Michael D. Martin
Background and activities
Research in my lab involves analyzing genome sequences in order to reconstruct and interpret the evolutionary histories of plants, animals, and their pathogens. I am particularly attracted to cases in which ancient/degraded DNA derived from natural history collections allows us to explain present-day distributions of biodiversity by looking directly into the past.
Research opportunities for master students are available in the Holomuseomics research group. I encourage you to make contact if you are interested in becoming involved.
Scientific, academic and artistic work
Displaying a selection of activities. See all publications in the database
- (2022) Uncovering the genomic basis of an extraordinary plant invasion. Science Advances. vol. 8 (34).
- (2022) Microbiome “Inception”: an Intestinal Cestode Shapes a Hierarchy of Microbial Communities Nested within the Host. mBio. vol. 13 (3).
- (2022) The genomic basis of the plant island syndrome in Darwin’s giant daisies. Nature Communications. vol. 13 (1).
- (2022) Distinctive mitogenomic lineages within populations of white-tailed eagles (Haliaeetus albicilla). Journal of Ornithology.
- (2022) Exploring the emergence and evolution of plant pathogenic microbes using historical and paleontological sources. Annual Review of Phytopathology. vol. 60.
- (2021) Assessing spatial patterns of phylogenetic diversity of Mexican mammals for biodiversity conservation. Global Ecology and Conservation. vol. 31.
- (2021) Evidence of long-term purging of mutation load in killer whale genomes. bioRxiv - the preprint server for biology.
- (2021) Runs of homozygosity in killer whale genomes provide a global record of demographic histories. Molecular Ecology. vol. 30 (23).
- (2021) Extensive genome-wide phylogenetic discordance is due to incomplete lineage sorting and not ongoing introgression in a rapidly radiated bryophyte genus. Molecular Biology and Evolution (MBE). vol. 38 (7).
- (2021) Genome-resolved metagenomics suggests a mutualistic relationship between Mycoplasma and salmonid hosts. Communications Biology. vol. 4.
- (2021) Applied Uses of Ancient DNA. Frontiers in Ecology and Evolution. vol. 9.
- (2021) The persistent threat of emerging plant disease pandemics to global food security. Proceedings of the National Academy of Sciences of the United States of America. vol. 118 (23).
- (2021) Will borealization of Arctic tundra herbivore communities be driven by climate warming or vegetation change?. Global Change Biology. vol. 27 (24).
- (2020) Herbarium Collection-Based Plant Evolutionary Genetics and Genomics. Frontiers in Ecology and Evolution. vol. 8.
- (2020) Genomic adaptations and evolutionary history of the extinct scimitar-toothed cat, Homotherium latidens. Current Biology. vol. 30 (24).
- (2020) Metagenomic analysis of historical herbarium specimens reveals a postmortem microbial community. Molecular Ecology Resources. vol. 20.
- (2020) The evolutionary history of extinct and living lions. Proceedings of the National Academy of Sciences of the United States of America. vol. 117 (20).
- (2020) Inference of natural selection from ancient DNA. Evolution Letters. vol. 4 (2).
- (2020) Ancient plant genomics in archaeology, herbaria, and the environment. Annual Review of Plant Biology. vol. 71.
- (2019) Killer whale genomes reveal a complex history of recurrent admixture and vicariance. Molecular Ecology. vol. 28 (14).
- (2019) Population genomics of an outbreak of the potato late blight pathogen, Phytophthora infestans, reveals both clonality and high genotypic diversity. Molecular plant pathology. vol. 20 (8).
- (2019) Differential patterns of floristic phylogenetic diversity across a post-glacial landscape. Journal of Biogeography. vol. 47.
- (2019) Trophic interactions and abiotic factors drive functional and phylogenetic structure of vertebrate herbivore communities across the Arctic tundra biome. Ecography. vol. 42 (6).
- (2019) Demographic reconstruction from ancient DNA supports rapid extinction of the great auk. eLIFE. vol. 8:e47509.
- (2018) Implications and future prospects for evolutionary analyses of DNA in historical herbarium collections. Botany Letters. vol. 165 (3-4).
- (2018) Herbarium collection-based phylogenetics of the ragweeds (Ambrosia, Asteraceae). Molecular Phylogenetics and Evolution. vol. 120.
- (2018) Recent Asian origin of chytrid fungi causing global amphibian declines. Science. vol. 360.
- (2017) The next generation fungal diversity researcher. Fungal Biology Reviews. vol. 31 (3).
- (2017) Determination of genetic relatedness from low-coverage human genome sequences using pedigree simulations. Molecular Ecology. vol. 26 (16).
- (2017) Characterizing restriction enzyme-associated loci in historic ragweed (Ambrosia artemisiifolia) voucher specimens using custom-designed RNA probes. Molecular Ecology Resources. vol. 17 (2).
- (2017) An ‛Aukward’ tale: a genetic approach to discover the whereabouts of the last Great Auks. Genes. vol. 8 (6).
- (2016) Genome-culture coevolution drives rapid divergence in the killer whale. Nature Communications. vol. 7.
- (2016) The population genomic basis of geographic differentiation in North American common ragweed (Ambrosia artemisiifolia L.). Ecology and Evolution. vol. 6 (11).
- (2016) Genomic characterization of a South American Phytophthora hybrid mandates reassessment of the geographic origins of Phytophthora infestans. Molecular Biology and Evolution (MBE). vol. 33.
- (2016) Historic late blight outbreaks caused by a widespread dominant lineage of Phytophthora infestans (Mont.) de Bary. PLOS ONE. vol. 11:e0168381 (12).
- (2015) Ancient genomics. Philosophical Transactions of the Royal Society of London. Biological Sciences. vol. 370.
- (2014) Persistence of the mitochondrial lineage of the Irish potato famine pathogen in the New World. Molecular Biology and Evolution (MBE). vol. 31.
- (2014) Herbarium specimens reveal a phylogeographic shift in common ragweed during native range disturbance. Molecular Ecology. vol. 23.
- (2014) Characterizing ancient genomes: from sequence reads to SNP detection, phylogenomics, and metagenomics analyses. Nature Protocols. vol. 9.
- (2014) Comparative genomics reveals insights into avian genome evolution and adaptation. Science. vol. 346 (6215).
- (2013) Reconstructing genome evolution in historic samples of the Irish potato famine pathogen. Nature Communications. vol. 4.
- (2010) Anthesis synchronization and floral morphology determine diurnal patterns of ragweed pollen dispersal. Agricultural and Forest Meteorology. vol. 150.