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Curriculum Vitae Patrick Joseph Calie

130 Redbud Dr. Dept. of Biological Sciences Berea, KY 40403 Eastern Kentucky University

Richmond, KY 40475 pat.calie@eku.edu

859-622-1543 http://biology.eku.edu/people/calie ORCID ID: 0000-0003-3705-4742

HIGHER EDUCATION Institution Major Dates/Degree University of Tennessee Botany 1981-1986/Ph.D. University of Tennessee Botany 1977-1980/M.S. Rutgers University Botany 1971-1975/B.A. Newark College of Arts and Sciences

Research Training and Development Institution/Dates Department Position University of Michigan Microbiology and Sr. Research Fellow 1990-1992 Immunology Prokaryotic Gene Expression University of Michigan Biology Postdoctoral Fellow 1986-1990 Plant Molecular Evolution University of Tennessee Biochemistry Sr. Research Assistant 1980-1981 Eukaryotic Gene Regulation

PROFESSIONAL APPOINTMENTS

Institution Department/Program Position/Dates New York Botanical Garden North American Botany Visiting Scholar (Sabbatical appointment) 2017-2018 University of Kentucky Plant Pathology Visiting Scholar 2011-present University of Kentucky Plant Pathology Visiting Scholar (Sabbatical appointment) 2010-2011 Eastern Kentucky University Biological Sciences Professor 2001-present

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University of Tennessee Botany Faculty Associate (Sabbatical appointment) 1999-2000 University of Kentucky Professional Education Instructor

Preparation Program 1999- 2018 (summer)

Eastern Kentucky University Biological Sciences Associate Professor 1995-2001 University of Kentucky Health Careers Instructor Opportunity Program 1992-1996 (summer) Eastern Kentucky University Biological Sciences Assistant Professor 1992-1995 University of Tennessee Biology Instructor

Summer 1980 University of Tennessee Botany Herbarium Assistant 1977-1978 Honors Honorary member, the Mortarboard Society 1995 Honorary member, Golden Key National Honor Society 1994 Member, Phi Sigma Scientific Research Society 1993 Member, Sigma Xi Biology Honor Society 1983 Graduated from Rutgers University cum Laude 1975 Fellowships and Awards Nominated, Critical Thinking Teaching Award 2019 EKU Class of 2012 Teaching “Star” 2012 EKU Critical Thinking Teacher of the Year Award 2012 EKU CA&S Golden Apple Teaching Award 2009 EKU Distinguished Educational Leader 2007, 2008 EKU College of Arts and Sciences Research Award 2001 EKU Faculty Research Enhancement Award 1998 NIH NRSA NIGMS Postdoctoral Fellowship 1987-1990 Arthur F. Thurnau Postdoctoral Fellowship (Univ. of Michigan) 1987 BRL Sequence Analysis Workshop Tuition Award (Univ. of TN) 1985 University of Tennessee Predoctoral Fellowship 1984-1985 Association of Southeastern Biologists Travel Award 1980 Professional Offices Held President, EKU Chapter of Sigma Xi 1996-1997, 1998-1999, 2010-2017 Vice-President, EKU Chapter of Sigma Xi 1995-1996, 1997-1998 Secretary-Treasurer, EKU Chapter of Sigma Xi 1993-1995

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Grants and Contracts NSF DOB “ Dimensions US-China: Collaborative 2021-2025 $78,832 Research: Impacts of heritable plant-fungus symbiosis on phylogenetic, genetic and functional diversity” (co-PI; C. Schardl P.I.) NIH/INBRE Faculty Startup Award for 2020-2021 $15,000 L. Middleton NSF DEB “Imperiled plants of tropical rivers: 2019-2021 $138,717 Phylogeny, biogeography and systematics of Podostemaceae” (PI; transferred

from B. Ruhfel co-PI) KBRIN Lead Faculty Award – NIH/INBRE 2019-2024 $110, 806 (co-PI; Nigel Cooper – PI) NSF MCB “Role of Telomeres in Fungal Genome Evolution” (Co-PI; M. Farman PI) 2017-2021 $59,736 KBRIN Lead Faculty Award – NIH/INBRE (co-PI; Nigel Cooper – PI) 2014-2019 $106,415 NIH/INBRE Faculty Startup Award for B. Kraemer 2016-2017 $30,000 NIH/INBRE Faculty Startup Award for L. Calderon 2013-2014 $59,040 KBRIN Lead Faculty Award – NIH/INBRE 2009-2014 $73,065 (co-PI; Nigel Cooper – PI) NSF EPSCoR Kentucky Genomics and Informatics 2008-2012 $205,000 Infrastructure (co-PI; Chris Schardl – PI) “An evaluation of the evolutionary relationships among

the three genera in the flowering plant family Sarraceniaceae (Ericales)” L.R. Hesler Research

Award (Univ. of Tennessee) 2008-2010 $4,588 NSF EPSCoR New Faculty Recruitment Award 2007-2008 $60,000 (co-PI w/ R. Frederick) LI-COR GEMF Matching Fund Award (declined) 2006 $51,321 KBRIN Lead Faculty Award - NIH/INBRE

(co-PI; Nigel Cooper – PI) 2004-2009 $152,036 Proteomics and Bioinformatics - NIH/INBRE 2004-2009 $974,498 (co-PI; Nigel Cooper - PI) Administrative Supplement Grant for the NIH/KBRIN 2003 $22,975 (co-PI; Nigel Cooper – PI)

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Research Supplemental Grant for the NIH/KBRIN: 2002-2004 $111,657 “Population Biology of Short’s Goldenrod” (co-PI; Nigel Cooper – PI) Enhancement of the Undergraduate Experience In Bioinformatrics – NIH/KBRIN 2001-2004 $163,841 (co-PI; Nigel Cooper – PI) “Determination of the generic limits and phylogeny of The subtribe Solidagininae (Asteraceae)” – L.R. Hesler Endowment Award 2001-2002 $3, 900

“Genetic profile of the endangered Solidago shortii

(Asteraceae)” – USFWS/USDA 1999-2000 $6,510

“An examination of the phylogeny of the Southeastern Solidago species” - L.R. Hesler Endowment

Award 1999-2000 $6,105 “Characterization of the rapidly evolving rpl23/rpoA

operon in Pelargonium hortorum” - NSF EPSCoR REG 1998-1999 $20,824

“An assessment of hybridization between Solidago shortii and S. nemoralis”- Kentucky State Nature Preserves Commission 1998-1999 $4,781 EKU Institutional Faculty Research Awards 1992-1993, 1993-1994, 1994-1995, 1995-1996, 1998-1999, 1999-2000,

2001-2002, 2004-2005 Total -$35, 588 “An evaluation of hornwort evolutionary relationships through plastid DNA rearrangements” - KAS Marcia Athey Fund 1993-1994 $1,550 “An examination of bryophyte plastid DNA RFLPs as phylogenetic markers” - L.R. Hesler Research Award 1991-1992 $5,228 Publications (30) Lander, R.M. and P.J. Calie. 2017. Exploring inquiry: household chemicals and their impact on seed germination and plant growth. The American Biology Teacher 79: 107-109. (29) Ellison, A.M., C.C. Davis, P.J. Calie, and R.F.C. Naczi. 2014. Pitcher plants (Sarracenia) provide a 21st-century perspective on interspecific and infraspecific ranks: a modest proposal for appropriate recognition and use. Systematic Botany 39: 939-949. DOI: http://dx.doi.org/10.1600/036364414X681473

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(28) Schardl, C.L., S. Florea, J. Pan, P. Nagabhyru, S. Bec, P.J. Calie. 2013. The epichloae: alkaloid diversity and roles in symbiosis with grasses. Current Opinion in Plant Biology 16: 480-488. (27) Christopher L. Schardl, Carolyn A. Young, Uljana Hesse, Stefan G. Amyotte, Kalina Andreeva , Patrick J. Calie , Damien J. Fleetwood , David C. Haws , Neil Moore, Birgitt Oeser , Daniel G. Panaccione , Kathryn K. Schweri, Christine R. Voisey, Mark L. Farman, Jerzy W. Jaromczyk, Bruce A. Roe, Donal M. O’Sullivan, Barry Scott, Paul Tudzynski, Zhiqiang An, Elissaveta G. Arnaoudova, Charles T. Bullock, Nikki D. Charlton, Li Chen, Murray Cox, Randy D. Dinkins, Simona Florea, Anthony E. Glenn, Anna Gordon, Ulrich Güldener, Daniel R. Harris, Walter Hollin, Jolanta Jaromczyk, Richard D. Johnson, Anar K. Khan, Eckhard Leistner, Adrian Leuchtmann, Chunjie Li, JinGe Liu, Jinze Liu, Miao Liu, Wade Mace, Caroline Machado, Padmaja Nagabhyru, Juan Pan, Jan Schmid, Koya Sugawara, Ulrike Steiner, Johanna E. Takach, Eiji Tanaka, Jennifer S. Webb, Ella V. Wilson, Jennifer Wiseman, Ruriko Yoshida, Zheng Zeng. 2013. Plant-symbiotic fungi as chemical engineers: Multi-genome analysis of the Clavicipitaceae reveals dynamics of alkaloid loci. PLoS Genetics 9: e1003323. (26) Ellison, A.M., Butler, E.B., Hicks, E.J., Naczi, R.F.C., Calie, P.J., Bell. C.D., and Davis, C.C. 2012. Phylogeny of the carnivorous plant family Sarraceniaceae. PLoS One 7: e39291. (25) Schilling, E.E., Beck, J.B., Calie, P.J. and Small. R. L. 2008. Molecular analysis of Solidaster cv. Lemore, a hybrid goldenrod (Asteraceae). J. BRIT 2: 7-18. (24) Calie, P.J., Lee, S.H., and Hicks, E.J. 2007. The bioinformatic enhancement of exercises in Drosophila genetics. The American Biology Teacher 69: 482-489. (23) Chumley, T.W., Palmer, J.D., Mower, J.P., Fourcade, H.M., Calie, P.J., Boore, J.L., and Jansen, R.K. 2006. The complete chloroplast genome sequence of Pelargonium x hortorum: Organization and evolution of the largest and most highly rearranged chloroplast genome of land plants. Molecular Biology and Evolution 23: 2175-2190. (22) Calie, P.J., Shackleford, C., Caicedo, J., and Naczi, R.F.C. 2006. High levels of seed inviability among seven populations of the endangered Short’s goldenrod (Solidago shortii – Asteraceae). Sida 22: 735-748. (21) Calie, P.J. 2005. A mutant hunt using the C-Fern (Ceratopteris richardii). The American Biology Teacher 67: 295-299. (20) Smith, B.D., Denham, A.J., Beck, J.B., and Calie, P.J. 2004. High resolution GIS mapping and current status of the ten viable populations of Short’s goldenrod (Solidago shortii – Asteraceae) in Kentucky. Sida 21:1121-1130. (19) Beck, J.B., Nesom, G., Calie, P.J., Small, R.K., and Schilling, E.S. 2004. Is Solidagininae monophyletic? Taxon 53: 691-698.

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(18) Millen, R.A., Olmstead, R.G., Adams, K.L., Palmer, J.D., Lao,N.T., Heggie,L., Kavanaugh, T.A., Hibberd,J.M., Gray, J.C., Morden, C.W., Calie, P.J., Jermiin, L.S., and Wolfe, K.D. 2001. Many parallel losses of infA from chloroplast DNA during angiosperm evolution with multiple independent transfers to the nucleus. The Plant Cell 13: 645-658. (17) Beck, J.B., Naczi, R.F.C., and Calie, P.J. 2001. Insights into the species delineation and population structure of Solidago shortii (Asteraceae) through morphometric analysis. Rhodora 103: 151-171. (16) Beck, J.B., Naczi, R.F.C., and Calie, P.J. 1999. Lectotypification of Solidago shortii (Asteraceae) with considerations of the historical and intellectual circumstances surrounding the original species description. Harvard Papers in Botany 4: 417-427. (15) Brown, C.K., Kuhlman, P., Mattingly, S.R., Slates, K., Calie, P.J., and Farrar, W.W. 1998. A model of the quaternary structure of enolases, based on structural and evolutionary analysis of the octomeric enolase from Bacillus subtilis. Protein Science 17: 855-866. (14) Calie, P.J., and Manhart, J.R. 1994. The rbcL stem-loop regulatory region is highly conserved in the angiosperms but remarkably divergent in the non-flowering land plants and algae. Gene 146: 251-256. (13) Downie, S.R., Katz-Downie, D.S., Wolfe, K.H., Calie, P.J., and Palmer, J.D. 1994. Structure and evolution of the largest chloroplast gene: optional modules and multiple gene loss during angiosperm evolution. Curr. Genet. 25:367-378. (12) Blomfield, I.C., Calie, P.J., Eberhardt, K.J., McClain, M.S., and Eisenstein, B.I. 1993. Lrp stimulates phase variation of type 1 fimbriation in Escherichia coli K-12. J. Bact. 175: 27-36. (11) Gantt, S.J., Baldauf, S.L., Calie, P.J., Weeden, N.J., and Palmer, J.D. 1991. Transfer of rpl22 to the nucleus greatly preceded its loss from the chloroplast and involved the gain of an intron. EMBO J. 10: 3073-3078. (10) Blomfield, I.C., McClain, M.S., Princ, J.A., Calie, P.J., and Eisenstein, B.I. 1991. Type I fimbriation in fimE mutants of Escherichia coli K-12. J. Bact. 173: 5298-5307. (9) Price, R.A., Calie, P.J., Downie, S.R., Logsdon, J.M. Jr., and Palmer, J.D. 1990. Chloroplast DNA variation in the Geraniaceae - a preliminary report. In: Proceedings of the International Geraniaceae Symposium (P. Vorster, ed.). Stellenbosch, So. Afr. pp. 235 -244. (8) Palmer, J.D., Calie, P.J., dePamphilis, C.W., Logsdon, J.M. Jr., Katz-Downie, D.S., and Downie, S.R. 1990. An evolutionary genetic approach to understanding plastid gene function: Lessons from photosynthetic and nonphotosynthetic plants. In: Proceedings of the VIIIth International Congress on Photosynthesis. Kluwer Academic Publ., Dordrecht, The Netherlands. pp. 475-482. (7) Palmer, J.D., Baldauf, S.L., Calie, P.J., and dePamphilis, C.W. 1990. Chloroplast gene instability and transfer to the nucleus. In: Molecular Evolution - UCLA Symposia on Molecular and Cellular Biology, (eds. M. Clegg and S. O'Brien) New Ser. vol. 122, pp. 97-106.

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(6) Calie, P.J. and Hughes, K.W. 1987. The consensus angiosperm chloroplast gene order is conserved in the moss Physcomitrella patens. Mol. Gen. Genet. 208: 335-341. (5) Calie, P.J. and Hughes, K.W. 1986. A rapid and efficient protocol for the isolation and purification of chloroplast DNA from moss gametophyte tissue. Plant Mol. Biol. Reporter 4: 206-212. (4) Calie, P.J., Schilling, E.E. and Webb, D.H. 1983. Flavonoid chemistry of the generic segregates Ascyrum and Crookea of Hypericum. Biochem. Syst. and Ecol. 11: 107-109. (3) Lewis, E.J., Calie, P.J. and Wicks, W.D. 1982. Differences in rates of tyrosine aminotransferase deinduction with cyclic AMP and glucocorticoids. Proc. Natl. Acad. Sci. (USA) 79: 5778 5782. (2) Schilling, E.E. and Calie, P.J. 1982. Petal flavonoids of white-flowered spring ephemerals. Bull. Torr. Bot. Club 109: 7-12. (1) Calie, P.J. 1981. Systematic studies in Sedum section Ternata. Brittonia 33: 498-507 Peer Reviewer Kentucky Science and Engineering Foundation SBIR/STRR grant program 2018 Macmillan and Co. (Textbook - Genetics) 2017 Proceedings of the National Councils for Undergraduate

Research 2017 Carnivorous Plants: Physiology, Ecology and Evolution (Ellison and Adamee, eds.) 2016 The American Biology Teacher 2016, 2017, 2018,

2020 SpringerOne 2016 BMC Evolutionary Biology 2015, 2016 Southeastern Naturalist 2014 Rhodora 2013 Carnivorous Plant Newsletter 2013 BMC Plant Biology 2012, 2013 Jones and Bartlett Publ. (Textbook - Genetics) 2012 Journal of Chemical Education 2010, 2013-2015,

2017 Pearson Publ. (Textbook – Genetics) 2010, 2013 Systematic Botany 2009 External reviewer, Ky NSF EPSCoR REG Program 2008, 2013 Internal proposal reviewer, Ky NIH/INBRE Program 2008-present Prentice-Hall Publ. (Textbook – Genetics) 2007 J.W. Wiley and Co (Textbook – Genetics) 2005 McGraw-Hill and Co. (Textbook – Biology) 2005 Northern Kentucky Univ. Center for Integrated Natural

Sciences and Mathematics Grants Program 2002, 2003, 2006 McGraw-Hill Co. (Textbook – Genetics) 2002 ACS Monograph on EPA Funded Research Activities 2001 Conservation Genetics 2001 McGraw-Hill Co. (Textbook – Environ. Science) 2001 Sida 2001

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NIH Kentucky Biomedical Research Infrastructure Network Program (Competitive Awards) 2001-2004

Benjamin Cummings and Co. (Textbook – Genetics) 2001, 2004, 2005, 2007, 2011 W.H. Freeman and Co. (Textbook - Genetics) 1999, 2000 USDA NRICPG Plant Genetic Mechanisms Program 1998, 2004, 2005 McGraw-Hill Co. (Textbook - Molecular Biology) 1998 Plant Molecular Biology 1997 Wm. C. Brown & Co. (Textbook - Genetics) 1996 Current Genetics 1995 Transactions of the Kentucky Academy of Science 1994-1995 Professional Affiliations American Society of Plant Taxonomists Botanical Society of America American Society of Plant Biologists Genetics Society of America Significant Presentations New York Botanical Garden: Re-examination of a neo-Darwinian paradigm – the role of telomeres in accelerated gene evolution (March 16, 2018). Invited speaker. Kentucky Academy of Science Symposium: BioInformatics in Kentucky (November 4, 2004) Invited Speaker. EKU Chautauqua Lectures- United by the Double Helix: A Biological Discussion of Race (November 11, 2004). Invited speaker. VIIIth International Photosynthesis Congress - Stockholm, Sweden (August 5-9, 1989). Invited speaker. Gordon Conference on Extrachromosomal Elements: Mitochondrial and Chloroplast Biogenesis (July 3-8, 1988). Invited speaker. Symposium Presentation Development of an informatics instructional and research platform at Eastern Kentucky University. 90th Annual KAS Meeting (BioInformatics Symposium). Invited Departmental Seminar Speaker Ecology and Evolutionary Biology Group,

University of Kentucky November 2012, January 2013 Department of Plant Pathology,

University of Kentucky October 2010, January 2012, February 2015, October 2016

Department of Biology, Western Kentucky University February 2005 Department of Biol. Sciences, University of Dayton March 2001 Department of Biol. Sciences, Wright State University March 2001 Department of Biology, The College of Wooster (OH) April 1997 Department of Biol. Sciences, Northern Kentucky University October 1997 Department of Biol. Sciences, East Tennessee State University September 1993 Department of Chemistry, Miami University of Ohio December 1992 Department of Biol. Sciences, Bowling Green State University February 1992 Department of Biology, Texas A&M University March 1991 Department of Botany, University of Texas at Austin February 1990

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Department of Botany, University of Tennessee at Knoxville April 1990 Oral Presentations and Posters Phylogeny of Rhynchospora section Plumosae (Cyperaceae) based on morphologic and molecular data. 2019 Annual Meeting of the Botanical Society of America/American Society of Plant Taxonomists (with Robert Naczi, Ansel Oommen, Mari Roberts, Jenna Dorey, Wesley Knapp, Sarah Hardy, Gregory Plunkett) The KBRIN Summer Workshop: Intensive training in Next Generation Sequencing and bioinformatics for novices. 2017 16th Annual UT/ORNL/KBRIN Bioinformatics Summit, Montgomery Bell State Park, TN (with Mark Farman, Bradford Condon, Neil Moore, Jerzy Jaromczyk, Jolanta Jaromczyk, Daniel Harris) HGT alternatives: Trans-species polymorphism, paralogy and loss, and frequency dependent selection in alkaloid biosynthesis genes. 2015 Annual Meeting of the Mycological Society of America (with C.L. Schardl, Simona Florea, J. W. Jaromczyk, N. Moore, P. Nagabhyru, J. Pan, G. Weyenberg, R. Yoshida, C.A. Young) An adaptive landscape for training in the essentials of next gen sequencing data acquisition and analysis. 2014 13th UT/ORNL/KBRIN Joint Bioinformatics Summit, Lake Barkeley, KY. (with M. Farman, J. Jaromczyk, J. Jaromczyk, N. Moore, D. Harris, C. Schardl). Using HPC for teaching and learning bioinformatics software: Benefits and challenges. 2013 12th UT/ORNL/KBRIN Joint Bioinformatics Summit, Land Between the Lakes, TN. (with Tyler Parke, Mark Farman, Elizabeth Farnsworth, Derek Fox, Jerzy W. Jaromczyk, Jolanta Jaromczyk, Neil Moore, Christopher L. Schardl and Ruriko Yoshida). NextGen Sequencing for everyone: a client-oriented workshop on sequencing methods and associated bioinformatics. 2012 11th UT/ORNL/KBRIN Joint Bioinformatics Summit, Louisville, KY (with M. Farman, J. Jaromczyk, S. Han, J. Jaromczyk, V. Nadadur, N. Moore and C. Schardl). Genomic innovation in the evolution of bioprotective alkaloids of the grass-symbiotic epichloid fungi. BIT Life Sciences' 2nd World DNA and Genome Day-2011 Congress, Dalian, China (with C.L. Schardl and J. Liu). Seven genomes of plant-associated Clavicipitaceae. 26th Fungal Genetics Meeting, 2011, Asilomar, CA (with C. L. Schardl, C. T. Bullock, M. L. Farman, D. R. Harris, J. W. Jaromczyk, J. Jaromczyk, N. Moore, J. Liu, J. S. Webb, C. A. Young). Insights into the generic relationships within the family Sarraceniaceae (Ericales). 71st Annual Association of Southeastern Biologists Meeting, 2010, Asheville, NC (with E.J. Hicks and R.F.C. Naczi). Dynamics of 17 populations of sunflowers (Helianthus annuus - Asteraceae) in central Kentucky. 71st Annual Association of Southeastern Biologists Meeting, April 2010, Asheville, NC. (with C. Costelle, K. Harris, L. Bolanos, and S. Lee). Integrating cheminformatics into a biochemical experiment: Implementation and assessment. 2007 KAS Meeting, Louisville, KY (with E.J. Hicks).

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Rapid evolution of plastid DNA RNA polymerase in three unrelated flowering plant lineages. Joint Meeting of the Botanical Society of America/American Society of Plant Biology, 2007, Chicago, IL (with S. Stefanovic, P. Kuhlman, and J.D. Palmer). Accelerated sequence evolution of the four proteins comprising the core complex of the plastid-encoded DNA-dependant RNA polymerase in the plant family Geraniaceae. First Biennial NISBRE Conference 2006, Washington, DC. Modeling studies suggest that the accelerated sequence evolution of the alpha subunit of the Geraniaceae DNA-dependant RNA polymerase is accompanied by a high level of conservation of secondary structure. Plant Biology 2004, Orlando, FL (with P. Kuhlman, J. Hogan, S. Hoskins, and D. Bautista). Low levels of seed germination and high levels of seed herbivory and seed necrosis in different populations of Short’s goldenrod (Solidago shortii – Asteraceae). 89th Annual KAS meeting, 2003 (with C. Shackleford and J. Caicedo). Variability of seed germination within and between populations of the Kentucky endemic, Short’s goldenrod (Solidago shortii – Asteraceae). Botany 2003 Meeting, Mobile, AL (with C. Shackleford). High resolution GIS mapping of Solidago shortii (Asteraceae), a Kentucky endemic species. Botany 2003 Meeting, Mobile, AL (with B.D. Smith). Comparative chloroplast genomics of seed plants: integrating computational methods, phylogeny and molecular evolution. Evolution 2003 Meeting, Chico, CA (with T.J. Warnow, J.D. Palmer et al.) The use of two plastid RNA polymerase genes as evolutionary markers for deep phylogeny. 88th Annual KAS Meeting, 2002 (with E. Scopa). Evaluation of gene/protein evolution using two plastid RNA polymerase genes as a model. 88th Annual KAS Meeting, 2002 (with J. Hogan). High resolution geographic mapping of Solidago shortii (Asteraceae). 88th Annual KAS Meeting, 2002 (with B.D. Smith). Current documented threats to the persistence of specific populations of Short’s goldenrod (Solidago shortii – Asteraceae). 88th Annual KAS Meeting, 2002. Variability of seed germination within and between populations of the narrow endemic Short’s goldenrod (Solidago shortii – Asteraceae). 88th Annual KAS Meeting, 2002 (with C. Shackleford). Overview of subtribe Solidagininae (Asteraceae: Astereae). Botany 2001 Meeting, Albuquerque, NM (with J.B. Beck, G. Nesom, G.L. Baird, E.E. Schilling and R. Small) Lectotypification of the endangered species Solidago shortii (Asteraceae). Botany 2001 Meeting, Albuquerque, NM (with J.B. Beck and R.F.C. Naczi). Morphometrics of Solidago shortii, an endangered goldenrod from Kentucky (Asteraceae). Botany 2001 Meeting (with J.B. Beck and R.F.C. Naczi).

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Genetic diversity present in the restricted endemic Solidago shortii (Asteraceae). Botany 2001 Meeting (with N. Seltsam, A. Denham and B. Ford). Lectotypification of Solidago shortii (Asteraceae). 86th Annual Meeting of the Kentucky Academy of Science, 2000 (with J.B. Beck and R.F.C. Naczi). Current status and preliminary assessment of the population dynamics of Short’s goldenrod (Solidago shortii - Asteraceae). 86th Annual Meeting of the Kentucky Academy of Science, 2000 (with J.B. Beck and A.T. Denham). Morphometrics of Solidago shortii, an endangered goldenrod from Kentucky (Asteraceae). 86th Annual Meeting of the Kentucky Academy of Science, 2000 (with J.B. Beck and R.F.C. Naczi). Assessment of the genetic variability present within the endangered species Solidago shortii (Asteraceae). XVI International Botanical Congress, 1999, St. Louis, MO (with J.B. Beck, A. Denham, L. Martin, and R. Naczi). Biochemical characterization and evolutionary aspects of octomeric enolase from Bacillus subtilis. 84th Annual Meeting of the Kentucky Academy of Science, 1998 (with K. Brown, S. R. Mattingly, K. Slates, and W.W. Farrar). Delineation of diagnostic characters in the endangered goldenrod Solidago shortii (Asteraceae) with preliminary evidence of hybridization between S. shortii and a cohort taxon. 3rd Annual Midwest Rare Plant Conference, 1998, Chicago, IL, and 84th Annual Meeting of the Kentucky Academy of Science, 1998 (with J.B. Beck, A.T. Denham, and R.F.C. Naczi). Comparison of the Ames reversion assay with a lacZ assay for determining the mutagenicity of various organic compounds. 17th Annual GROW Conference, 1998 (with Rebecca Falkenberg). Purification and properties of octomeric enolase from Bacillus subtilis. 2nd European Symposium of the Protein Society, 1997 (with K. Brown, K. Slates, S. Mattingly, and W. Farrar). Composition and organization of the chloroplast genes found in the rpl23-rpoA gene cluster of the cultivated geranium, Pelargonium hortorum. 82nd Meeting of the Kentucky Academy of Science, 1996 (with J.D. Palmer). The rbcL stem-loop sequence is remarkable conserved in the angiosperms, but is unusually divergent in the non-flowering land plants and the algae. 88th Meeting of the Botanical Society of America, 1993, Iowa City, IA (with J.R. Manhart). Roles of fimB and fimE in recombination in the fim invertible element in Escherichia coli. 92nd Meeting of the American Society for Microbiology, 1992, Atlanta, GA (with M.S. McClain, I.C. Blomfield, K.J. Eberhardt, and B.I. Eisenstein). Influence of protein MBF (methylation blocking factor) on type I fimbrial phase variation. 92nd Meeting of the American Society for Microbiology, 1992, Atlanta, GA (with M.S. McClain, I.C. Blomfield, K.J. Eberhardt, and B.I. Eisenstein).

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Discrepancies between type 1 fimbriation phase and the orientation of the fim invertible element in integration host factor mutants of Escherichia coli. 92nd meeting of the American Society for Microbiology, 1992, Atlanta, GA (with J. Princ, I.C. Blomfield, and B.I. Eisenstein). Extensive fragmentation of three chloroplast genes: rpoA, rps11, and ORF2300 in Pelargonium hortorum (Geraniaceae). 84th Meeting of the Botanical Society of America, 1989, Toronto, Canada (with D.K. Downie, C.R. Cartwright, and J.D. Palmer). Unstable chloroplast genomes and chloroplast gene transfer to the nucleus. XVIth International Congress of Genetics, 1988, Toronto, Canada (with J.D. Palmer, B.G. Milligan, J.N. Hampton, and C.R. Cartwright). Partial characterization of a moss chloroplast genome. First International Congress of Plant Molecular Biology, 1985, Savanna, GA (with K.W. Hughes). Flavonoid chemistry of the generic segregates Ascyrum L. and Crookea Small. 76th Meeting of the Botanical Society of America, 1981, Bloomington, IN (with D.H. Webb and E.E. Schilling). The specific status of Sedum glaucophyllum (Crassulaceae). 42nd Meeting of the Association of Southeastern Biologists, Tampa, FL, 1980. Administrative Experience Senator, EKU Faculty Senate 2019-2022 Chair, EKU Cell/Molecular Biologist Search Committee 2019-2020 Chair, EKU Plant Biologist/Systematist Search Committee 2018-2019 Member, Steering Committee, UK Ecological Research and Education Center 2015–present Sigma Xi Membership Nomination Process reviewer 2015-2017 Co-Director (w/ Mark Farman), NextGenSequencing Workshop at the University of Kentucky 2012-present Chair, EKU Botanist/Plant Systematist Search Committee 2011-2012 Dept. Liaison for McNair Scholars’ Program 2007-2015 Chair, EKU Molecular Biologist Search Cmte 2006-2007 Member, Kentucky Academy of Science Science Education Committee 2005-2010 Chair, EKU Molecular Ecologist Search Cmte 2003-2004 Dept. Liaison (W/ Dept. of Computer

Science), joint M.S. Degree Program in Bioinformatics 2004-2012 Member, Leadership Committee, NIH/INBRE 2004-present Lead Faculty, EKU – NIH/INBRE 2004-present Member, INBRE Student Summer Program Committee 2004-2012 Research Supplemental Grant for the NIH/KBRIN:

Science Research Core (Population Core Leader) 2002-2004 Member, Steering Committee, KBRIN 2001-2004

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Significant Service/Teaching Activities Judge, Genetics Section, Botanical Society of America Annual Meeting, Tucson, AZ 2019 Consultant, promotion and tenure review, Univ. of Memphis 2013 Consultant, promotion and tenure review, Univ. of Louisville 2007 Consultant, promotion and tenure review, Bellarmine University 2006 Consultant, promotion and tenure review, UNC-Wilmington 2006 Member, College Faculty and Research Development Cmte 2006-2007 Consultant, promotion and tenure review, Berea College 2005 Judge, Genetics Section/Botanical Society of America Annual

Meeting, Santa Fe, N.M. 2001 Faculty Mentor, EKU Chapter of Phi Sigma Honor Society 2001-2002 Associate Radiation Safety Officer, EKU 1998-2008 Instructor, University Honors Program 1997-present Participant, Kentucky Biodiversity Council Task Force 1997 Judge, INTEL International Science and Engineering Fair 1997 Faculty Advisor, EKU Microbiology, Cell and Molecular Biology

Option 1997-2003 Member, University Honors Program Advisory Panel 1996-1999 Faculty Mentor, University Honors Program 1996-present Faculty Advisor, EKU Chapter of Golden Key Honor Society 1995-1998 Faculty Advisor, EKU Chapter of Mortar Board Honor Society 1994-1997 Research Enhancement Experiences T3 Genomics Workshop, Mount Desert Island, ME June 2019 (1 week) Visiting Scholar, the New York Botanical Garden 2017-2018 (Flowering plant phylogenetics) GenomeSolver Workshop,

Georgetown University/University of Kentucky August 2017 (1 day) Big Genomic Data Skills Training Workshop, The Jackson Labs, Bar Harbor, ME May 2017 (1 week) Visiting Scholar, University of Kentucky (Fungal genomics and phylogenomics) 2011 - present Sabbatical Leave, University of Kentucky (Fungal genomics and phylogenomics) 2010-2011 (AY and summer) NSF Grant Proposal Workshop (MTSU) December 2009 (1 day) NIH/NIEHS Workshop on SNP Analysis (UofL) January 2007 (2 day) The Genome Access Course (CSHL) December 2004 (2 day) A Field Guide to GenBank and NCBI

Molecular Biology Resources (UofL) June 2004 (2 day) Macintosh OSX Jaguar Workshop August 2003 (2 day) NIH/BRIN Southeast Regional Conference (LSU) June 2003 (2 day) NIH R15 Grant Program Workshop (NKU) November 2002 (1 day) NIH Regional Seminar: Program Funding and Grants Administration (UofL) June 2002 (2 day) Informax (Bioinformatic software) Workshop (UK) May 2002 (1 day) NSF EPSCoR Conference on Developing National Science

Foundation Centers (UK) March 2001 (1 day) Sabbatical Leave, University of Tennessee Department of Botany (Molecular Systematics) 1999-2000 (AY and summers) Woods Hole MBL Workshop on Molecular Evolution Summer 1998 (2 weeks)

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BRL DNA Sequence Analysis Workshop (UTenn) March 1985 (1 week) Teaching/Course Development Workshop Participant: Concept-driven teaching strategies in biochemistry and molecular biology – sponsored by the NSF and the ASBMB, Kentucky Wesleyan College. Summer 2014 (1 day). Disruptive/Unethical Behavior: A Coordinated University Response – sponsored by Faculty Scholarship Funds, EKU. Summer 2004 (2 days). Assessment Workshop, led by J. Moore and B. Hokanson – sponsored by Faculty Scholarship Funds, EKU. Summer 2002 (2 days). Diversity Workshop, led by J.W. Lanham – sponsored by Faculty Scholarship Funds, EKU. Summer 2001 (2 days). Workshop in Developing Students Critical Thinking Skills, led by Dr. Craig T. Nelson (Indiana University) at the Teaching and Learning Center, EKU – Spring 2001 (1 day). Second Annual Regional Conference/Association of Biology Laboratory Education - Interactive Laboratory Workshop, sponsored by the University of Kentucky. Fall 1999 (3 days). Student Involvement Teaching Workshop, led by Dr. B. Walvoord, Univ. Notre Dame - sponsored by Faculty Scholarship Funds, EKU. Summer 1999 (2 days). Training Workshop for Consultants in the Teacher Consultation Process, led by Dr. M. Kirwin, Univ. of Kentucky - funded by EKU Center for Excellence in Teaching, Summer 1999 (2 days). Teacher Consultation Program/EKU (Internal peer review of teaching methods and effectiveness) - Spring Semester 1998. Master Learner (Geology) - sponsored by NSF through the Cosmos and Evolution Development Grant (B. MacLaren, PI). Fall 1994. The Honors Science Seminar Course Development Workshop - sponsored by the NEA (B. Gray, PI). Summer 1994, 1995 (2 weeks, 1 week). Interactive Teaching Workshop, led by Dr. B. Walvoord, Univ. Notre Dame - sponsored by Faculty Scholarship Funds, EKU. Summer 1998 (2 days). Cosmos and Evolution Course Development Workshop - sponsored by the NSF (B. MacLaren, PI). Summer 1993, 1994, 1995 (4 weeks, 2 weeks, 1 week). Technical Reports An assessment of hybridization between Solidago shortii and S. nemoralis. Final report (morphometric phase) in fulfillment of KSNPC/USFWS Contract #99161405 (with J. Beck). An assessment of the genetic profile of the Blue Licks Nature Preserve population of Solidago shortii. Final report (Isozyme phase) in fulfillment of KSNPC Contract #20379 (with A. Denham).

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Contributed Essays Chloroplasts and Other Plastids. 2001. Magill’s Encyclopedia of Science: Plant Life, Salem Press, Pasadena, CA. Classification and Phylogeny. 2001. Magill’s Encyclopedia of Science: Plant Life, Salem Press, Pasadena, CA. Hybrid Zones. 2001. Magill’s Encyclopedia of Science: Plant Life, Salem Press, Pasadena, CA. Compositae. 2001. Magill’s Encyclopedia of Science: Plant Life, Salem Press, Pasadena, CA. M.S. Degrees Supervised Hicks, E.J. 2010. An investigation of the generic relationships of the flowering plant family Sarraceniaceae (Ericales). EKU M.S. thesis. Abigail Cornette. 2011. Non-thesis M.S. Option. Anna Rush. 2013. Non-thesis M.S. Option. Undergraduate Honors Program Presentations Houghtaling, R., Woodlee, C., and Strauss, M. The population explosion: Its effects and future alternatives. Kentucky Honors Roundtable, Campbellsville University, Campbellsville, KY (1998); 26th Southern Regional Honors Conference, Savannah, GA (1998) Blankenship, D.Z., and Greenwell, K. Post-polio Stress Syndrome. Kentucky Honors Roundtable, University of Louisville, Louisville, KY (1996); 25th Southern Regional Honors Conference, Murray State University, Murray, KY (1997); National Collegiate Honors Conference, Atlanta, GA (1997). Undergraduate Honors Theses Thomas, A. 2019. Understanding evolutionary relationships among sedges (Genus Rhyncospora). Senior thesis, EKU Honors Program. Arthur, K. 2019. Molecular phylogenetic analysis of Arisaema triphyllum. Senior thesis, EKU Honors Program. Singleton, E. 2017. Relationship of fruit morphology and architecture to the endemism of Short’s goldenrod (Solidago shortii). Senior thesis, EKU Honors Program. Lander, R.M. 2016. The canine genome: promise, potential, and future outcomes. Senior thesis, EKU Honors Program. Kelly, E. 2012. Integrating science into Christianity: How it can strengthen your faith. Senior thesis, EKU Honors Program. Castle, L. T. 2007. Discovering proteomics. Senior thesis, EKU Honors Program.

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Moore. J.L. 2007. Redheads and Genetics: Our past, our present, and our future? Senior thesis, EKU Honors Program. Hucul, J. 2006. The cat genome: an informatic insight into the feline world. Senior thesis, EKU Honors Program. Harris, K. 2005. Gene flow and population genetics of seven populations of sunflowers in central Kentucky. Senior thesis, EKU Honors Program. LaBriola, S. 2002. An introduction to bioinformatics using SMCs, CLUSTAL X and the Python programming language. Senior thesis, EKU Honors Program. Moore, C. 2001. NCBI Website: Now User Friendly! Senior thesis, EKU Honors Program. Napier, K.N. 2001. Molecular Evolution of a rapidly evolving chloroplast gene, rpoA, in the cultivated geranium (Pelargonium hortorum). Senior thesis, EKU Honors Program. Roy, Z.D. 1999. A critical scientific, ethical, and theological evaluation of the theory and practice of eugenics. Senior thesis, EKU Honors Program. Williams, M. 1999. DNA profiling: practices, procedures, and caveats. Senior thesis, EKU Honors Program.