MARK A. PHILLIPS
  • HOME
  • RESEARCH
  • PUBLICATIONS
  • PEOPLE
  • JOIN

Publications
​*indicates co-first authors

In review or revision

Phillips M.A., Briar R.K., Scaffo M., Zhou S., Burke M.K. Strength of selection potentiates distinct adaptive responses in an evolution experiment with outcrossing yeast. In Review (bioRxiv: https://doi.org/10.1101/2022.05.19.492575)

Kezos J.N., Barter T.T., Cabral L.G., Phillips M.A., Azatian G., Buenprostro J.E., Bhangoo P.S., Khong A., Reyes G.T., Rahman A., Humphrey L.A., Bradley T.J., Mueller L.D., Rose M.R. Building bridges from genome to physiology using machine learning and Drosophila experimental evolution. In Review (bioRxiv: https://doi.org/10.1101/2022.07.18.500543).

Vue Z., Garza Lopez E., Neikirk K., Vang L., Beasley H., Shao J., Marshall A., Crabtree A., Evans C., Taylor B., Christensen T.A., Lam J., Rodriguez B., Dal J., Shao B., Phillips M.A., Davis J., Reddy A.K., Quintana A.M., Murray S.A., Exil V., Mobley B., Gomez J.A., Dai D., Hinton A. 3D reconstructions of mouse skeletal muscle reveal a decrease in the MICOS complex and altered mitochondrial networks. In Review (bioRxiv: https://doi.org/10.1101/2022.03.22.485341)

Vue Z., Neikirk K., Vang L., Garza-Lopez E., Christensen T.A., Shao J., Lam J., Beasley H.K., Marshall A.G., Crabtree A., Anudokem J., Rodriguez B., Kirk B., Bavevac S., Barogan T., Shao B., Evans C.S., Taylor B., Reddy A.K., Murray S.A., Mobley B.C., Gomez J.A., Phillips M.A., Exil V., Dai D., Hinton A. Tri-dimensionla mitochondria reconstructions of cardiac muscle changes in size across aging due to the MICOS Complex. In Revision. (bioRxiv: https://doi.org/10.1101/2022.04.23.489291).

Barter T.T., Greenspan Z.S., Phillips M.A., Ranz J.M., Rose M.R., Mueller L.D. Genome-Wide Architecture of Adaptation in Experimentally Evolved Drosophila characterized by widespread pleiotropy. In Review (bioRxiv: https://doi.org/10.1101/2020.10.30.361857​) 

2022

Phillips M.A., Arnold K.R., Vue Z., Beasley H., Garza Lopez E., Marshall A., Morton D., McReynolds M.R., Barter T.T., Hinton A. (2022) Combining metabolomics and experimental evolution reveals key mechanisms underlying longevity differences in laboratory evolved Drosophila melanogaster populations. Int. J. Mol. Sci. ​doi:https://doi.org/10.3390/ijms23031082
​

2021

Phillips M.A., McHugh K.M., Taggard S.K., Kutch I.C., Burke M.K. (2021) Crossing design shapes patterns of genetic variation in synthetic recombinant populations of Saccharomyces cerevisiae. Scientific Reports 11:19551 doi:10.1038/s41598-021-99026-0

Shahrestani P., King E., Ramezan R., Phillips M.A., Riddle M., Thornburg M., Greenspan Z.S.,  Estrella Y., Garcia K., Chowdhury P., Malarat G., Zhu M., Rottshaefer S.M., Wraight S., Griggs M., Vandenberg J., Long A.D., Clark A.G., Lazzaro B.P. (2021) The molecular architecture of Drosophila melanogaster defense against Beauveria bassiana explored through evolve and resequence and quantitative trait locus mapping. G3: Genes, Genomes, Genetics 11:324.

Phillips M.A. and Burke M.K. (2021) Can laboratory evolution experiments teach us about natural populations? Molecular Ecology 30:877-87

2020

Phillips M.A., Kutch I.C., Long A.D., Burke M.K. (2020) Increasing time-sampling in an evolve and resequence experiment with outcrossing Saccharomyces cerevisiae reveals multiple paths of adaptive change. Molecular Ecology 29:4898-4912
​
Wing K.M., Phillips M.A, Baker A.R., Burke M.K. (2020) Consequences of cryopreservation in diverse natural isolates of Saccharomyces cerevisiae. Genome Biology and Evolution 12:1302-131

2019

Kezos J.N., Phillips M.A., Thomas M.D., Ewunkem A.J., Rutledge G.A., Barter T.T., Santos M.A., Wong B.D., Arnold K.R., Humphrey L.A., Yan A., Nouzille C., Sanchez I., Cabral L.G., Bradley T.J., Mueller L.D., Graves J.L., Rose M.R. (2019) Genomic and phenotypic effects of selection for starvation resistance in Drosophila. Physiological and Biochemical Zoology 92:591-611
 
Barter T.T., Greenspan Z.S., Phillips M.A., Mueller L.D., Rose M.R., Ranz J.M. (2019) Drosophila transcriptomics with and without ageing. Biogerontology 20:699-710

2018

Phillips M.A.*, Rutledge G.A.*, Kezos J.N., Talbott A., Matty S., Arian H., Mueller L.D., Rose M.R, Shahrestani P. (2018) Effects of evolutionary history on genome wide and phenotypic convergence in Drosophila populations. BMC Genomics 19:743
 
Mueller L.D., Phillips M.A., Barter T.T., Greenspan Z.S., Rose M.R. (2018). Genome-wide mapping of gene-phenotype relationship in experimentally evolved populations. Molecular Biology and Evolution 35:2085-2095
 
Phillips M.A. and Rose M.R. Experimental evolution. (2018) Oxford Bibliographies in Evolutionary Biology. New York: Oxford University Press. DOI: 10.1093/OBO/9780199941728-0107

2017

Graves J.L.*, Hertweck K.L*, Phillips M.A.*,  Han M.V.*, Cabral L.G., Barter T.T., Greer L.F., Burke M.K., Mueller L.D., and Rose M.R. (2017) Genomics of parallel experimental evolution in Drosophila. Molecular Biology and Evolution 34:831-842
 
Rose M.R., Greer L.F., Phung K.H., Rutledge G.A., Phillips M.A., Anderson C.N.K., and Mueller L.D. (2017). A Hamiltonian Demography of Life History. In R. Shefferson, O. Jones, & R. Salguero-Gómez (Eds.), The Evolution of Senescence in the Tree of Life (pp. 40-55). Cambridge: Cambridge University Press

2016

Phillips M.A., Long A.D., Greenspan Z.S., Greer L.F., Burke M.K., Bryant V., Matsagas K.C., Rizza C.L., Mueller L.D., and Rose M.R. (2016) Genome-wide analysis of long-term evolutionary domestication in Drosophila melanogaster. Scientific Reports 6:39281; doi:10.1038/srep39281
 
Burke M.K., Barter T.B., Cabral L.G., Kezos J.N., Phillips M.A., Rutledge G.A., Phung K.H., Chen R.H., Nguyen H.D., Mueller L.D., and Rose M.R. (2016) Rapid convergence and divergence of life-history in experimentally evolved Drosophila melanogaster. Evolution 70:2085-2098

2015

Rose M.R., Cabral L.G., Kezos J.N, Phillips M.A., Smith B.L., and Burnham T.C. (2015). Four steps towards the control of aging: Following the example of infectious disease. Biogerontology 17:21-31

2014

Rose M.R., Rutledge, G.A., Phung K.H., Phillips M.A., Greer L.F., and Mueller L.D. (2014) An evolutionary and genomic approach to the challenges and opportunities for eliminating aging. Current Aging Science 7:54-49
 
Rose M. R, Cabral L.G., Phillips M.A., Rutledge G.A., Phung K.H., Mueller L.D., and Greer L.F. (2014). The Great Evolutionary Divide: Two Genomic Systems Biologies of Aging. Interdisciplinary Topics in Gerontology and Geriatrics 40:63-73
  • HOME
  • RESEARCH
  • PUBLICATIONS
  • PEOPLE
  • JOIN