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Playing with Poisoned Dwarf.
Photo: Donald Ziegler

Lab Members : Brendan Hodkinson (Graduate Student)


PhD

Graduated:
May 2011

Current Position:
Postdoctoral Research Associate

Current Address:
International Plant Science Center
The New York Botanical Garden
2900 Southern Blvd.
Bronx, NY 10458-5126

Phone:
443-340-0917

Email:
brendan {dot} hodkinson {at} gmail {dot} com

'Squamules' Blog

Research Interests

I study fundamental principles of ecology and evolution using the unique symbiotic structures known as lichens.

Lichen Biodiversity: In order to better understand the ecological and evolutionary processes involved in diversification, I study lichen-forming fungi using molecular phylogenetics in concert with traditional analytical methods. This work has led to the description or redefinition of numerous taxa and has provided insight into how organisms interact with one another and their surroundings through time. I am continuing to develop bioinformatic tools to manage and manipulate large data sets for ecological and evolutionary inference. Since much remains to be discovered about the overall diversity of lichenized fungi, systematic regional inventories are still crucial for the advancement of the field. To address this need, I routinely organize and/or contribute to lichen inventories, including several projects that are ongoing in eastern North America.

The Lichen as a Microcosm: I am also conducting pioneering research on the consortia of non-photobiont bacteria that are associated with lichens. There is an ever-increasing body of evidence suggesting that lichens exist not simply as dual partnerships of fungi and algae, but as microcosms comprised of diverse assemblages of specific microbial lineages. Through my research I have detected an undescribed lineage of bacteria ('LAR1') that has been found almost exclusively in association with lichens. My more recent projects involve high-throughput pyrosequencing to examine these communities in terms of both ecology and physiology. As part of this work I am continuing to develop tools (e.g., primers, protocols, programs, and scripts) that can be widely applied to the study of ecology and evolution.

Education
PhD Biology, Duke University, 2011
     Thesis: A Phylogenetic, Ecological, and Functional Characterization of
          Non-Photoautotrophic Bacteria in the Lichen Microbiome
BS Biology with Honors, College of William and Mary, 2005
     Thesis: The lichen flora of the Williamsburg, Virginia, area

Fellowships
Oosting Ecology Fellowship, 2011
MSA Graduate Fellowship, 2009 [Inoculum Excerpt]
Christiane and Christopher Tyson OTS Research Fellowship, 2008-2009
James B. Duke Fellowship for Graduate Study, 2005-2009
NSF Graduate Research Fellowship, 2005-2008
Berkeley Fellowship for Graduate Study, 2005 (declined)
Community of Scholars Fellowship, 2004

Grants
NSF Doctoral Dissertation Improvement Grant, 2010-2012
BLS Travel Grant, 2011-2012
American Society of Plant Taxonomists Travel Grant, 2010
Lewis and Clark Fund for Exploration and Field Research Grant, 2008-2009
Sally Hughes-Schrader Travel Grant, 2008-2009
Sigma Xi Grant-In-Aid of Research, 2007
American Society for Microbiology Student Travel Grant, 2007
Keever Endowment Grants-in-Aid, 2006-2011
William and Mary Student Research Grant, 2004-2005
Howard Hughes Medical Institute Student Research Grant, 2003-2004
William and Mary Minor Grant, 2003-2004

Awards
American Bryological & Lichenological Society Travel Award, 2010
C. J. Alexopoulos Mentor Travel Award, 2008
MSA Student Presentation Award, 2008 (MSA best student conference paper )
International Association for Lichenology Travel Award, 2008
BLS Member Travel Award, 2008
Explorers Club Diversa Awards, 2007-2009 [Reports: 1 & 2]
A. J. Sharp Award, 2007 (ABLS best student conference paper)
Duke Graduate International Research Travel Award, 2007
Adkins Arboretum Botanical Research Award, 2006
Baldwin-Speece Plant Conservation Award, 2005
Charlotte Preston Mangum Prize, 2005 (best undergraduate Honors research)

Publications

In press

Hodkinson, B. P., N. R. Gottel, C. W. Schadt, and F. Lutzoni. In press. Photoautotrophic symbiont and geography are major factors affecting highly structured and diverse bacterial communities in the lichen microbiome. Environmental Microbiology.
View data and analysis file webportal (website)
Download data and analysis file archive (ZIP file)

2011

Hodkinson, B. P., and J. C. Lendemer. 2011. Molecular analyses reveal semi-cryptic species in Xanthoparmelia tasmanica. Bibliotheca Lichenologica 106: 115-126.
Download publication (PDF file)
Download nucleotide alignment (NEXUS file)

Hodkinson, B. P., and J. C. Lendemer. 2011a. Punctelia eganii, a new species in the P. rudecta group with a novel secondary compound for the genus. Opuscula Philolichenum 9: 35-38.
Download publication (PDF file)

Lücking, R., B. P. Hodkinson, A. Stamatakis, and R. A. Cartwright. 2011. PICS-Ord: Unlimited Coding of Ambiguous Regions by Pairwise Identity and Cost Scores Ordination. BMC Bioinformatics 12: 10.
Download publication (PDF file)
Download R-based program (zipped program package)
View program wiki (website)

Lücking, R., F. Seavey, R. Common, S. Q. Beeching, O. Breuss, W. R. Buck, L. Crane, M. Hodges, B. P. Hodkinson, E. Lay, J. C. Lendemer, R. T. McMullin, J. A. Mercado-Díaz, M. P. Nelsen, E. Rivas Plata, W. Safranek, W. B. Sanders, H. P. Schaefer Jr., and J. Seavey. 2011. The lichens of Fakahatchee Strand Preserve State Park, Florida: Proceedings from the 18th Tuckerman Workshop. Bulletin of the Florida Museum of Natural History 49(4): 127-186.
Download publication (PDF file)
View supplementary figures (website)

Schmull, M., J. Miadlikowska, M. Pelzer, E. Stocker-Wörgötter, V. Hofstetter, E. Fraker, B. P. Hodkinson, V. Reeb, M. Kukwa, H. T. Lumbsch, F. Kauff, and F. Lutzoni. 2011. Phylogenetic affiliations of members of the heterogeneous lichen-forming genus Lecidea sensu Zahlbruckner (Lecanoromycetes, Ascomycota). Mycologia 103: 10.3852/10-234.
Download publication (PDF file)
Download nucleotide alignment (NEXUS file)
Download supplementary data table 1 (PDF file)
Download supplementary data table 2 (PDF file)

2010

Hodkinson, B. P. 2010. A First Assessment of Lichen Diversity for One of North America's 'Biodiversity Hotspots' in the Southern Appalachians of Virginia. Castanea 75(1): 126-133.
Download publication (PDF file)

Hodkinson, B. P. 2010a. Lichenological Diversity. The Bryologist 113(4): 828-829.
Download publication (PDF file)

Hodkinson, B. P., J. C. Lendemer, and T. L. Esslinger. 2010. Parmelia barrenoae, a macrolichen new to North America and Africa. North American Fungi 5(3): 1-5.
Download publication (PDF file)

Lendemer, J. C., and B. P. Hodkinson. 2010. A new perspective on Punctelia subrudecta in North America: previously-rejected morphological characters corroborate molecular phylogenetic evidence and provide insight into an old problem. The Lichenologist 42(4): 405-421.
Download publication (PDF file)
Download nucleotide alignment (NEXUS file)

2009

Hodkinson, B. P., and F. Lutzoni. 2009. A microbiotic survey of lichen-associated bacteria reveals a new lineage from the Rhizobiales. Symbiosis 49(3): 163-180.
Download publication (PDF file)
Download nucleotide alignment (NEXUS file)

Hodkinson, B. P., R. C. Harris, and M. A. Case. 2009. A Checklist of Virginia Lichens. Evansia 26(2): 64-88.
Download publication (PDF file)
View authors' updated checklist (website)

Lendemer, J. C., and B. P. Hodkinson. 2009. The Wisdom of Fools: new molecular and morphological insights into the North American apodetiate species of Cladonia. Opuscula Philolichenum 7: 79-100.
Download publication (PDF file)
Download nucleotide alignment (NEXUS file)

Lendemer, J. C., and B. P. Hodkinson. 2009a. Stretching the boundaries: A range extension for Buellia wheeleri R.C. Harris. Evansia 26(4): 172-176.
Download publication (PDF file)
View dynamic range map (google map)

Schoch, C. L., G.-H. Sung, F. López-Giráldez, J. P. Townsend, J. Miadlikowska, V. Hofstetter, B. Robbertse, P. B. Matheny, F. Kauff, Z. Wang, C. Gueidan, R. M. Andrie, K. Trippe, L. M. Ciufetti, A. Wynns, E. Fraker, B. P. Hodkinson, G. Bonito, R. Yahr, J. Z. Groenewald, M. Arzanlou, G. S. de Hoog, P. W. Crous, D. Hewitt, D. H. Pfister, K. Peterson, M. Gryzenhout, M. J. Wingfield, A. Aptroot, S.-O. Suh, M. Blackwell, D. M. Hillis, G. W. Griffith, L. A. Castlebury, A. Y. Rossman, H. T. Lumbsch, R. Lücking, B. Büdel, A. Rauhut, P. Diederich, D. Ertz, D. M. Geiser, K. Hosaka, P. Inderbitzin, J. Kohlmeyer, B. Volkmann-Kohlmeyer, L. Mostert, K. O’Donnell, H. Sipman, J. D. Rogers, R. A. Shoemaker, J. Sugiyama, R. C. Summerbell, W. Untereiner, P. Johnston, S. Stenroos, A. Zuccaro, P. Dyer, P. Crittenden, M. S. Cole, K. Hansen, J. M. Trappe, F. Lutzoni, and J. W. Spatafora. 2009. The Ascomycota Tree of Life: A Phylum Wide Phylogeny Clarifies the Origin and Evolution of Fundamental Reproductive and Ecological Traits. Systematic Biology 58(2): 224-239.
Download publication (PDF file)
Download supplementary phylogenies (PDF file)
Download nucleotide alignment (zipped NEXUS file)
Download character states table (PDF file)
Download sequence data table (PDF file)

2008 & earlier

Hodkinson, B. P., and M. A. Case. 2008. A lichen survey of Williamsburg, Virginia. Banisteria 31: 24-30.
Download publication (PDF file)
Download supplement (Excel file)

McCormick, M. K., D. F. Whigham, D. Sloan, K. O'Malley, and B. Hodkinson. 2006. Orchid-fungus fidelity: a marriage meant to last? Ecology 87(4): 903-911.
Download publication (PDF file)
Download supplement (PDF file)

Miadlikowska, J., F. Kauff, V. Hofstetter, E. Fraker, M. Grube, J. Hafellner, V. Reeb, B. P. Hodkinson, M. Kukwa, R. Lücking, G. Hestmark, M. Garcia Otalora, A. Rauhut, B. Büdel, C. Scheidegger, E. Timdal, S. Stenroos, I. Brodo, G. Perlmutter, D. Ertz, P. Diederich, J. C. Lendemer, P. May, C. L. Schoch, A. E. Arnold, C. Gueidan, E. Tripp, R. Yahr, C. Robertson, and F. Lutzoni. 2006. New insights into classification and evolution of the Lecanoromycetes (Pezizomycotina, Ascomycota) from phylogenetic analyses of three ribosomal RNA- and two protein-coding genes. Mycologia 98(6): 1088-1103.
Download publication (PDF file)
Download supplement (PDF file)
Download nucleotide alignment (zipped NEXUS file)

Swaddle, J. P., M. G. Cathey, M. Correll, and B. P. Hodkinson. 2005. Socially transmitted mate preferences in a monogamous bird: a non-genetic mechanism of sexual selection. Proceedings of the Royal Society of London B: Biological Sciences 272(1567): 1053-1058.
Download publication (PDF file)

Selected Additional Works
Armaleo, D., F. Lutzoni, F. Collart, S. Baker, J. Magnuson, O. Andresson, D. Auberry, D. Culley, F. Dietrich, I. Grigoriev, B. Hodkinson, S. Karpowicz, A. Kuo, P. Larsen, F. Martin, T. McDonald, S. Merchant, E. Morin, O. Mueller, E. Panisko, M. V. Sanchez, I. Small, B. B. Xavier. 2011. Systems Biology of Lichen Systems: Pure Cultures of Cladonia grayi and Lichen-Dominated Biological Soil Crusts. In: DOE Genomic Science: Systems Biology for Energy and Environment. Oak Ridge National Lab, Oak Ridge, Tennessee, 158-159.
Download abstract (PDF file)

Hodkinson, B. P. 2011. Molecular Phylogenetics Workshop. American Bryological and Lichenological Society Meeting.

Hodkinson, B. P., N. R. Gottel, C. W. Schadt, and F. Lutzoni. 2011. The Lichen Microbiome: Greater ecological complexity revealed by pyrosequencing. American Bryological and Lichenological Society Meeting.

Hodkinson, B. P., and J. C. Lendemer. 2011. Lichens of the Dismal Swamp: A case study on the role of floristics in advancing the fields of systematics, ecology, and biogeography. American Bryological and Lichenological Society Meeting.

Cartwright, R., B.[P.]Hodkinson, A. Stamatakis, and R. Lücking. 2010. Extracting Phylogenetic Information from Ambiguous Regions through Multidemensional Scaling of Pairwise Likelihoods. In: Evolution 2010: Conference Program. Portland State University, Portland, Oregon, pg. 132 (abs. 901).
View presentation detail (website)

Hodkinson, B. P., and F. Lutzoni. 2010. Do lichens harbor their own rhizobia? A large-scale phylogenetic survey of lichen-associated bacteria from the order Rhizobiales. Inoculum 61(4): 55-56.
View Inoculum issue (PDF file)

Hodkinson, B. P., and J. C. Lendemer. 2010. How do you solve a problem like Xanthoparmelia? Molecular analyses reveal semi-cryptic species in an Australasian-American 'disjunct' taxon. In: Botany 2010. Botanical Society of America, St. Louis, Missouri, abs. 355.
View abstract (website)

Lendemer, J. C., R. C. Harris, and B. P. Hodkinson. 2010. Connecting the dots: progress and problems in assessing lichen biodiversity and biogeography in the coastal plain of southeastern North America. In: Botany 2010. Botanical Society of America, St. Louis, Missouri, abs. 30.
View abstract (website)

Lendemer, J. C., B. P. Hodkinson, and M. Piercey-Normore. 2010. Cladonia Systematics: What can we infer from morphology and molecules? In: Botany 2010. Botanical Society of America, St. Louis, Missouri, abs. 1052.
View abstract (website)

Hodkinson, B. P., and F. Lutzoni. 2009. Secret alliances: Patterns of association between lichens and non-photobiont bacteria. In: Botany and Mycology 2009: Abstract Book. Botanical Society of America, Granville, Ohio, pg. 249.
View abstract (website)
Download abstract (PDF file)

Hodkinson, B. P., and F. Lutzoni. 2008. Lichen-associated non-photobiont bacteria: the third symbiont? Inoculum 59(4): 34. [Student Presentation Award: best student conference paper]
Download abstract (PDF file)

Hodkinson, B. P., T. M. Loveless, P. E. Bishop, and F. Lutzoni. 2008. Nitrogen-fixing non-photobiont bacteria and lichens: an alternative lifestyle? In: The 6th IAL Symposium and Annual ABLS Meeting: Lichenological Abstracts. T. H. Nash III and M. R. D. Seaward (eds.). American Bryological and Lichenological Society and the International Association for Lichenology, Tempe, AZ, pg. 30.
Download abstract (PDF file)

Hodkinson, B. P., and F. Lutzoni. 2007. Non-photosynthetic bacteria and the lichen symbiosis. In: ABLS Meeting, 2007, Xalapa, México: Abstracts. E. De Luna (ed.). INECOL, Xalapa, México, abs. O10. [A. J. Sharp Award: best student conference paper]
View abstract (website)
Download abstract (PDF)

Hodkinson, B. P., and M. A. Case. 2007. Lichen ecology in coastal ravines. In: ABLS Meeting, 2007, Xalapa, México: Abstracts. E. De Luna (ed.). INECOL, Xalapa, México, abs. P03.
View abstract (website)

Hodkinson, B. P., F. M. Lutzoni, T. M. Loveless, and P. E. Bishop. 2006. Non-photosynthetic bacteria and the lichen symbiosis. In: 5th International Symbiosis Society Congress: Program, Abstracts, Participants. M. Bright, M. Horn, D. Zook, S. Lücker, and I. Kolar (eds.). Promare, Gdynia, Poland, pg. 95.
Download abstract (PDF file)




"Little progress can be made if new techniques are used only
to replace, rather than complement, the old" (E.S. Luttrell, 1989).

"Your observations are important to others" (Fortune Cookie, 2009).



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Department of Biology, Duke University, Box 90338, Durham, NC 27708
Database driven website by J. Bélisle