• An ‛Aukward’ tale: a genetic approach to discover the whereabouts of the last Great Auks 

      Thomas, Jessica E; Carvalho, Gary R.; Haile, James; Martin, Michael David; Castruita, Jose A. Samaniego; Niemann, Jonas; Sinding, Mikkel Holger Strander; Sandoval-Velasco, Marcela; Rawlence, Nicolas J.; Fuller, Errol; Fjeldså, Jon; Hofreiter, Michael; Stewart, John R; Gilbert, Marcus Thomas Pius; Knapp, Michael (Journal article; Peer reviewed, 2017)
      One hundred and seventy-three years ago, the last two Great Auks, Pinguinus impennis, ever reliably seen were killed. Their internal organs can be found in the collections of the Natural History Museum of Denmark, but the ...
    • Demographic reconstruction from ancient DNA supports rapid extinction of the Great Auk 

      Thomas, Jessica E; Carvalho, Gary R.; James, Haile; Rawlence, Nicolas J.; Martin, Michael David; Ho, Simon Y.W.; Sigfússon, Arnór; Jósefsson, Vigfús A.; Frederiksen, Morten; Linnebjerg, Jannie F.; Castruita, Jose A. Samaniego; Niemann, Jonas; Sinding, Mikkel-Holger S.; Sandoval-Velasco, Marcela; Soares, André E.R.; Lacy, Robert; Barilaro, Christina; Best, Julia; Brandis, Dirk; Cavallo, Chiara; Elorza, Mikelo; Garrett, Kimball L; Groot, Maaike; Johansson, Friederike; Lifjeld, Jan Terje; Nilson, Göran; Serjeanston, Dale; Sweet, Paul; Fuller, Errol; Hufthammer, Anne Karin; Meldgaard, Morten; Fjeldså, Jon; Shapiro, Beth; Hofreiter, Michael; Gilbert, Marcus Thomas Pius; Knapp, Michael (Journal article; Peer reviewed, 2019)
      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. We investigated the impact of human hunting on its demise by ...
    • Differential patterns of floristic phylogenetic diversity across a post-glacial landscape 

      Mienna, Ida M.; Speed, James David Mervyn; Bendiksby, Mika; Thornhill, Andrew H.; Mishler, Brent D; Martin, Michael David (Journal article; Peer reviewed, 2019)
      Aim: In this study, we explored spatial patterns of phylogenetic diversity (PD) and end-emism in the flora of Norway and tested hypothesized post-glacial environmental drivers of PD, including temperature, precipitation, ...
    • Editorial: Herbarium Collection-Based Plant Evolutionary Genetics and Genomics 

      Bakker, Freek T.; Bieker, Vanessa Carina; Martin, Michael David (Peer reviewed; Journal article, 2020)
      Over the past centuries and especially the last decades, herbarium collections world-wide have amassed an estimated 350 million specimens of plants and fungi, deposited in 3,400 herbaria world-wide (Soltis, 2017). Many of ...
    • Genome-resolved metagenomics suggests a mutualistic relationship between Mycoplasma and salmonid hosts 

      Rasmussen, Jacob A.; Villumsen, Kasper Rømer; Duchêne, David; Puetz, Lara; Delmont, Tom; Sveier, Harald; von Gersdorff Jørgensen, Louise; Præbel, Kim; Martin, Michael David; Bojesen, Anders Miki; Gilbert, Marcus Thomas Pius; Kristiansen, Karsten; Limborg, Morten T. (Peer reviewed; Journal article, 2021)
      Salmonids are important sources of protein for a large proportion of the human population. Mycoplasma species are a major constituent of the gut microbiota of salmonids, often representing the majority of microbiota. Despite ...
    • Genomic adaptations and evolutionary history of the extinct scimitar-toothed cat, Homotherium latidens 

      Barnett, Ross; Westbury, Michael V; Sandoval-Velasco, Marcela; Vieira, Filipe G.; Jeon, Sungwon; Zazula, Grant; Martin, Michael David; Ho, Simon Y.W.; Mather, Niklas; Gopalakrishnan, Shyam; Ramos-Madrigal, Jazmín; de Manuel, Marc; Zepeda-Mendoza, Marie Lisandra; Antunes, Agostinho; Carmona Baez, Aldo; De Cahsan, Binia; Larson, Greger; O'Brien, Stephen J.; Eizirik, Eduardo; Johnson, Warren E.; Koepfli, Klaus-Peter; Wilting, Andreas; Fickel, Jörns; Dalén, Love; Lorenzen, Eline D.; Marques-Bonet, Tomas; Hansen, Anders J.; Zhang, Guojie; Bhak, Jong; Yamaguchi, Nobuyuki; Gilbert, Marcus Thomas Pius (Journal article; Peer reviewed, 2020)
      Homotherium was a genus of large-bodied scimitar-toothed cats, morphologically distinct from any extant felid species, that went extinct at the end of the Pleistocene [1, 2, 3, 4]. They possessed large, saber-form serrated ...
    • Herbarium collection-based phylogenetics of the ragweeds (Ambrosia, Asteraceae) 

      Martin, Michael David; Quiroz-Claros, Elva; Brush, Grace S.; Zimmer, Elizabeth A. (Journal article; Peer reviewed, 2018)
      Ambrosia (Asteraceae) is a taxonomically difficult genus of weedy, wind-pollinated plants with an apparent center of diversity in the Sonoran Desert of North America. Determining Ambrosia’s evolutionary relationships has ...
    • Historic late blight outbreaks caused by a widespread dominant lineage of Phytophthora infestans (Mont.) de Bary 

      Saville, Amanda; Martin, Michael David; Ristaino, Jean B. (Peer reviewed; Journal article, 2016)
      Phytophthora infestans (Mont.) de Bary, the causal agent of potato late blight, was responsible for the Irish potato famine of the 1840s. Initial disease outbreaks occurred in the US in 1843, two years prior to European ...
    • Implications and future prospects for evolutionary analyses of DNA in historical herbarium collections 

      Bieker, Vanessa Carina; Martin, Michael David (Journal article, 2018)
      Global herbarium collections house a vast number of plant specimens stretching back over centuries. They include rare and extinct species, important historical collections, and valuable type specimens that could help to ...
    • Inference of natural selection from ancient DNA 

      Dehasque, Marianne; Ávila-Arcos, María C; Díez-del-Molino, David; Fumagalli, Matteo; Guschanski, Katerina; Lorenzen, Eline D.; Malaspinas, Anna-Sapfo; Marques-Bonet, Tomas; Martin, Michael David; Murray, Gemma G.R.; Papadopulos, Alexander; Therkildsen, Nina Overgaard; Wegmann, Daniel; Dalén, Love; Foote, Andrew (Peer reviewed; Journal article, 2020)
      Evolutionary processes, including selection, can be indirectly inferred based on patterns of genomic variation among contemporary populations or species. However, this often requires unrealistic assumptions of ancestral ...
    • Metagenomic analysis of historical herbarium specimens reveals a postmortem microbial community 

      Bieker, Vanessa Carina; Sánchez Barreiro, Fatima; Rasmussen, Jacob Agerbo; Brunier, Marie; Wales, Nathan; Martin, Michael David (Peer reviewed; Journal article, 2020)
      Advances in DNA extraction and next-generation sequencing have made a vast number of historical herbarium specimens available for genomic investigation. These specimens contain not only genomic information from the individual ...
    • Phylogenetic Diversity of Arctic Vertebrate Herbivores 

      Skjelbred, Ina Åsnes (Master thesis, 2017)
      Understanding spatial diversity patterns, and factors shaping these patterns, is crucial for conservation planning, and is particularly important in areas undergoing severe climatic change. Traditionally, spatial diversity ...
    • Population genomics of an outbreak of the potato late blight pathogen, Phytophthora infestans, reveals both clonality and high genotypic diversity 

      Maurice, Sundy Ursula Mary Jane; Montes, Melanie; Nielsen, Bent J.; Bødker, Lars; Martin, Michael David; Jønck, Carina; Kjøller, Rasmus; Rosendahl, Søren (Journal article; Peer reviewed, 2019)
      An outbreak of the potato late blight pathogen Phytophthora infestans in Denmark was characterized in order to resolve the population structure and determine to what extent sexual reproduction was occurring. A standard set ...
    • Runs of homozygosity in killer whale genomes provide a global record of demographic histories 

      Foote, Andrew; Hooper, Rebecca; Alexander, Alana; Baird, Robin; Baker, Scott; Ballance, Lisa; Barlow, Jay; Brownlow, Andrew; Collins, Tim; Constantine, Rochelle; Rosa, Luciano Dalla; Davison, Nicholas J.; Durban, John; Esteban, Ruth; Excoffier, Laurent; Forney, Karin A.; Gerrodette, Tim; Gilbert, Marcus Thomas Pius; Guinet, Christophe; Hanson, M. Bradley; Li, Songhai; Martin, Sarah; Martin, Michael David; Robertson, Kelly M.; Samarra, Filipa I.P.; de Stephanis, Renaud; Tavares, Sara B.; Tixier, Paul; Totterdell, John A.; Wade, Paul; Wolf, Jochen B.W.; Fan, Guangyi; Zhang, Yaolei; Morin, Phillip A. (Peer reviewed; Journal article, 2021)
      Runs of homozygosity (ROH) occur when offspring inherit haplotypes that are identical by descent from each parent. Length distributions of ROH are informative about population history; specifically, the probability of ...
    • Trophic interactions and abiotic factors drive functional and phylogenetic structure of vertebrate herbivore communities across the Arctic tundra biome 

      Speed, James David Mervyn; Skjelbred, Ina Åsnes; Barrio, Isabel C.; Martin, Michael David; Berteaux, Dominique; Bueno, Guillermo; Christie, Katie; Forbes, Bruce C.; Forbey, Jennifer; Fortin, Daniel; Grytnes, John-Arvid; Hoset, Katrine Skamfer; Lecomte, Nicolas; Marteinsdottir, Bryndis; Mosbacher, Jesper Bruun; Pedersen, Åshild Ø.; Ravolainen, Virve; Rees, Eileen C.; Skarin, Anna; Sokolova, Natalya; Thornhill, Andrew H; Tombre, Ingunn; Soininen, Eeva M (Journal article; Peer reviewed, 2019)
      Communities are assembled from species that evolve or colonise a given geographic region, and persist in the face of abiotic conditions and interactions with other species. The evolutionary and colonisation histories of ...
    • Using historical herbarium specimens to elucidate the evolutionary genomics of plant invasion 

      Bieker, Vanessa Carina (Doctoral theses at NTNU;2021:77, Doctoral thesis, 2021)
      The world’s herbarium collections contain a vast number of specimens that were collected up to 400 years ago. Due to recent advances in DNA extraction and sequencing, these specimens are now readily available for use in ...