Summary of Research
Arianna uses computational tools to study phytoplankton, microscopic photosynthesizers in the global ocean. Using a suite of techniques from genetics, bioinformatics, and mathematical modeling, Arianna studies the trajectory of species like coccolithophores, microbes that produce calcium carbonate skeletons, under global change, and also seeks to understand the underpinnings of their physiology by better understanding what parts of their genome they are using and by modeling the use of nutrients by each species. Most recently, Arianna has started lab and culture work to generate data to complement her computer simulations and data analysis. These experiments, including single-cell transcriptomic work, which allows for the transcribed RNA of phytoplankton to be resolved at the level of individual cells, will present new computational challenges and inform ongoing modeling efforts. As an oceanographer, Arianna also has the opportunity to participate in fieldwork, and has recently collected measurements on two oceanographic cruises.
In Press / Preprint -
Krinos A.I., Hu SK, Cohen NR, Alexander H. EUKulele: Taxonomic annotation of the unsung eukaryotic microbes. Journal of Open Source Software. 2021; 6(57):2817. https://doi.org/10.21105/joss.02817, doi: 10.21105/joss.02817.
Alexander, H., Hu, S. K., Krinos, A. I., Pachiadaki, M., Tully, B. J., Neely, C. J., & Reiter, T. (2021). Eukaryotic genomes from a global metagenomic dataset illuminate trophic modes and biogeography of ocean plankton. bioRxiv. (Submitted for peer review).
Tully, B. J., Buongiorno, J., Cohen, A. B., Cram, J. A., Garber, A. I., Hu, S. K., Krinos, A.I.... & BVCN Instructor Consortium. (2021). The Bioinformatics Virtual Coordination Network: An Open-Source and Interactive Learning Environment. In Frontiers in Education (p. 394). Frontiers.
Weissman, J. L., Dimbo, E. R. O., Krinos, A. I., Neely, C., Yagues, Y., Nolin, D., ... & Fuhrman, J. A. (2021). Estimating the maximal growth rates of eukaryotic microbes from cultures and metagenomes via codon usage patterns. bioRxiv. (Submitted for peer review).
Walke, J. B., Becker, M. H., Krinos, A.I., Chang, E. A., Santiago, C., Umile, T. P., ... & Belden, L. K. (2021). Seasonal changes and the unexpected impact of environmental disturbance on skin bacteria of individual amphibians in a natural habitat. FEMS Microbiology Ecology, 97(3), fiaa248.
In Prep -
Krinos, A.I., Schulz, F., McMahon, K., Bowers, R., and Woyke, T. Retrospective ecological monitoring of a large dimictic lake via time-series metagenomics reveals a shift towards increasingly diverse eukaryotes and candidate bacterial affiliates. In Prep.
Krinos, A.I., Cohen, N.R., Follows, M.J., and Alexander, H. Reverse engineering environmental metatranscriptomes clarifies best practices for eukaryotic assembly. In Prep.
Farrell, K. J., Ward, N. K., Krinos, A. I., Hanson, P. C., Daneshmand, V., Figueiredo, R. J., & Carey, C. C. (2020). Ecosystem-scale nutrient cycling responses to increasing air temperatures vary with lake trophic state. Ecological Modelling, 430, 109134.
Krinos, A.I., Farrell, K.J., Daneshmand, V., Subratie, K.C., Figueiredo, R.J. and Carey, C.C., 2019. Including variability in air temperature warming scenarios in a lake simulation model highlights uncertainty in predictions of cyanobacteria. bioRxiv, p.734285.
Krinos, A. and Maurais, A., 2019. Parameter and Uncertainty Estimation for a Model of Atmospheric CO2 Observations. SIAM Undergraduate Journal, 12.
Carey, C.C., Ward, N.K., Farrell, K.J., Lofton, M.E., Krinos, A.I., McClure, R.P., Subratie, K.C., Figueiredo, R.J., Doubek, J.P., Hanson, P.C. and Papadopoulos, P., 2019. Enhancing collaboration between ecologists and computer scientists: lessons learned and recommendations forward. Ecosphere, 10(5), p.e02753.
Maurais, A.E. and Krinos, A.I. (co-first authors), 2018. Nuggets of Wisdom from Destinations Doomed Due to Dragon Dominion. UMAP Journal, 40 (4), 295-324.
Nagle, L., Brown, S., Krinos, A.I., & Ahearn, G.A., 2018. Ocean acidification: effects of pH on 45Ca uptake by lobster branchiostegites. Journal of Comparative Physiology B. https://doi.org/10.1007/s00360-018-1173-2
Maurais, A.E. and Krinos, A.I. (co-first authors), 2018. Better to Marry Renewables than to Burn Fossil Fuels in Border States. UMAP Journal, 39 (3).
(* indicates presenting author)
Freilich, M., Pacini, A., et al. including Krinos, A. Hurricane Dorian Impacts on Northeast US Shelf Marine Hydrography and Ecosystem. Ocean Sciences Meeting, San Diego, CA, February 2020.
Krinos, A.I.*, K. Dixon, A. Ross, and C. Stock. Understanding spatial effects of climate change on Chesapeake Bay blue crab using statistical downscaling and agent-based modeling. Society for Integrative and Comparative Biology Annual Meeting, Tampa, FL, January 2019.
Krinos, A.I.*, K. Dixon, A. Ross, and C. Stock. Understanding spatial effects of climate change on Chesapeake Bay blue crab using statistical downscaling and agent-based modeling. American Society for Limnology and Oceanography Aquatic Sciences Meeting, San Juan, Puerto Rico, February 2019.
Krinos, A.I.* and A.E. Maurais*. Parameter and Uncertainty Estimation for a Model of Atmospheric CO2 Observations. Department of Mathematics Annual Research Presentations, Blacksburg, VA, May 2018.
Farrell, K.J.*, C.C Carey, A.I. Krinos, N.K. Ward, P.C. Hanson, R.J. Figueiredo, V. Daneshmand, K. Subratie. GRAPLEr Platform Accelerates Whole-Ecosystem Simulation Modeling to Increase Understanding of Climate Change Impacts on Lake Nutrient Cycling. Ecological Society of America Annual Meeting, New Orleans, LA, August 2018.
Carey, C.C.*, R.J. Figueiredo, P.C. Hanson, A.L. Hetherington, A.I. Krinos, K. Subratie, and J.T. Sukumar. Ensemble-based simulation modeling reveals non-linear water quality responses to climate and land use change scenarios in a eutrophic lake. Ecological Society of America Annual Meeting, Portland, OR, August 2017.
Krinos, A.I.*, M. Billah, P. Valayamkunnath, and V. Sridhar. Hydroclimatology of the New River Basin for effective land and water management. American Society of Agricultural and Biological Engineers Annual International Meeting, Orlando, FL, July 2016.
(* indicates presenting author)
Krinos, A.I.*, D.M. Medina, M.C. Hughey, J.B. Walke, Z. Gajewski, L.S. Sarment, and L.K. Belden. An evaluation of the predictive potential of gene sequences for antifungal capacity of amphibian skin bacterial isolates. Society for Integrative and Comparative Biology Annual Meeting, Tampa, FL, January 2019.
Krinos, A.I.*, R.J. Figueiredo, P.C. Hanson, A.L. Hetherington, K. Subratie, J.T. Sukumar, and C.C. Carey. Numerical simulation modeling coupled to the GRAPLEr distributed computing platform provides insight into lake water quality responses and land use change. Pacific Rim Applications and Grid Middleware Assembly (PRAGMA) 32nd Bi-Annual Meeting, Gainesville, FL, April 2017.
Krinos, A.I.*, J. Han, P. Kogta, and S. McCrickard. Assessing Youth Attitudes on the Use of Sensor Technologies and Modeling in Managing Drinking Water. VT Undergraduate Research in Comp. Sci. Symposium, Blacksburg, VA, May 2018.
Krinos, A.I.*, and G.A. Ahearn. Effect of pH on uptake of calcium by crustacean gills. Society for Integrative and Comparative Biology Annual Meeting, New Orleans, LA, January 2017.
Krinos, A.I.*, L. Sarment*, J.B. Walke, D. Medina, M. Hughey, and L.K. Belden. Batrachochytrium-Battling Bacteria Foils Fungus Found on Frogs. Virginia Branch of the American Society for Microbiology Annual Meeting, Roanoke, VA, November 2016.
Ocean Venture Fund, MIT-WHOI Joint Program, $9600 award to conduct research on selenium limitation in Emiliania huxleyi, July 2020
Outstanding Senior, Virginia Tech Department of Computer Science, April 2019
Service Award, Virginia Tech Department of Computer Science, April 2019
Outstanding Senior Research Award, Virginia Tech College of Science, April 2019
Outstanding Senior Award, Virginia Tech Department of Computational Modeling and Data Analytics, April 2019
Goldwater Scholarship, March 2018
Hollings Scholarship (NOAA), May 2017
Astronaut Scholarship, June 2017
Outstanding Winner, International Mathematical Competition in Modeling, April 2019
Outstanding Winner (one of 16 teams out of 10,670), International Mathematical Competition in Modeling (also COMAP International Scholarship and Mathematical Association of America (MAA) Award, April 2018
Layman Prize (top undergraduate research talk in Virginia Tech Mathematics, with teammate), May 2018
Luther and Alice Hamlett Research Grant ($3,000 to Academy of Integrated Science student to support undergraduate research), December 2017
Best Poster Award, Pacific Rim Applications and Grid Middleware Assembly (PRAGMA) Annual Meeting, April 2017
Second Place in Division, Virginia Tech Fall Data Analytics Competition, November 2017
Eleanor Davenport Leadership Scholarship, Virginia Tech College of Engineering, May 2015 - May 2019 William C. McAllister Leadership Scholarship, Virginia Tech College of Engineering, May 2018
Society of Women Engineers: General Electric Women's Network / Northrup Grumman Scholarship, May 2016 / May 2017
National Merit Scholar, 2015
National AP Scholar, 2014
Dean's List with Distinction, 2015-2019