C.V.

Robert L. Baker, Ph.D.
robert.baker@uwyo.edu
NSF Postdoctoral Research Fellow
1000 E. University Ave
Department of Botany
University of Wyoming
Laramie, WY 28071

EDUCATION

Ph.D. Ecology and Evolutionary Biology. 2012. University of Colorado at Boulder. Dissertation: “The molecular and morphological microevolution and development of Mimulus guttatus (Phrymaceae) shoot architecture” (Advisor Dr. Pamela K. Diggle)

Graduate Teaching Certificate. 2012. College of Teaching and Professional Development University of Colorado at Boulder

B.A. Biology. 2002. Reed College, Portland OR

RELEVANT EMPLOYMENT

  • 2013-present. NSF Postdoctoral Fellow, University of Wyoming, Laramie, WY. Genome wide associations and genetic architecture of leaf anatomic inputs to water use efficiency in Brassica rapa crop types; PI: Dr. Robert Baker
  • 2012-2013. Postdoctoral Research Associate, University of Wyoming, Laramie, WY. Quantitative genetics of morphological developmental across heterogeneous, agroecologically relevant environments; PI: Dr. Cynthia Weinig
  • 2011-2012. Research Associate, The Arnold Arboretum, Harvard University, Boston, MA. Quantitative expression analyses of candidate genes associated with branch outgrowth; PIs: Drs. Ned Friedman & Pamela Diggle
  • 2005. Research Assistant, University of Colorado, Boulder, CO. The evolution and development of apomixis; PI: Dr. Richard Noyes
  • 2003-3004. Research Assistant, University of Maryland, College Park, MD. Molecular and morphological development and evolution of annelid regeneration and asexual reproduction; PI: Dr. Alexa Bely
  • 2002-2003. Research Assistant, AgResearch, Ltd, Palmerston North, New Zealand. Developmental significance of the Arabidopsis thaliana TERMINAL EAR1-like gene; PI: Dr. Bruce Veit

PEER REVIEWED PUBLICATIONS

*indicates undergraduate co-author

  1. Baker, R. L., W. F. Leong, N. An, S. Welch, and C. Weinig. In prep. Predicting developmental phenotypes based on genotypes: A Bayesian function-valued trait approach to canalization and phenotypic plasticity in Brassica rapa leaves. For Genetics.
  2. Markelz, R. J. C., R. L. Baker, D. Freund, N. An, U. K. Devisetty, M. F. Covington, M. T. Brock, A. Hegeman, S. Welch, C. Weinig, D. Kliebenstein, and J. N. Maloof. In prep. Systems genetics in Brassica rapa reveals genotype to phenotype connections from high-throughput phenotyping data. For eLife.
  3. Rubin, M. J., M. T. Brock, R. L. Baker, R. J. C. Markelz, J. N. Maloof, and W. Weinig. In prep. QTL mapping and expression profiling suggest candidate loci contribute to plant architectural complexity in natural settings. For Molecular Ecology.
  4. Baker, R. L¹., W. F. Leong¹, M. T. Brock, M. Rubin, N. An, S. Welch, and C. Weinig. In revision. Leveraging Bayesian inference and high-throughput remote sensing indices for quantitative genetic analyses of Function-Valued Traits.  Theoretical and Applied Genetics. ¹ Co-first authors
  5. An, N., S. Welch, R. J. Markelz, R. L. Baker, C. Palmer, J. Ta, J. Maloof and C. Weinig. 2017.Quantifying time-series of leaf morphology using 2D and 3D photogrammetry methods for high-throughput plant phenotyping. Computers and Electronics in Agriculture 135(2017):222–232 abstract | pdf
  6. Baker, R. L., Y. Yarkhunova, K. Vidal*,  B. Ewers, and C. Weinig. 2017. Polyploidy and the relationship between leaf structure and function: Implications for the evolution of correlations between anatomy, morphology, and physiology in BrassicaBMC Plant Biology 17(3)  open access pdf
  7. An, N. C. M. Palmer, R. L. Baker, R. J. C. Markelz, J. Ta, J. N. Maloof, S. M. Welch, and C. Weinig. 2016. Plant high-throughput phenotyping using photogrammetry and imaging techniques to measure leaf length and rosette area.  Computers and Electronics in Agriculture 127:376-394 abstract | pdf
  8. Yarkhunova, Y. C., E. Edwards, R. L. Baker, B. E. Ewers, and C. Weinig. 2016. Selection during domestication affects the circadian clock and expression of ecophysiological traits. New Phytologist 210(1):133-144 abstract | pdf
  9. Baker, R. L., W. F. Leong, M. T. Brock, R. J. Cody Markelz, M. F. Covington, U. K. Devisetty, C. E. Edwards, J. Maloof, S. Welch, and C. Weinig. 2015. Modeling development and quantitative trait mapping reveal independent genetic modules for leaf size and shape. New Phytologist. 208(1) 257-268. abstract | pdf
    • Selected for Commentary in New Phytologist. > > pdf
  10. Baker, R. L., E. Scherbatskoy*, C. Lay and P. K. Diggle. 2014. Developmental plasticity of shoot architecture: Morphological expression and ecologically relevant onset in locally adapted populations of Mimulus guttatus. International Journal of Plant Sciences 175(1):59-69. abstract | pdf
  11. Baker, R. L., L. C. Hileman and P. K. Diggle. 2012. Patterns of shoot architecture in locally adapted populations are linked to intraspecific differences in gene regulation. New Phytologist 196(1):271-281.  abstract | pdf
  12. Baker, R. L. and P. K. Diggle. 2011. Node-specific branching and heterochronic changes underlie population-level differences in Mimulus guttatus (Phrymaceae) shoot architecture. American Journal of Botany 98(12):1924-1934. abstract | pdf
  13. Diggle, P. K., N. J. Abrahamson, R. Baker, M. G. Barnes, T. L. Koontz, C. Lay, J. S. Medeiros, J. Murgel*, M. G. M. Shaner, H. L. Simpson, C. C. Wu and D. L. Marshall. 2010. Dynamics of maternal and paternal effects on embryo and seed development in wild radish (Raphanus sativus). Annals of Botany 106(2):309-313. abstract | pdf
  14. Noyes, R.D., R. Baker, and B. Mai*. 2007. Mendelian segregation for two-factor apomixis in Erigeron annuus (Asteraceae). Heredity 98:92-98. abstract | pdf

TECHNICAL WRITING/NON INDEXED

  1. Baker, R. L., M. T. Brock, M. Rubin, J. Maloof, S. Welch, and C. Weinig. 2015. Mapping function valued traits in Brassica rapa. Wyoming Agricultural Experiment Station pp. 19-20.
  2. Baker, R. L. 2010. Use of the Scanning Electron Microscope. In P. Diggle, Plant Eco-Evo-Devo (pp 54-56).

GRANTS AND FELLOWSHIPS

Total funding: $257,285 (86.7% External)

2017. Botanical Society of America Professional Travel Grant ($500)
2015. University of Wyoming NIH-INBRE Bioinformatics Travel & Training Grant ($2,000)
2014. University of Wyoming Berry Center Biodiversity Institute’s Biodiversity in Art Grant ($5,000)
2013. National Science Foundation Post-Doctoral Fellowship ($216,000)
2011. University of Colorado Graduate Student Travel Grant ($300)
2011. Botanical Society of America Structural Section Travel Grant ($200)
2011. University of Colorado Ecology and Evolutionary Biology Department Research Grant ($1700)
2011. Beverly Sears Graduate Student Grant ($1000)
2011. United Government of Graduate Students, University of Colorado Travel Grant ($300)
2010. Sigma Xi Grant-in-Aid of Research ($995)
2010. California Native Plant Society ($500)
2010. University of Colorado Ecology and Evolutionary Biology Department Research Grant ($2000)
2010. Beverly Sears Graduate Student Grant ($1000)
2009. University of Colorado Ecology and Evolutionary Biology Summer Fellowship ($6000)
2008. Beverly Sears Graduate Student Grant ($1000)
2008. University of Colorado Natural History Museum’s Walker van Riper Fund ($1500)
2008. University of Colorado Ecology and Evolutionary Biology Department Research Grant ($2500)
2007. Botanical Society of America Graduate Student Research Award ($500)
2007. University of Colorado Ecology and Evolutionary Biology Department Research Grant ($2500)
2007. University of Colorado Natural History Museum’s Walker van Riper Fund ($1500)
2006. University of Colorado Ecology and Evolutionary Biology Department Research Grant ($2500)
2006. NSF Molecular and Organismal Research in Plant History (MORPH) ($3000)
2005. University of Colorado Ecology and Evolutionary Biology Department Training Grant ($3300)
2005. Cold Spring Harbor Laboratories ($1990)

TEACHING EXPERIENCE

2014. Genetics. Co-Instructor, University of Wyoming, Laramie, WY
2014. General Biology. Guest Lecturer, University of Wyoming, Laramie, WY
2014. Writing Seminar. Panel Member, University of Wyoming, Laramie, WY
2010. Plant Eco-Evo-Devo. Teaching Assistant, University of Colorado, Boulder, CO
2009. Genetics. Teaching Assistant, University of Colorado, Boulder, CO
2006. Plant Anatomy. Teaching Assistant, University of Colorado, Boulder, CO
2005. Genetics. Teaching Assistant, University of Colorado, Boulder, CO
2004. General Biology. Teaching Assistant, University of Colorado, Boulder, CO

HONORS & AWARDS

2011. Certificate of Meritorious Service: Science Mentor, Planting Science
2010. Certificate of Meritorious Service: Science Mentor, Planting Science
2010. Teaching Excellence Award, C.U. Boulder
2009. Certificate of Meritorious Service: Master Plant Science Team, Planting Science
2009. Certificate of Meritorious Service: Science Mentor, Planting Science
2006. Commended For Excellence in Teaching, C.U. Boulder
2005. Commended For Excellence in Teaching, C.U. Boulder

CONTRIBUTED PRESENTATIONS AND POSTERS

  1. Baker, R. L. 2017. Montana State University, Bozeman, MT. “Intraspecific Developmental Variation for Crop Improvement”. Oral presentation.
  2. Baker, R. L. 2017. University of Vermont, Burlington, VT. “Intraspecific Developmental Variation for Crop Improvement”. Oral presentation.
  3. Baker, R. L. 2017. University of Minnesota, St. Paul, MN. “Quantitative Evolutionary Developmental Biology for Crop Improvement”. Oral presentation.
  4. Baker, R. L. 2017. University of Miami, Oxford, OH. “Understanding Organismal Diversity through Microevolutionary Developmental Biology”. Oral presentation.
  5. Baker, R. L. 2016. University of Illinois, Urbana-Champaign, IL. “Quantitative Evolutionary Developmental Biology for Crop Improvement”. Oral presentation.
  6. Baker, R. L. 2016. State University of New York, Oswego, NY. “Understanding Organismal Diversity through Development and Evolution”. Oral presentation.
  7. Baker, R. L., W. F. Leong, S. Welch, and C. Weinig. 2016. University of Connecticut, Storrs, CT. “Leaf Developmental Dynamics: Modeling variation for quantitative genetics”. Oral presentation.
  8. Baker, R. L., Y. Yarkhunova, B. Ewers and C. Weinig. 2015. National Science Foundation, Arlington, VA. “Genome wide associations between anatomy, crop-specific resource allocation strategies, and water use efficiency. Oral presentation.
  9. Baker, R. L., Y. Yarkhunova, B. Ewers and C. Weinig. 2015. National Science Foundation, Arlington, VA. “Genome wide associations between anatomy and water use efficiency. Poster.
  10. Baker, R. L., W. F. Leong, N. An, S. Welch, and C. Weinig. 2015. Botanical Society of America, Edmonton, Canada. “Function valued trait mapping: Bayesian modeling of leaf development reveals novel genetic controls for leaf size and shape and genotype by environment interactions for plant fitness.” Oral presentation.
  11. Markelz, R. J., R. L. Baker, N. An, U. K. Devisetty, M. F. Covington, S. Welch, C. Weinig, and J. Maloof. 2015. American Society of Plant Biologists, Minneapolis MN. “Systems genetics in Brassica rapa reveals genotype to phenotype connections from high-throughput phenotyping data”. Poster.
  12. Yarkhunova, Y., C. E. Edwards, R. L. Baker, B. E. Ewers, and C. Weinig. 2015. Evolution, São Paulo, Brazil. Selection during crop diversification involves correlated evolution of the circadian clock and ecophysiological traits in Brassica rapa”. Oral presentation.
  13. Baker, R. L., W. F. Leong, N. An, S. M. Welch, and W. Weinig. 2015. microMORPH workshop, Arnold Arboretum of Harvard University, Boston MA. “Bayesian modeling of leaf development reveals novel genetic controls for leaf size and shape”. Oral presentation.
  14. Nan An, C. Palmer, R. Baker, M. Brock, R. Markelz, K. Price, J. Maloof, S. M. Welch, and C. Weinig. Nov. 2014 (accepted). Agronomy Society of America Annual Meeting, Long Beach, California. “Proximal Sensing: Experiences from Arabidopsis and Brassica rapa“. Oral presentation.
  15. Baker, R. L., Y. Yarkhunova, and C. Weinig. 2014. National Science Foundation, Arlington, VA. “Genome wide associations between anatomy and water use efficiency” Poster.
  16. Baker, R. L., M. T. Brock, M. Covington, S. Das, U. Devisetty, L. W. Fung, K. Greenham, P. Lou, J. Maloof, R. J. C. Markelz, C. R. McClung, K. Nozue, C. Palmer, C. Weinig, and S. Welch. 2014. National Science Foundation, Arlington,  VA. “Agroecological annotation of gene function and computational analysis of gene networks” Poster.
  17. Baker, R. L., L. W. Fung, M. Brock, M. Rubin, S. Welch, and C. Weinig. 2014. Evolution, Raleigh N.C. “Shade avoidance and Brassica rapa leaf development: Bayesian modeling and QTL analysis allows for predicting phenotypes from genotypes”. Oral presentation.
  18. Baker, R. L. 2013. National Science Foundation, Arlington, VA. “Genome wide associations between anatomy, crop specific allocation, and water use efficiency in Brassica rapa“. Oral presentation.
  19. Baker, R. L. 2012. Department of Botany, University of Wyoming, Laramie, WY. “From gene regulation to morphological variation – the microevodevo of shoot architecture in Mimulus guttatus“. Oral presentation.
  20. Baker, R. L. and Pamela K. Diggle. 2012. Evolution, Ottawa, Canada. “Patterns of shoot architecture in locally adapted populations are linked to intraspecific differences in gene regulation”. Oral presentation.
  21. Baker, R. L. 2011. Department of Ecology and Evolutionary Biology, University of Colorado, Boulder CO. “Microevolution and development in Mimulus: Monkeying with meristems explains intraspecific changes in shoot architecture and life history”. Oral presentation.
  22. Baker, R. L. 2011. Arnold Arboretum of Harvard University, Boston MA. “Microevolution and development in Mimulus: Monkeying with meristem dynamics and heterochrony explains intraspecific changes in shoot architecture and life history”. Oral presentation.
  23. Baker, R. L. 2011. Department of Plant Sciences, University of Arizona, Tucson AZ. “Monkeying with life history: Intraspecific evolution and development of shoot architecture in Mimulus guttatus“. Oral presentation.
  24. Baker, R. L. and Pamela K. Diggle. 2011. Botanical Society of America, St. Louis MO. “Making branches in Mimulus: Intraspecific developmental variation in shoot architecture”. Oral presentation.
  25. Baker, R. L. 2011. Mimulus Meeting held at Duke University, Durham North Carolina. “Phenotyping”. Oral presentation.
  26. Baker, R. L. 2011. Microevolution of Development: processes within populations and species, a microMORPH workshop held at the University of Colorado at Boulder. “Intraspecific evolution and development of shoot architecture”. Oral presentation.
  27. Baker, R. L. and Pamela K. Diggle. 2010. “A developmental analysis of shoot architecture in two populations of Mimulus guttatus (Phrymaceae) [Poster]”. In: Evolution, 2010 June 25-29; Portland, OR. Portland State University, Portland OR. Poster no. P2157.
  28. Baker, R. L. 2008. Gallery Series talks at the University of Colorado Museum of Natural History, “The evolutionary and developmental basis of ecological adaptation”. Oral presentation.
  29. Baker, R. L. 2007. Investigating the evolution of plant form: conceptual integration from the molecular to the ecological, a MORPH workshop held at the University of Colorado at Boulder, Colorado. “Microevolution and development of Mimulus guttatus shoot architecture”. Oral presentation.
  30. Baker, R. L. 2007. Guild of Rocky Mountain Ecologists and Evolutionary Biologists (GREEBs) meeting at Ghost Ranch, Utah. “Microevolution of development: Building branches in Mimulus guttatus“. Oral presentation.
  31. Baker, R. L. 2007. Teaching Evolution Symposium, University of Colorado at Boulder, Colorado. “Teaching macroevolution: Mutations of large effect”. Oral presentation.

WORKSHOP AND COURSE PARTICIPATION

  1. Genome Wide Association Studies and Sequencing Data. 2015. Summer Institute for Statistical Genetics, Department of Biostatistics, University of Washington, Seattle, WA
  2. Elements of R for Genetics & Bioinformatics. 2015. Summer Institute for Statistical Genetics, Department of Biostatistics, University of Washington, Seattle, WA
  3. Molecular Genetics and Genomics. 2015. Summer Institute for Statistical Genetics, Department of Biostatistics, University of Washington, Seattle, WA
  4. Phenotypic plasticity: Evolution at the intersection of ecology, genetics, and development. 2015. Microevolutionary Molecular and Organismal Research in Plant History (microMORPH) NSF Research Coordination Network, Arnold Arboretum of Harvard University, Boston, MA
  5. Communicating Science Workshop. 2015. Biodiversity Institute, University of Wyoming, Laramie, WY
  6. iPlant Collaborative Tools and Services Workshop. 2013. Colorado State University, Fort Collins, CO
  7. Computer Science 1010. 2013. Department of Computer Science, University of Wyoming, Laramie, WY
  8. Computational Biology. 2013. Department of Botany, University of Wyoming, Laramie, WY
  9. Microevolution of Development: Processes within populations and species. 2011. micro Molecular and Organismal Research in Plant History (microMORPH) NSF Research Coordination Network; University of Colorado, Boulder, CO
  10. Homology: Conceptual and historical integration from the morphological to the molecular. 2009. Molecular and Organismal Research in Plant History (MORPH) NSF Research Coordination Network; University of Colorado, Boulder, CO
  11. Investigating the Evolution of Plant Form: Conceptual integration from the molecular to the ecological. 2007. Molecular and Organismal Research in Plant History (MORPH) NSF Research Coordination Network; University of Colorado, Boulder, CO
  12. Frontiers in Plant Science. 2005. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY

SERVICE

2016. Panel member, “Evaluating Graduate School Offers”, McNair Scholars Program, Department of Student Educational Opportunities, University of Wyoming
2016. Biodiversity in Art Grants Selection Committee Member, University of Wyoming Biodiversity Institute
2015-present. Committee Member, Mosley Graduate Student Award, Botanical Society of America
2011-2013. Education Committee Member, Botanical Society of America
2009-2011. Mentor for Undergraduate Research Opportunity Program, C.U. Boulder
2009-2010. Mentor for Undergraduate Honors Thesis Project, C.U. Boulder
2007-2011. Planting Science Master Plant Science Team
2005-2006. Graduate Student Working Group Committee, Chair, C.U. Boulder
2005-2006. Evo-devo Job Search (Graduate Committee), Chair, C.U. Boulder
2006-2010. Planting Science Online Mentor
2005-2006. Colloquium Committee Member, C.U. Boulder
2005-2006. EEB Dept. Rep to the United Government of Graduate Students, C.U. Boulder
2005-2006. Graduate Student Mentor, C.U. Boulder

REVIEWER

American Journal of Botany, PLoS One, Plant Science, New Phytologist, Journal of Integrative Plant Biology, Frontiers in Plant Evolution and Development, International Journal of Plant Sciences

PROFESSIONAL SOCIETY MEMBERSHIP

2015-present. Pan-American Society for Evolutionary Developmental Biology
2013-present. American Association for the Advancement of Science
2009-present. Society for the Study of Evolution
2008-present. American Society of Plant Biologists
2007-present. Botanical Society of America

PUBLIC OUTREACH

  1. R. L. Baker and L. Vietti. 2016. Re-envisioning the Laboratory: Sci-art symposium, University of Wyoming Art Museum, Laramie, WY. “Science Under the Lens: The art of microscopy.” Poster.
  2. Baker, R. L. and M. T. Brock. 2015. University of Wyoming Biodiversity Institute, Laramie, WY. “The Macro/microscopic Life of Plants: An exploration of art from the scientific perspective”. Gallery installation.
  3. R. L. Baker. 2015. Science . . . Sort of. Episode 225, “Industrious Growth”. Podcast interview.
  4. Baker, R.L. 2015. Science Café, Altitude Brewery and Chophouse, Laramie WY. “Cabbages and turnips and oilseeds, oh my!” General Public Presentation.