2019 Publications

PUBLICATIONS

  • Bauersachs, T, SR Miller, M Gugger, O Mudimu, T Friedl, L Schwark. 2019. Heterocyte glycolipids indicate polyphyly of stigonematalean cyanobacteria. Phytochem. 166:112059. DOI: 10.1016/j.phytochem.2019.112059

 

  • Blundell, JR, K Schwartz, D Francois, DS Fisher, G Sherlock, S Levy. 2019. The dynamics of adaptive genetic diversity during the early stages of clonal evolution. Nature Ecol Evolution 3:293-301

 

  • Boyer, S and G Sherlock. 2019. Adaptation is influenced by the complexity of environmental change during evolution in a dynamic environment. Nature Eco Evo, under review. DOI:10.1101/724419

 

  • Bublitz DC, GL Chadwick, JS Magyar, PJ Bjorkman, VJ Orphan and JP McCutcheon. 2019. Peptidoglycan production by an insect-bacterial mosaic. Cell, in press, online October 03, 2019. DOI: 10.1038/s41437-019-0267-2.

 

  • Galeota-Sprung B, B Guindon, P Sniegowski, 2019. The fitness cost of mismatch repair mutators in Saccharomyces cerevisiae: partitioning the mutational load. Heredity (in press). DOI:10.1101/639765

 

  • Galeota-Sprung B, P Sniegowski, WJ Ewens. 2019. Mutational load and the functional fraction of the human genome. Genome Biology, in review. DOI:10.1101/785865

 

  • Garcia, A., McShea, H., Kolaczskowski, B., Kacar, B. Reconstructed ancient nitrogenases suggest Mo-specific ancestry. Geobiology under review. DOI:10.1101/714469

 

  • Gloag ES, CW Marshall, D Snyder, GR Lewin, JS Harris, A Santos-Lopez, SB Chaney, M Whiteley, VS Cooper, DJ Wozniak, 2019.Pseudomonas aeruginosa interstrain dynamics and selection of hyperbiofilm mutants during a chronic infection. mBio 10:e01698-19. DOI: 10.1128/mBio.01698-19

 

  • Gulli, JG, MD Herron, WC Ratcliff. 2019 Evolution of altruistic cooperation among multicellular proto-organisms. In press, Evolution. DOI: 10.1111/evo.13727

 

  • Gulli, JG, E Cook, E Kroll, A Rosebrock, A Caudy, F Rosenzweig. 2019 Diverse conditions support near zero growth in yeast: Implications for the study of cell lifespan. Microbial Cell. DOI: 10.15698/mic2019.09.690

 

  • Gulli J, P Yunker, F Rosenzweig. 2019. Matrices (re)loaded: Durability, viability and fermentative capacity of yeast encapsulated in beads of different composition during long-term, fed-batch culture. Biotechnol Prog Oct 6:e2925. DOI: 10.1002/btpr.2925

 

  • Hall AE, Karkare K, Cooper VS, Bank C, Cooper TF, Moore FB-G. 2019. Environment changes epistasis to alter trade-offs along alternative evolutionary paths. Evolution, August 16, ePub ahead of print. DOI:10.1111/evo.13825

 

  • Herron, MD 2019. Predators drive the evolution of multicellularity. The Science Breaker 257. DOI: 10.25250/thescbr.brk257 

 

 

  • Herron, MD, JM Borin, JC Boswell, J Walker, I-CK Chen, CA Knox, M Boyd, F Rosenzweig, WC Ratcliff. 2019. De novo origins of multicellularity in response to predation.  Scientific Reports In Press. DOI: 10.1101/247361v2

 

  • Jaffe M, A Dziulko, JD Smith, RP St Onge, SF Levy, G Sherlock. 2019. Improved discovery of genetic interactions using CRISPRiSeq across multiple environments. In press, Genome Res. DOI: 10.1101/gr.246603.118

 

  • Kim J, J Jake, JJ Flood, M Kristofich, C Gidfar, AB Morgenthaler, T Fuhrer, U Sauer, D Snyder, VS Cooper, C Christopher, CC Ebmeier, WM Old, and SD Copley. 2019 Hidden resources in the E. coli genome restore PLP synthesis and robust growth after deletion of the “essential” gene pdxB. 2019. PNAS (USA), in press.

 

  • Kinnersley, M, K Schwartz, K Schmidt, G Sherlock, F Rosenzweig. 2019. Evolutionary dynamics of de novo mutations and mutant lineages arising in a simple constant environment. Under review DOI: 10.1101/540625v1

 

  • Li Y DA  Petrov, G Sherlock. 2019. Single nucleotide mapping of trait space reveals Pareto fronts that constrain adaptation. Nat Ecol Evol. 2019 Oct 14. DOI: 10.1038/s41559-019-0993-0.

 

  • Libby, E and WC Ratcliff. 2019. Lichens illuminate a novel route to multicellularity. Invited MS submitted to The Lichenologist for a special issue.

 

  • Libby, E, WC Ratcliff. 2019. Shortsighted evolution constrains the efficacy of long-term bet hedging. The American Naturalist. 193(3).  DOI: 10.1086/690937

 

  • Lopez SMC , Marshall CW, Cooper VS, Williams JV, Shaikh N. 2019. A method of processing nasopharyngeal swabs to enable multiple testing. Pediatr Res. DOI: 10.1038/s41390-019-0498-1

 

  • Lynch, KL, K Rey, RJ Bond, J Biddle, JR Spear, J Glass, F Rosenzweig, J Munakatas-Marr. Discrete community assembly within hypersaline paleolake sediments along a geochemical transect in the Great Salt Lake Desert, Utah. 2019. In review Geomicrobiology Posted to BioRiv DOI: 10.1101/634642 

 

  • Marsh JW, Mustapha MM, Griffith MP, Evans DR, Ezeonwuka C, Pasculle AW, Shutt KA, Sundermann A, Ayres AM, Shields RK, Babiker A, Cooper VS, Van Tyne D, Harrison LH. 2019. Evolution of outbreak-causing carbapenem-resistant Klebsiella pneumoniae ST258 at a tertiary care hospital over 8 years. MBio 10. DOI: 10.1128/mBio.01945-19

 

 

 

  • McCutcheon JP, B Boyd B, C Dale. 2019. The life of an insect endosymbiont from the cradle to the grave. Current Biology 29:R485–R495. DOI: 10.1016/j.cub.2019.03.032

 

  • Peipoch M, SR Miller, T Antão and HM Valett. 2019 Niche partitioning of microbial communities in riverine floodplains. Sci. Reports, accepted.

 

  • Reeme AE, Bowler SL, Cooper VS, Munoz-Price LS. 2019. Use of a cohorting-unit and systematic surveillance cultures to control a Klebsiella pneumoniae carbapenemase (KPC)-producing Enterobacteriaceae outbreak. Infect Control Hosp Epidemiol 1–7. DOI: 10.1017/ice.2019.99

 

  • Santos-Lopez A, Marshall CW, Scribner MR, Snyder DJ, Cooper VS. 2019. Evolutionary pathways to antibiotic resistance are dependent upon environmental structure and bacterial lifestyle. eLife 8:e47612. DOI:10.7554/eLife.47612

 

  • Smith, E.  2019. The information geometry of 2-field functional integrals. Inform Geom, In review

 

  • Sundermann AJ, Cooper VS, Harrison LH. 2019. Outbreak of Vancomycin-resistant Enterococcus faecium in Interventional Radiology: Detection Through Whole Genome Sequencing-Based Surveillance. Clin Infect Dis., ahead of press DOI: 10.1093/cid/ciz666

 

  • Sundermann AJ, A Babiker, JW Marsh, KA Shutt, MM Mustapha, AW Pasculle, C Ezeonwuka, MI Saul, MP Pacey, D Van Tyne, AM Ayres, VS Cooper, G Snyder, LH Harrison. 2019. Outbreak of vancomycin-resistant Enterococcus faecium in interventional radiology: Detection through whole genome sequencing-based surveillance. Clin Infect Dis DOI: 10.1093/cid/ciz666

 

  • Tan, J.  Q He, JT Pentz, C Peng, X Yang, M-H Tsai, Y Chen, WC Ratcliff, L Jiang. 2019. Copper oxide nanoparticles promote the evolution of multicellularity in yeast. Nanotoxicology, online early. DOI: 10.1080/17435390.2018.1553253.

 

  • Torres A, N Kasturiarachi, M DuPont, VS Cooper, J Bomberger, A Zemke. 2019. NADH Dehydrogenases in Pseudomonas aeruginosa Growth and Virulence. Front Microbiol 10:75 DOI: 10.10.3389/fmicb.2019.00075

 

  • Van Leuven JT, M Mao, DD Xing, GM Bennett, JP McCutcheon. 2019. Cicada endosymbionts contain tRNAs that are processed despite having genomes that lack tRNA processing activities. mBio 10:e01950-18. DOI: 10.1128/mBio.01950-18

 

  • Yang, D-D, A Alexander, M Kinnersley, E Cook, A Caudy, A Rosebrock, F Rosenzweig. 2019.  Fitness and productivity increase with ecotypic diversity among E. coli evolved in a simple, constant environment. In review, Appl Environ Microbiol Posted to BioRxiv DOI:10.1101/679969  

 

  • Yanni, D., P. Márquez-Zacarías, PJ Yunker, WC Ratcliff. 2019. Drivers of spatial structure in social microbial communities. Current Biology29(11), R545-R550. DOI: 10.1016/j.cub.2019.03.068