• Bone biodeterioration—The effect of marine and terrestrial depositional environments on early diagenesis and bone bacterial community 

      Eriksen, Anne Marie Høier; Nielsen, Tue Kjærgaard; Matthiesen, Henning; Carøe, Christian; Hansen, Lars Hestbjerg; Gregory, David John; Turner-Walker, Gordon; Collins, Matthew James; Gilbert, Marcus Thomas Pius (Peer reviewed; Journal article, 2020)
      Bacteria play an important role in the degradation of bone material. However, much remains to be learnt about the structure of their communities in degrading bone, and how the depositional environment influences their ...
    • 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 ...
    • Genetic affinities of an eradicated european plasmodium falciparum strain 

      De-Dios, Toni; van Dorp, Lucy; Gelabert, Pere; Carøe, Christian; Sandoval-Velasco, Marcela; Fregel, Rosa; Escosa, Raül; Aranda, Carles; Huijben, Silvie; Balloux, Francois; Gilbert, Marcus Thomas Pius; Lalueza-Fox, Carles (Journal article; Peer reviewed, 2019)
      Malaria was present in most of Europe until the second half of the 20th century, when it was eradicated through a combination of increased surveillance and mosquito control strategies, together with cross-border and political ...
    • 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 ...
    • MobiSeq: De novo SNP discovery in model and non-model species through sequencing the flanking region of transposable elements 

      Rey-Iglesia, Alba; Gopalakrishan, Shyam; Carøe, Christian; Alquezar-Planas, David E.; Ahlmann Nielsen, Anne; Röder, Timo; Bruhn Pedersen, Lene; Næsborg-Nielsen, Christina; Sinding, Mikkel Holger Strander; Fredensborg Rath, Martin; Li, Zhipeng; Petersen, Bent; Gilbert, Marcus Thomas Pius; Bunce, Michael; Mourier, Tobias; Hansen, Anders Johannes (Peer reviewed; Journal article, 2019)
      In recent years, the availability of reduced representation library (RRL) methods has catalysed an expansion of genome‐scale studies to characterize both model and non‐model organisms. Most of these methods rely on the use ...
    • Plasmodium vivax Malaria Viewed through the Lens of an Eradicated European Strain 

      van Dorp, Lucy; Gelabert, Pere; Rieux, Adrien; De Manuel, Marc; De-Dios, Toni; Gopalakrishnan, Shyam; Carøe, Christian; Sandoval-Velasco, Marcela; Fregel, Rosa; Olalde, Iñigo; Escosa, Raül; Aranda, Carles; Huijben, Silvie; Mueller, Ivo; Marques-Bonet, Tomas; Balloux, Francois; Gilbert, Marcus Thomas Pius; Lalueza-Fox, Carles (Peer reviewed; Journal article, 2020)
      The protozoan Plasmodium vivax is responsible for 42% of all cases of malaria outside Africa. The parasite is currently largely restricted to tropical and subtropical latitudes in Asia, Oceania, and the Americas. Though, ...
    • Taxonomic and functional characterization of the microbial community during spontaneous in vitro fermentation of riesling must 

      Sirén, Kimmo; Mak, Sarah Siu Tze; Melkonian, Chrats; Carøe, Christian; Swiegers, Jan Hendrik; Molenaar, Douwe; Fischer, Ulrich; Gilbert, Marcus Thomas Pius (Journal article; Peer reviewed, 2019)
      Although there is an extensive tradition of research into the microbes that underlie the winemaking process, much remains to be learnt. We combined the high-throughput sequencing (HTS) tools of metabarcoding and metagenomics, ...