Matthew Parks, Ph.D.
Education and Certifications
PhD, Botany and Plant Pathology, Oregon State University
Master of Science, Botany, University of Idaho
Bachelor of Science, Biology, Washington University in St. Louis
Matthew Parks is an evolutionary biologist with an emphasis in phylogenetics. He uses large, genome-scale datasets to determine how different types of organisms are related to one another, how long they have been distinct from one another and what events may have happened along the way. He currently focuses on diatoms, which are unicellular, photosynthetic algae related to kelp. This group is noteworthy because they produce around 20 percent of the oxygen life breathes, an amount equivalent to the oxygen production of all of the world's tropical rainforests. The diatoms are also known for their intricate shell casings, called frustules, which are composed of glass and come in many different shapes and forms.
Matthew is excited to be a part of the UCO community, and he is happy to share research opportunities with dedicated undergraduate students. Having the opportunity to work with and train the next generation of scientists is one of the most exciting and rewarding aspects of his job.
Genetics (Biol 3303) and Genetics Lab (Biol 3311)
Research, Published Work, and Scholarly Activities
Guillory W, Onyshchenko A, Ruck E, Parks M, Nakov T, Wickett N, Alverson A. Recurrent loss, horizontal transfer, and the obscure origins of mitochondrial introns in diatoms (Bacillariophyta). Genome Biology and Evolution 10:1504-1515.
Parks M, Nakov T, Wickett NJ, Alverson AJ. 2017. Phylogenomics reveals a history of recurrent genome duplication in diatoms (Bacillariophyta). American Journal of Botany 105:330-347.
Parks M, Wickett NJ, Alverson AJ. 2017. Signal, uncertainty, and conflict in phylogenomic data for a diverse lineage of microbial eukaryotes (diatoms, Bacillariophyta). Molecular Biology and Evolution, msx268, https://doi.org/10.1093/molbev/msx268.
Gernandt, DS, Holman G, Campbell C, Parks M, Mathews S, Raubeson LA, Liston A, Stockey RA, Rothwell GW. 2016. Phylogenetics of extant and fossil Pinaceae: methods for increasing topological stability. Botany 94(9):863-884.
Govindarajulu R, Parks M, Tennessen J, Liston A, Ashman T-L. 2015. Comparison of nuclear, plastid and mitochondrial phylogenies and the origin of wild octoploid strawberry species. American Journal of Botany 102(4):1-11.
Parks M, Subramanian S, Baroni C, Salvatore MC, Zhang G, Millar CD, Lambert D. 2015. Ancient population genomics and the study of evolution. Philosophical Transactions of the Royal Society, 370:20130381.
Alexander A, Steel D, Slikas B, Hoekzema K, Carraher C, Parks M, Cronn R, Baker CS. 2013. Low diversity in the mitogenome of sperm whales revealed by next-generation sequencing. Genome Biology and Evolution, 5(1):113-29.
Salamone I, Govindarajulu R, Falk S, Parks M, Liston A, Ashman T-L. 2013. Bioclimatic, ecological and phenotypic intermediacy and high genetic admixture in a natural hybrid of octoploid strawberries. American Journal of Botany, 100(5):939-950.
Parks M, Liston A, Cronn R. 2012. Separating the wheat from the chaff: Mitigating the effects of noise in a plastome phylogenomic data set. BMC Evolutionary Biology 12:100.
Cronn R, Knaus B, Liston A, Maughan J, Parks M, Syring J, Udall J. 2012. Targeted enrichment strategies for next-generation plant biology. American Journal of Botany 99(2):291-311.
Straub S, Parks M, Weitemier K, Fishbein M, Cronn R, Liston A. 2012. Navigating the tip of the genomic iceberg: Next-generation sequencing for plant systematics. American Journal of Botany 99(2):349-364.
Handy SM, Parks M, Rader JI, Diachenko GW, Callahan J, Liston A, Deeds JR. 2011. Genetic Identification of Pine Nuts Obtained from Consumers Experiencing Dysgeusia. Journal of Agricultural and Food Chemistry 59(20):10995-11002.
Straub S, Fishbein M, Livshultz T, Foster Z, Parks M, Weitemeier K, Cronn C, Liston A. 2011. Building a Model: Developing Genomic Resources for Common Milkweed (Asclepias syriaca) with Low Coverage Genome Sequencing. BMC Genomics 12:211.
Whittall JB, Syring J, Parks M, Buenrostro J, Dick C, Liston A Cronn R. 2010. Finding a (pine) needle in a haystack: chloroplast genome sequence divergence in rare and widespread pines. Molecular Ecology 19 Suppl 1:100-114.
Parks M, Cronn R, Liston A. 2009. Increasing phylogenetic resolution at low taxonomic levels using massively parallel sequencing of chloroplast genomes. BMC Biology 7:84.
Cronn RC, Liston A, Parks M, Gernandt D, Shen R, Mockler T. 2008. Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology. Nucleic Acids Research 36(19):e122.
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