Search Results - "Samaniego, José A."

Single‐tube library preparation for degraded DNA by Carøe, Christian, Gopalakrishnan, Shyam, Vinner, Lasse, Mak, Sarah S. T., Sinding, Mikkel Holger S., Samaniego, José A., Wales, Nathan, Sicheritz‐Pontén, Thomas, Gilbert, M. Thomas P., Johnston, Susan

“…In recent years, massive parallel sequencing has revolutionised the study of degraded DNA, thus enabling the field of ancient DNA to evolve into that of…”
Get full text

Genomic analysis of 600 vancomycin-resistant Enterococcus faecium reveals a high prevalence of ST80 and spread of similar vanA regions via IS1216E and plasmid transfer in diverse genetic lineages in Ireland by Egan, Sarah A., Kavanagh, Nicole L., Shore, Anna C., Mollerup, Sarah, Samaniego Castruita, José A., O’Connell, Brian, McManus, Brenda A., Brennan, Grainne I., Pinholt, Mette, Westh, Henrik, Coleman, David C.

“…Abstract Background Vancomycin-resistant Enterococcus faecium (VREfm) cause a wide range of hospital infections. Ireland has had one of the highest invasive…”
Get full text

Genomes of Pleistocene Siberian Wolves Uncover Multiple Extinct Wolf Lineages by Ramos-Madrigal, Jazmín, Sinding, Mikkel-Holger S., Carøe, Christian, Mak, Sarah S.T., Niemann, Jonas, Samaniego Castruita, José A., Fedorov, Sergey, Kandyba, Alexander, Germonpré, Mietje, Bocherens, Hervé, Feuerborn, Tatiana R., Pitulko, Vladimir V., Pavlova, Elena Y., Nikolskiy, Pavel A., Kasparov, Aleksei K., Ivanova, Varvara V., Larson, Greger, Frantz, Laurent A.F., Willerslev, Eske, Meldgaard, Morten, Petersen, Bent, Sicheritz-Ponten, Thomas, Bachmann, Lutz, Wiig, Øystein, Hansen, Anders J., Gilbert, M. Thomas P., Gopalakrishnan, Shyam

“…Extant Canis lupus genetic diversity can be grouped into three phylogenetically distinct clades: Eurasian and American wolves and domestic dogs.1 Genetic…”
Get full text

Exploring the evolution and epidemiology of European CC1-MRSA-IV: tracking a multidrug-resistant community-associated meticillin-resistant Staphylococcus aureus clone by Earls, Megan R, Steinig, Eike J, Monecke, Stefan, Samaniego Castruita, José A, Simbeck, Alexandra, Schneider-Brachert, Wulf, Vremerǎ, Teodora, Dorneanu, Olivia S, Loncaric, Igor, Bes, Michèle, Lacoma, Alicia, Prat Aymerich, Cristina, Wernery, Ulrich, Armengol-Porta, Marc, Blomfeldt, Anita, Duchene, Sebastian, Bartels, Mette D, Ehricht, Ralf, Coleman, David C

“…This study investigated the evolution and epidemiology of the community-associated and multidrug-resistant clone European CC1-MRSA-IV. Whole-genome sequences…”
Get full text

The half-life of DNA in bone: measuring decay kinetics in 158 dated fossils by Allentoft, Morten E., Collins, Matthew, Harker, David, Haile, James, Oskam, Charlotte L., Hale, Marie L., Campos, Paula F., Samaniego, Jose A., Gilbert, M. Thomas P., Willerslev, Eske, Zhang, Guojie, Scofield, R. Paul, Holdaway, Richard N., Bunce, Michael

“…Claims of extreme survival of DNA have emphasized the need for reliable models of DNA degradation through time. By analysing mitochondrial DNA (mtDNA) from 158…”
Get full text

Dire wolves were the last of an ancient New World canid lineage by 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, Frantz, Laurent A. F.

“…Dire wolves are considered to be one of the most common and widespread large carnivores in Pleistocene America 1 , yet relatively little is known about their…”
Get full text

Population genomics of grey wolves and wolf-like canids in North America by Sinding, Mikkel-Holger S, Gopalakrishan, Shyam, Vieira, Filipe G, Samaniego Castruita, Jose A, Raundrup, Katrine, Heide Jørgensen, Mads Peter, Meldgaard, Morten, Petersen, Bent, Sicheritz-Ponten, Thomas, Mikkelsen, Johan Brus, Marquard-Petersen, Ulf, Dietz, Rune, Sonne, Christian, Dalén, Love, Bachmann, Lutz, Wiig, Øystein, Hansen, Anders J, Gilbert, M Thomas P

“…North America is currently home to a number of grey wolf (Canis lupus) and wolf-like canid populations, including the coyote (Canis latrans) and the…”
Get full text

The wolf reference genome sequence (Canis lupus lupus) and its implications for Canis spp. population genomics by Gopalakrishnan, Shyam, Samaniego Castruita, Jose A, Sinding, Mikkel-Holger S, Kuderna, Lukas F K, Räikkönen, Jannikke, Petersen, Bent, Sicheritz-Ponten, Thomas, Larson, Greger, Orlando, Ludovic, Marques-Bonet, Tomas, Hansen, Anders J, Dalén, Love, Gilbert, M Thomas P

“…An increasing number of studies are addressing the evolutionary genomics of dog domestication, principally through resequencing dog, wolf and related canid…”
Get full text

Interspecific Gene Flow Shaped the Evolution of the Genus Canis by Gopalakrishnan, Shyam, Sinding, Mikkel-Holger S., Ramos-Madrigal, Jazmín, Niemann, Jonas, Samaniego Castruita, Jose A., Vieira, Filipe G., Carøe, Christian, Montero, Marc de Manuel, Kuderna, Lukas, Serres, Aitor, González-Basallote, Víctor Manuel, Liu, Yan-Hu, Wang, Guo-Dong, Marques-Bonet, Tomas, Mirarab, Siavash, Fernandes, Carlos, Gaubert, Philippe, Koepfli, Klaus-Peter, Budd, Jane, Rueness, Eli Knispel, Sillero, Claudio, Heide-Jørgensen, Mads Peter, Petersen, Bent, Sicheritz-Ponten, Thomas, Bachmann, Lutz, Wiig, Øystein, Hansen, Anders J., Gilbert, M. Thomas P.

“…The evolutionary history of the wolf-like canids of the genus Canis has been heavily debated, especially regarding the number of distinct species and their…”
Get full text

Ancient DNA suggests modern wolves trace their origin to a Late Pleistocene expansion from Beringia by Loog, Liisa, Thalmann, Olaf, Sinding, Mikkel‐Holger S., Schuenemann, Verena J., Perri, Angela, Germonpré, Mietje, Bocherens, Herve, Witt, Kelsey E., Samaniego Castruita, Jose A., Velasco, Marcela S., Lundstrøm, Inge K. C., Wales, Nathan, Sonet, Gontran, Frantz, Laurent, Schroeder, Hannes, Budd, Jane, Jimenez, Elodie‐Laure, Fedorov, Sergey, Gasparyan, Boris, Kandel, Andrew W., Lázničková‐Galetová, Martina, Napierala, Hannes, Uerpmann, Hans‐Peter, Nikolskiy, Pavel A., Pavlova, Elena Y., Pitulko, Vladimir V., Herzig, Karl‐Heinz, Malhi, Ripan S., Willerslev, Eske, Hansen, Anders J., Dobney, Keith, Gilbert, M. Thomas P., Krause, Johannes, Larson, Greger, Eriksson, Anders, Manica, Andrea

“…Grey wolves (Canis lupus) are one of the few large terrestrial carnivores that have maintained a wide geographical distribution across the Northern Hemisphere…”
Get full text

Tracking niche variation over millennial timescales in sympatric killer whale lineages by Foote, Andrew D., Newton, Jason, Ávila-Arcos, María C., Kampmann, Marie-Louise, Samaniego, Jose A., Post, Klaas, Rosing-Asvid, Aqqalu, Sinding, Mikkel-Holger S., Gilbert, M. Thomas P.

“…Niche variation owing to individual differences in ecology has been hypothesized to be an early stage of sympatric speciation. Yet to date, no study has…”
Get full text

Interspecific Gene Flow Shaped the Evolution of the Genus Canis by Gopalakrishnan, Shyam, Sinding, Mikkel-Holger S., Ramos-Madrigal, Jazmín, Niemann, Jonas, Samaniego Castruita, Jose A., Vieira, Filipe G., Carøe, Christian, de Manuel Montero, Marc, Kuderna, Lukas, Serres, Aitor, González-Basallote, Víctor Manuel, Liu, Yan-Hu, Wang, Guo-Dong, Marques-Bonet, Tomas, Mirarab, Siavash, Fernandes, Carlos, Gaubert, Philippe, Koepfli, Klaus-Peter, Budd, Jane, Rueness, Eli Knispel, Sillero, Claudio, Heide-Jørgensen, Mads Peter, Petersen, Bent, Sicheritz-Ponten, Thomas, Bachmann, Lutz, Wiig, Øystein, Hansen, Anders J., Gilbert, M. Thomas P.

Get full text

An ‛Aukward' Tale: A Genetic Approach to Discover the Whereabouts of the Last Great Auks by Thomas, Jessica E, Carvalho, Gary R, Haile, James, Martin, Michael D, Castruita, Jose A Samaniego, Niemann, Jonas, Sinding, Mikkel-Holger S, Sandoval-Velasco, Marcela, Rawlence, Nicolas J, Fuller, Errol, Fjeldså, Jon, Hofreiter, Michael, Stewart, John R, Gilbert, M Thomas P, Knapp, Michael

“…One hundred and seventy-three years ago, the last two Great Auks, , ever reliably seen were killed. Their internal organs can be found in the collections of…”
Get full text

Reconstructing genome evolution in historic samples of the Irish potato famine pathogen by Martin, Michael D., Cappellini, Enrico, Samaniego, Jose A., Zepeda, M. Lisandra, Campos, Paula F., Seguin-Orlando, Andaine, Wales, Nathan, Orlando, Ludovic, Ho, Simon Y. W., Dietrich, Fred S., Mieczkowski, Piotr A., Heitman, Joseph, Willerslev, Eske, Krogh, Anders, Ristaino, Jean B., Gilbert, M. Thomas P.

“…Responsible for the Irish potato famine of 1845–49, the oomycete pathogen Phytophthora infestans caused persistent, devastating outbreaks of potato late blight…”
Get full text

Arctic-adapted dogs emerged at the Pleistocene-Holocene transition by Sinding, Mikkel-Holger S, Gopalakrishnan, Shyam, Ramos-Madrigal, Jazmín, de Manuel, Marc, Pitulko, Vladimir V, Kuderna, Lukas, Feuerborn, Tatiana R, Frantz, Laurent A F, Vieira, Filipe G, Niemann, Jonas, Samaniego Castruita, Jose A, Carøe, Christian, Andersen-Ranberg, Emilie U, Jordan, Peter D, Pavlova, Elena Y, Nikolskiy, Pavel A, Kasparov, Aleksei K, Ivanova, Varvara V, Willerslev, Eske, Skoglund, Pontus, Fredholm, Merete, Wennerberg, Sanne Eline, Heide-Jørgensen, Mads Peter, Dietz, Rune, Sonne, Christian, Meldgaard, Morten, Dalén, Love, Larson, Greger, Petersen, Bent, Sicheritz-Pontén, Thomas, Bachmann, Lutz, Wiig, Øystein, Marques-Bonet, Tomas, Hansen, Anders J, Gilbert, M Thomas P

“…Although sled dogs are one of the most specialized groups of dogs, their origin and evolution has received much less attention than many other dog groups. We…”
Get full text

The population genomic basis of geographic differentiation in North American common ragweed (Ambrosia artemisiifolia L.) by Martin, Michael D., Olsen, Morten Tange, Samaniego, Jose A., Zimmer, Elizabeth A., Gilbert, M. Thomas P.

“…Common ragweed (Ambrosia artemisiifolia L.) is an invasive, wind‐pollinated plant nearly ubiquitous in disturbed sites in its eastern North American native…”
Get full text

Mitochondrial genome sequences reveal evolutionary relationships of the Phytophthora 1c clade species by Lassiter, Erica S., Russ, Carsten, Nusbaum, Chad, Zeng, Qiandong, Saville, Amanda C., Olarte, Rodrigo A., Carbone, Ignazio, Hu, Chia-Hui, Seguin-Orlando, Andaine, Samaniego, Jose A., Thorne, Jeffrey L., Ristaino, Jean B.

“…Phytophthora infestans is one of the most destructive plant pathogens of potato and tomato globally. The pathogen is closely related to four other Phytophthora…”
Get full text

Demographic reconstruction from ancient DNA supports rapid extinction of the great auk by Thomas, Jessica E, Carvalho, Gary R, Haile, James, Rawlence, Nicolas J, Martin, Michael D, Ho, Simon Yw, Sigfússon, Arnór Þ, Jósefsson, Vigfús A, Frederiksen, Morten, Linnebjerg, Jannie F, Samaniego Castruita, Jose A, Niemann, Jonas, Sinding, Mikkel-Holger S, Sandoval-Velasco, Marcela, Soares, André Er, Lacy, Robert, Barilaro, Christina, Best, Juila, Brandis, Dirk, Cavallo, Chiara, Elorza, Mikelo, Garrett, Kimball L, Groot, Maaike, Johansson, Friederike, Lifjeld, Jan T, Nilson, Göran, Serjeanston, Dale, Sweet, Paul, Fuller, Errol, Hufthammer, Anne Karin, Meldgaard, Morten, Fjeldså, Jon, Shapiro, Beth, Hofreiter, Michael, Stewart, John R, Gilbert, M Thomas P, Knapp, Michael

“…The great auk was once abundant and distributed across the North Atlantic. It is now extinct, having been heavily exploited for its eggs, meat, and feathers…”
Get full text

Genomic analysis of 600 vancomycin-resistant Enterococcus faecium reveals a high prevalence of ST80 and spread of similar vanA regions via IS 1216E and plasmid transfer in diverse genetic lineages in Ireland by Egan, Sarah A., Kavanagh, Nicole L., Shore, Anna C., Mollerup, Sarah, Samaniego Castruita, José A., O’Connell, Brian, McManus, Brenda A., Brennan, Grainne I., Pinholt, Mette, Westh, Henrik, Coleman, David C.

Get full text

Arctic-adapted dogs emerged at the Pleistocene-Holocene transitiond by Sinding, Mikkel-Holger S., Gopalakrishnan, Shyam, Ramos-Madrigal, Jazmin, de Manuel, Marc, Pitulko, Vladimir V., Kuderna, Lukas, Feuerborn, Tatiana R., Frantz, Laurent A. F., Vieira, Filipe G., Niemann, Jonas, Castruita, Jose A. Samaniego, Caroe, Christian, Andersen-Ranberg, Emilie U., Jordan, Peter D., Pavlova, Elena Y., Nikolskiy, Pavel A., Kasparov, Aleksei K., Ivanova, Varvara V., Willerslev, Eske, Skoglund, Pontus, Fredholm, Merete, Wennerberg, Sanne Eline, Heide-Jorgensen, Mads Peter, Dietz, Rune, Sonne, Christian, Meldgaard, Morten, Dalen, Love, Larson, Greger, Petersen, Bent, Sicheritz-Ponten, Thomas, Bachmann, Lutz, Wiig, Oystein, Marques-Bonet, Tomas, Hansen, Anders J., Gilbert, M. Thomas P.

“…Although sled dogs are one of the most specialized groups of dogs, their origin and evolution has received much less attention than many other dog groups. We…”
Get full text