Blar i NTNU Open på forfatter "Sicheritz-Pontén, Thomas"

Viser treff 1-9 av 9

    • Comparative performance of the BGISEQ-500 vs Illumina HiSeq2500 sequencing platforms for palaeogenomic sequencing 

      Mak, Sarah S.T.; Gopalakrishnan, Shyam; Carøe, Christian; Geng, Chunyu; Liu, Shanlin; Sinding, Mikkel Holger Strander; Kuderna, Lukas FK; Zhang, Wenwei; Fu, Shujin; Vieira, Filipe G.; Germonpre, Mietje; Bocherens, Hervé; Fedorov, Sergey; Petersen, Bent; Sicheritz-Pontén, Thomas; Marques-Bonet, Tomas; Zhang, Guojie; Jiang, Hui; Gilbert, Marcus Thomas Pius (Journal article; Peer reviewed, 2017)
      Ancient DNA research has been revolutionized following development of next-generation sequencing platforms. Although a number of such platforms have been applied to ancient DNA samples, the Illumina series are the dominant ...

    • A draft genome sequence of the elusive giant squid, Architeuthis dux 

      Da Fonseca, Rute R.; Couto, Alvarina; Machado, Andre M; Brejova, Brona; Albertin, Carolin B; Silva, Filipe; Gardner, Paul; Baril, Tobias; Hayward, Alex; Campos, Alexandre; Ribeiro, Ângela M; Barrio-Hernandez, Inigo; Hoving, Henk-Jan; Tafur-Jimenez, Ricardo; Chu, Chong; Frazão, Barbara; Petersen, Bent; Peñaloza, Fernando; Musacchia, Francesco; Alexander, Graham C; Osório, Hugo; Winkelmann, Inger; Simakov, Oleg; Rasmussen, Simon; Rahman, M. Ziaur; Pisani, Davide; Vinther, Jakob; Jarvis, Erich D.; Zhang, Guojie; Strugnell, Jan M.; Castro, L. Filipe C; Fedrigo, Olivier; Patricio, Mateus; Li, Qiye; Rocha, Sara; Antunes, Agostinho; Wu, Yufeng; Ma, Bin; Sanges, Remo; Vinar, Tomas; Blagoev, Blagoy; Sicheritz-Pontén, Thomas; Nielsen, Rasmus; Gilbert, Marcus Thomas Pius (Peer reviewed; Journal article, 2020)
      Background The giant squid (Architeuthis dux; Steenstrup, 1857) is an enigmatic giant mollusc with a circumglobal distribution in the deep ocean, except in the high Arctic and Antarctic waters. The elusiveness of the ...

    • Genomes of Pleistocene Siberian Wolves Uncover Multiple Extinct Wolf Lineages 

      Ramos-Madrigal, Jazmín; Sinding, Mikkel Holger Strander; Carøe, Christian; Mak, Sarah Siu Tze; 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-Pontén, Thomas; Bachmann, Lutz; Wiig, Øystein; Hansen, Anders J.; Gilbert, Marcus Thomas Pius; Gopalakrishnan, Shyam (Peer reviewed; Journal article, 2020)
      Extant Canis lupus genetic diversity can be grouped into three phylogenetically distinct clades: Eurasian and American wolves and domestic dogs.1 Genetic studies have suggested these groups trace their origins to a wolf ...

    • Historic Sampling of a Vanishing Beast: Population Structure and Diversity in the Black Rhinoceros 

      Sánchez-Barreiro, Fátima; De Cahsan, Binia; Westbury, Michael V.; Sun, Xin; Margaryan, Ashot; Fontsere, Claudia; Bruford, Michael W.; Russo, Isa-Rita M; Kalthoff, Daniela C.; Sicheritz-Pontén, Thomas; Petersen, Bent; Dalén, Love; Zhang, Guojie; Marquès-Bonet, Tomás; Gilbert, Marcus Thomas Pius; Moodley, Yoshan (Peer reviewed; Journal article, 2023)
      The black rhinoceros (Diceros bicornis L.) is a critically endangered species historically distributed across sub-Saharan Africa. Hunting and habitat disturbance have diminished both its numbers and distribution since the ...

    • Historical population declines prompted significant genomic erosion in the northern and southern white rhinoceros (Ceratotherium simum) 

      Sánchez-Barreiro, Fátima; Gopalakrishnan, Shyam; Ramos-Madrigal, Jazmín; Westbury, Michael V.; de Manuel, Marc; Margaryan, Ashot; Ciucani, Marta M.; Vieira, Filipe G.; Patramanis, Yannis; Kalthoff, Daniela C.; Timmons, Zena; Sicheritz-Pontén, Thomas; Dalén, Love; Ryder, Oliver A.; Zhang, Guojie; Marquès-Bonet, Tomás; Moodley, Yoshan; Gilbert, Marcus Thomas Pius (Journal article; Peer reviewed, 2021)
      Large vertebrates are extremely sensitive to anthropogenic pressure, and their populations are declining fast. The white rhinoceros (Ceratotherium simum) is a paradigmatic case: this African megaherbivore has suffered a ...

    • Historical population declines prompted significant genomic erosion in the northern and southern white rhinoceros (Ceratotherium simum) 

      Sánchez-Barreiro, Fátima; Gopalakrishnan, Shyam; Ramos-Madrigal, Jazmín; Westbury, Michael V.; de Manuel, Marc; Margaryan, Ashot; Ciucani, Marta M.; Vieira, Filipe G.; Patramanis, Yannis; Kalthoff, Daniela C.; Timmons, Zena; Sicheritz-Pontén, Thomas; Dalén, Love; Ryder, Oliver A.; Zhang, Guojie; Marquès-Bonet, Tomás; Moodley, Yoshan; Gilbert, Marcus Thomas Pius (Journal article; Peer reviewed, 2021)
      Large vertebrates are extremely sensitive to anthropogenic pressure, and their populations are declining fast. The white rhinoceros (Ceratotherium simum) is a paradigmatic case: this African megaherbivore has suffered a ...

    • Kouprey (Bos sauveli) genomes unveil polytomic origin of wild Asian Bos 

      Sinding, Mikkel-Holger S.; Ciucani, Marta M.; Ramos-Madrigal, Jazmín; Carmagnini, Alberto; Rasmussen, Jacob A.; Feng, Shaohong; Chen, Guangji; Vieira, Filipe G.; Mattiangeli, Valeria; Ganjoo, Rajinder K.; Larson, Greger; Sicheritz-Pontén, Thomas; Petersen, Bent; Frantz, Laurent A.F.; Gilbert, Marcus Thomas Pius; Bradley, Daniel G. (Peer reviewed; Journal article, 2021)
      The evolution of the genera Bos and Bison, and the nature of gene flow between wild and domestic species, is poorly understood, with genomic data of wild species being limited. We generated two genomes from the likely ...

    • Multi-omic detection of Mycobacterium leprae in archaeological human dental calculus 

      Fotakis, Anna K.; Denham, Sean Dexter; Mackie, Meaghan; Orbegozo, Miren Iraeta; Mylopotamitaki, Dorothea; Gopalakrishnan, Shyam; Sicheritz-Pontén, Thomas; Olsen, Jesper V.; Cappellini, Enrico; Zhang, Guojie; Christophersen, Axel; Gilbert, Thomas; Vågene, Åshild J (Peer reviewed; Journal article, 2020)
      Mineralized dental plaque (calculus) has proven to be an excellent source of ancient biomolecules. Here we present a Mycobacterium leprae genome (6.6-fold), the causative agent of leprosy, recovered via shotgun sequencing ...

    • Rapid discovery of novel prophages using biological feature engineering and machine learning 

      Sirén, Kimmo; Millard, Andrew; Petersen, Bent; Gilbert, Marcus Thomas Pius; Clokie, Martha R.J.; Sicheritz-Pontén, Thomas (Peer reviewed; Journal article, 2021)
      Prophages are phages that are integrated into bacterial genomes and which are key to understanding many aspects of bacterial biology. Their extreme diversity means they are challenging to detect using sequence similarity, ...