antipina, E E, Appelt, M, Bachura, O P, Beglane, F, Bradley, D G, Daly, K G, Gopalakrishnan, S, Gregersen, K M, Guo, C X, Gusev, A V, Jones, C, Kosintsev, P A, Kuzmin, Y V, Mattiangeli, V, Perri, A R, Plekhanov, A V, Ramos-Madrigal, J, Schmidt, A L, Shaymuratova, D, Smith, O, Yavorskaya, L V, Zhang, G J, Willerslev, E, Meldgaard, M, Gilbert, M T P, Larson, G, Dalen, L, Hansen, A J, Sinding, M H S, and Frantz, L

Published
2021
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31. Modern Siberian dog ancestry was shaped by several thousand years of Eurasian-wide trade and human dispersal

Author

Richtman Feuerborn, Tatiana, Carmagnini, Alberto, Losey, Robert J., Nomokonova, Tatiana, Askeyev, Arthur, Askeyev, Igor, Askeyev, Oleg, Antipina, Ekaterina E., Appelt, Martin, Bachura, Olga P., Beglane, Fiona, Bradley, Daniel G., Daly, Kevin G., Gopalakrishnan, Shyam, Gregersen, Kristian Murphy, Guo, Chunxue, Gusev, Andrei, Jones, Carleton, Kosintsev, Pavel A., Kuzmin, Yaroslav, Mattiangeli, Valeria, Perri, Angela R., Plekhanov, Andrei, Ramos-Madrigal, Jazmín, Schmidt, Anne Lisbeth, Shaymuratova, Dilyara, Smith, Oliver, Yavorskaya, Lilia, Zhang, Guojie, Willerslev, Eske, Meldgaard, Morten, Gilbert, M. Thomas P., Larson, Greger, Dalén, Love, Hansen, Anders J., Sinding, Mikkel-Holger S., Frantz, Laurent, Richtman Feuerborn, Tatiana, Carmagnini, Alberto, Losey, Robert J., Nomokonova, Tatiana, Askeyev, Arthur, Askeyev, Igor, Askeyev, Oleg, Antipina, Ekaterina E., Appelt, Martin, Bachura, Olga P., Beglane, Fiona, Bradley, Daniel G., Daly, Kevin G., Gopalakrishnan, Shyam, Gregersen, Kristian Murphy, Guo, Chunxue, Gusev, Andrei, Jones, Carleton, Kosintsev, Pavel A., Kuzmin, Yaroslav, Mattiangeli, Valeria, Perri, Angela R., Plekhanov, Andrei, Ramos-Madrigal, Jazmín, Schmidt, Anne Lisbeth, Shaymuratova, Dilyara, Smith, Oliver, Yavorskaya, Lilia, Zhang, Guojie, Willerslev, Eske, Meldgaard, Morten, Gilbert, M. Thomas P., Larson, Greger, Dalén, Love, Hansen, Anders J., Sinding, Mikkel-Holger S., and Frantz, Laurent

Abstract

Dogs have been essential to life in the Siberian Arctic for over 9,500 y, and this tight link between people and dogs continues in Siberian communities. Although Arctic Siberian groups such as the Nenets received limited gene flow from neighboring groups, archaeological evidence suggests that metallurgy and new subsistence strategies emerged in Northwest Siberia around 2,000 y ago. It is unclear if the Siberian Arctic dog population was as continuous as the people of the region or if instead admixture occurred, possibly in relation to the influx of material culture from other parts of Eurasia. To address this question, we sequenced and analyzed the genomes of 20 ancient and historical Siberian and Eurasian Steppe dogs. Our analyses indicate that while Siberian dogs were genetically homogenous between 9,500 to 7,000 y ago, later introduction of dogs from the Eurasian Steppe and Europe led to substantial admixture. This is clearly the case in the Iamal-Nenets region (Northwestern Siberia) where dogs from the Iron Age period (∼2,000 y ago) possess substantially less ancestry related to European and Steppe dogs than dogs from the medieval period (∼1,000 y ago). Combined with findings of nonlocal materials recovered from these archaeological sites, including glass beads and metal items, these results indicate that Northwest Siberian communities were connected to a larger trade network through which they acquired genetically distinctive dogs from other regions. These exchanges were part of a series of major societal changes, including the rise of large-scale reindeer pastoralism ∼800 y ago.

Published
2021
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32. Mycobacterium tuberculosis cluster with developing drug resistance, New York, New York, USA, 2003-2009

Author

Perri, Bianca R., Proops, Douglas, Moonan, Patrick K., Munsiff, Sonal S., Kreiswirth, Barry N., Kurepina, Natalia, Goranson, Christopher, and Ahuja, Shama D.

Subjects
United States. Centers for Disease Control and Prevention -- Analysis, Drug resistance in microorganisms -- Drug therapy -- Analysis, Antitubercular agents -- Analysis, Tuberculosis -- Drug therapy -- Analysis, Health
Abstract

Name-based contact investigation is a core tuberculosis (TB) control method, yet its limitations are documented (1-9). Although name-based contact investigations can elucidate TB transmission chains, these investigations are typically limited [...]

Published
2011
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34. Leeomic: A comprehensive proteomic analysis towards discovery of predictive patterns of protein expression to ribociclib sensitivity and resistance—A compLEEment-1 Canadian correlative sub-study.

Author

Chia, Stephen K. L., primary, Henning, Jan-Willem, additional, Warner, Ellen, additional, Song, Xinni, additional, Joy, Anil A., additional, Califaretti, Nadia, additional, Desbiens, Christine, additional, Zarate, Juan Pablo, additional, Haftchenary, Sina, additional, Perri, Sabrina R., additional, and Morin, Gregg B., additional

Published
2019
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35. Current Understanding of the Earliest Human Occupations in the Americas: Evaluation of Becerra-Valdivia and Higham (2020)

Author

Potter, Ben A., Chatters, James C., Prentiss, Anna Marie, Fiedel, Stuart J., Haynes, Gary, Kelly, Robert L., Kilby, J. David, Lanoë, François, Holland-Lulewicz, Jacob, Miller, D. Shane, Morrow, Juliet E., Perri, Angela R., Rademaker, Kurt M., Reuther, Joshua D., Ritchison, Brandon T., Sanchez, Guadalupe, Sánchez-Morales, Ismael, Spivey-Faulkner, S. Margaret, Tune, Jesse W., and Haynes, C. Vance

Abstract

ABSTRACTVarious chronologies of the earliest Native American occupations have been proposed with varying levels of empirical support and conceptual rigor, yet none is widely accepted. A recent survey of pre-Clovis dated sites (Becerra-Valdivia and Higham 2020) concludes a pre-Last Glacial Maximum (>26,500–19,000 cal yr BP) entry of humans in the Americas, in part based on recent work at Chiquihuite Cave, Mexico. We evaluate the evidence used to develop this inference. To provide clarity, we present three explicit dispersal models for the earliest human dispersals to the Americas: Strict Clovis-First(13,050 cal yr BP), Paleoindian(<16,000 cal yr BP), and Pre-Paleoindian(>16,000 cal yr BP, encompassing pre-LGM, preferred by Becerra-Valdivia and Higham (2020)), and we summarize the current genetic and archaeological evidence bearing on each. We regard all purported Pre-Paleoindian sites as equivocal and the Strict Clovis-First model to be equally unsupported at present. We conclude that current data strongly support the Paleoindian Dispersal model, with Native American ancestors expanding into the Americas sometime after 16,000 cal yr BP (and perhaps after 14,800 cal yr BP), consistent with well-dated archaeological sites and with genetic data throughout the western hemisphere. Models of the Americas’ peopling that incorporate Chiquihuite or other claimed Pre-Paleoindian sites remain unsubstantiated.

Published
2022
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36. Evaluating Claims of Early Human Occupation at Chiquihuite Cave, Mexico

Author

Chatters, James C., Potter, Ben A., Prentiss, Anna Marie, Fiedel, Stuart J., Haynes, Gary, Kelly, Robert L., Kilby, J. David, Lanoë, François, Holland-Lulewicz, Jacob, Miller, D. Shane, Morrow, Juliet E., Perri, Angela R., Rademaker, Kurt M., Reuther, Joshua D., Ritchison, Brandon T., Sanchez, Guadalupe, Sánchez-Morales, Ismael, Spivey-Faulkner, S. Margaret, Tune, Jesse W., and Haynes, C. Vance

Abstract

ABSTRACTArchaeologists working in Mexico recently claimed evidence for pre-Last Glacial Maximum human occupation in the Americas, based on lithic items excavated from Chiquihuite Cave, Zacatecas. Although they provide extensive array of ancillary studies of the cave's chronostratigraphic and paleoenvironmental record, the data they present do not support their central argument, that these lithic items are anthropogenic and represent a unique lithic industry produced by early human occupants. They give limited consideration to the most plausible alternative explanation: that the assemblage is a product of natural processes of disintegration, roof fall, and mass movement of the cave fill, and thus the lithic materials are best explained as geofacts. We assess the evidence by considering the alternative hypotheses (1) that the observed phenomena are artifacts or (2) that they result from natural processes. We conclude that hypothesis 2 is more strongly supported and that Chiquihuite Cave does not represent evidence for the earliest Americans.

Published
2022
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37. Dire wolves were the last of an ancient New World canid lineage.

Author

Mouton, Alice, Perri, Angela R., Mitchell, Kieren J., Álvarez-Carretero, Sandra, Jamieson, Alexandra, Meachen, Julie, Lin, Audrey T., and Hulme-Beaman, Ardern

Abstract

Dire wolves are considered to be one of the most common and widespread large carnivores in Pleistocene America1 , yet relatively little is known about their evolution or extinction. Here, to reconstruct the evolutionary history of dire wolves, we sequenced fve genomes from sub-fossil remains dating from 13,000 to more than 50,000 years ago. Our results indicate that although they were similar morphologically to the extant grey wolf, dire wolves were a highly divergent lineage that split from living canids around 5.7 million years ago. In contrast to numerous examples of hybridization across Canidae2,3 , there is no evidence for gene fow between dire wolves and either North American grey wolves or coyotes. This suggests that dire wolves evolved in isolation from the Pleistocene ancestors of these species. Our results also support an early New World origin of dire wolves, while the ancestors of grey wolves, coyotes and dholes evolved in Eurasia and colonized North America only relatively recently. [ABSTRACT FROM AUTHOR]

Published
2021
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39. The evolutionary history of dogs in the Americas

Author

Ní Leathlobhair, Máire, primary, Perri, Angela R., additional, Irving-Pease, Evan K., additional, Witt, Kelsey E., additional, Linderholm, Anna, additional, Haile, James, additional, Lebrasseur, Ophelie, additional, Ameen, Carly, additional, Blick, Jeffrey, additional, Boyko, Adam R., additional, Brace, Selina, additional, Cortes, Yahaira Nunes, additional, Crockford, Susan J., additional, Devault, Alison, additional, Dimopoulos, Evangelos A., additional, Eldridge, Morley, additional, Enk, Jacob, additional, Gopalakrishnan, Shyam, additional, Gori, Kevin, additional, Grimes, Vaughan, additional, Guiry, Eric, additional, Hansen, Anders J., additional, Hulme-Beaman, Ardern, additional, Johnson, John, additional, Kitchen, Andrew, additional, Kasparov, Aleksei K., additional, Kwon, Young-Mi, additional, Nikolskiy, Pavel A., additional, Lope, Carlos Peraza, additional, Manin, Aurélie, additional, Martin, Terrance, additional, Meyer, Michael, additional, Myers, Kelsey Noack, additional, Omura, Mark, additional, Rouillard, Jean-Marie, additional, Pavlova, Elena Y., additional, Sciulli, Paul, additional, Sinding, Mikkel-Holger S., additional, Strakova, Andrea, additional, Ivanova, Varvara V., additional, Widga, Christopher, additional, Willerslev, Eske, additional, Pitulko, Vladimir V., additional, Barnes, Ian, additional, Gilbert, M. Thomas P., additional, Dobney, Keith M., additional, Malhi, Ripan S., additional, Murchison, Elizabeth P., additional, Larson, Greger, additional, and Frantz, Laurent A. F., additional

Published
2018
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41. ERp57 is protective against mutant SOD1-induced cellular pathology in amyotrophic lateral sclerosis

Author

Parakh, Sonam, primary, Jagaraj, Cyril J, additional, Vidal, Marta, additional, Ragagnin, Audrey M G, additional, Perri, Emma R, additional, Konopka, Anna, additional, Toth, Reka P, additional, Galper, Jasmin, additional, Blair, Ian P, additional, Thomas, Colleen J, additional, Walker, Adam K, additional, Yang, Shu, additional, Spencer, Damian M, additional, and Atkin, Julie D, additional

Published
2018
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42. Active Monitoring of Travelers for Ebola Virus Disease—New York City, October 25, 2014-December 29, 2015

Author

Saffa, Alhaji, primary, Tate, Anna, additional, Ezeoke, Ifeoma, additional, Jacobs-Wingo, Jasmine, additional, Iqbal, Maryam, additional, Baumgartner, Jennifer, additional, Fine, Anne, additional, Perri, Bianca R., additional, McIntosh, Natasha, additional, Levy Stennis, Natalie, additional, Lee, Kristen, additional, Peterson, Eric, additional, Jones, Lucretia, additional, Helburn, Lisa, additional, Heindrichs, Caroline, additional, Guthartz, Seth, additional, Chamany, Shadi, additional, Starr, David, additional, Scaccia, Allison, additional, Raphael, Marisa, additional, Varma, Jay K., additional, and Vora, Neil M., additional

Published
2018
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44. Advanced Reservoir Characterization in the Antelope Shale to Establish the Viability of CO2 Enhanced Oil Recovery in California's Monterey Formation Siliceous Shales, Class III

Author

Perri, Pasquale R., primary, Cooney, John, additional, Fong, Bill, additional, Julander, Dale, additional, Marasigan, Aleks, additional, Morea, Mike, additional, Piceno, Deborah, additional, Stone, Bill, additional, Emanuele, Mark, additional, Sheffield, Jon, additional, Wells, Jeff, additional, Westbrook, Bill, additional, Karnes, Karl, additional, Pearson, Matt, additional, and Heisler, Stuart, additional

Published
2000
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49. Single Tooth Implant Supported Restorations.

Author

Lewis, Steven G., III, John Beumer, Perri, George R., and Hornburg, Wynn P.

Subjects
DENTAL implants, DENTURES, ARTIFICIAL implants, ORAL surgery, ENDOSSEOUS dental implants, DENTAL abutments
Abstract

Single tooth implant supported restorations present a difficult restorative challenge. This article describes a new technique for fabricating single tooth restorations directly to Brånemark implant fixtures, bypassing the titanium abutment cylinder. With the use of the "UCLA" abutment, this procedure can provide esthetic and functional restorations. [ABSTRACT FROM AUTHOR]

Published
1988

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