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Michael Rosenberg

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Associate Professor
Faculty, TEMPE Campus, Mailcode 4501
Education
  • PhD, State University of New York at Stony Brook: Ecology & Evolution (2000)
  • BA, Northwestern University: Biology, Geology, and Anthropology (1994)
Research Interests

Michael Rosenberg is a computational evolutionary biologist and ecologist who studies patterns in nature to understand how different species are related to each other. He also investigates the factors that lead to diversification.

A bit of a polymath by nature, his research lab uses computer and mathematical techniques to explore evolutionary relationships, and the role of geography and the environment on the distribution of biodiversity. His team also studies how the use of specific methods or assumptions may bias our understanding of the natural world.

Rosenberg has studied organisms across all areas of life—ranging from humans, birds, and snakes to plants and bacteria. He has a particular fondness of and expertise on fiddler crabs.

Publications

Peer-reviewed Articles

  • Luque, J., J.H. Christy, A.J.W. Hendy, M.S. Rosenberg, R.W. Portell, K.A. Kerr, and A.R. Palmer (In press) Quaternary intertidal and supratidal crabs (Decapoda, Brachyura) from tropical America and the systematic affinities of fossil fiddler crabs. Journal of Systematic Paleontology.
  • Stoltzfus, A., M.S. Rosenberg, H. Lapp, A. Budd, K. Cranston, E. Pontelli, S. Oliver, and R.A. Vos (2017) Community and code: Nine lessons from nine NESCent hackathons. F1000Research 6:786. [15 pages]
  • Dowling, T.E., C.D. Anderson, P.C. Marsh, and M.S. Rosenberg (2015) Population structure in the roundtail chub (Gila robusta complex) of the Gila River basin as determined by microsatellites: evolutionary and conservation implications. PLoS ONE 10(10):e0139832. [21 pages]
  • Rosenberg, M.S. (2014) Contextual cross-referencing of species names for fiddler crabs (genus Uca): An experiment in cyber-taxonomy. PLoS ONE 9(7):e101704. [10 pages]
  • Rosenberg, M.S. (2013) The nomenclatural status of the two “spiny-wristed” fiddler crabs: Uca spinicarpa Rathbun, 1900, and U. hesperiae Crane, 1975 (Crustacea: Brachyura: Ocypodidae). Zootaxa 3716(3):494–500.
  • Stoltzfus, A., H. Lapp, N. Matasci, H. Deus, B. Sidlauskas, C.M. Zmasek, G. Vaidya, E. Pontelli, K. Cranston, R. Vos, C.O. Webb, L.J. Harmon, M. Pirrung, B. O'Meara, M.W. Pennell, S. Mirarab, M.S. Rosenberg, J.P. Balhoff, H.M. Bik, T. Heath, P. Midford, J.W. Brown, E.J. McTavish, J. Sukumaran, M. Westneat, M.E. Alfaro, A. Steele, and G. Jordan (2013) Phylotastic! Making tree-of-life knowledge accessible, reusable and convenient. BMC Bioinformatics 14:158. [17 pages]
  • Perez, D.M., M.S. Rosenberg, and M.R. Pie (2012) The evolution of waving displays in fiddler crabs (Uca spp., Crustacea: Ocypodidae). Biological Journal of the Linnean Society 106(2):307–315.
  • Rosenberg, M.S., and C.D. Anderson (2011) PASSaGE. Pattern Analysis, Spatial Statistics and Geographic Exegesis. Version 2. Methods in Ecology and Evolution 2(3):229–232.
  • Chen, S.-C., M.S. Rosenberg, and B.G. Lindsay (2011) MixtureTree: A program for constructing phylogeny. BMC Bioinformatics 12:111. [3 pages]
  • Anderson, C.D., and M.S. Rosenberg (2011) Variation in association with manmade habitat edges exhibited by the Timber Rattlesnake (Crotalus horridus) in St. Louis County, Missouri. Journal of Herpetology 45(1):50–55.
  • Manel, S., S. Joost, B.K. Epperson, R. Holderegger, A. Storfer, M.S. Rosenberg, K.T. Scribner, A. Bonin, and M.-J. Fortin (2010) Perspectives on the use of landscape genetics to detect genetic adaptive variation in the field. Molecular Ecology 19(17):3760–3772.
  • Anderson, C.D., B.K. Epperson, M.-J. Fortin, R. Holderegger, P.M.A. James, M.S. Rosenberg, K.T. Scribner, and S. Spear (2010) Considering spatial and temporal scale in landscape-genetic studies of gene flow. Molecular Ecology 19(17):3565–3575.
  • Epperson, B.K., B.H. McRae, K.T. Scribner, S.A. Cushman, M.S. Rosenberg, M.-J. Fortin, P.M.A. James, M. Murphy, S. Manel, P. Legendre, and M.R.T. Dale (2010) Utility of computer simulations in landscape genetics. Molecular Ecology 19(17):3549–3564.
  • Rosenberg, M.S. (2010) A generalized formula for converting chi-square tests to effect sizes for meta-analysis. PLoS ONE 5(4):e10059. [3 pages]
  • Pearson, D.L., C.D. Anderson, B.R. Mitchell, M.S. Rosenberg, R. Navarette, and P. Coopmans (2010) Testing hypotheses of bird extinctions at Rio Palenque, Ecuador, with informal species lists. Conservation Biology24(2):500–510.
  • Niehuis, O., J.D. Gibson, M.S. Rosenberg, B. Pannebakker, T. Koevoets, A.K. Judson, C.A. Desjardins, K. Kennedy, D. Duggan, L.W. Beukeboom, L. van de Zande, D.M. Shuker, J.H. Werren, and J. Gadau (2010) Recombination and its impact on the genome of the haplodiploid parasitoid wasp Nasonia. PLoS ONE 5(1):e8597. [13 pages]
  • Ogden, T.H., and M.S. Rosenberg (2007) Alignment and topological accuracy of the direct optimization approach via POY and traditional phylogenetics via ClustalW + PAUP*. Systematic Biology 56(2):182–193.
  • Ogden, T.H., and M.S. Rosenberg (2007) How should gaps be treated in parsimony? A comparison of approaches using simulation. Molecular Phylogenetics and Evolution 42(3):817–826. [Erratum: 2008, 46(2):807-808.]
  • Ogden, T.H., and M.S. Rosenberg (2006) Multiple sequence alignment accuracy and phylogenetic inference. Systematic Biology 55(2):314–328.
  • Rosenberg, M.S. (2005) Multiple sequence alignment accuracy and evolutionary distance estimation. BMC Bioinformatics 6:278. [10 pages]
  • Rosenberg, M.S. (2005) MySSP: Non-stationary evolutionary sequence simulation, including indels. Evolutionary Bioinformatics Online 1:81–83.
  • Rosenberg, M.S. (2005) Evolutionary distance estimation and fidelity of pair wise sequence alignment. BMC Bioinformatics 6:102. [9 pages]
  • Rosenberg, M.S. (2005) The file-drawer problem revisited: A general weighted method for calculating fail-safe numbers in meta-analysis. Evolution 59(2):464–468.
  • Gadagkar, S.R., M.S. Rosenberg, and S. Kumar (2005) Inferring species phylogenies from multiple genes: Concatenated sequence tree versus consensus gene tree. Journal of Experimental Zoology. B. Molecular and Developmental Evolution 304(1):64–74.
  • Rosenberg, M.S., K.A. Garrett, Z. Su, and R.L. Bowden (2004) Meta-analysis in plant pathology: Synthesizing research results. Phytopathology 94(9):1013–1017.
  • Rosenberg, M.S. (2004) Wavelet analysis for detecting anisotropy in point patterns. Journal of Vegetation Science 15(2):277–284.
  • Sokal, R.R., N.L. Oden, M.S. Rosenberg, and B.A. Thomson (2004) A new protocol for evaluating putative causes for multiple variables in a spatial setting, illustrated by its application to European cancer rates. American Journal of Human Biology 16(1):1–16.
  • Hyatt, L.A., M.S. Rosenberg, T.G. Howard, G. Bole, W. Fang, J. Anastasia, K. Brown, R. Grella, K. Hinman, J.P. Kurdziel, and J. Gurevitch (2003) The distance dependence prediction of the Janzen-Connell hypothesis: A meta-analysis. Oikos 103(3):590–602.
  • Rosenberg, M.S., S. Subramanian, and S. Kumar (2003) Patterns of transitional mutation biases within and among mammalian genomes. Molecular Biology and Evolution 20(6):988–993.
  • Rosenberg, M.S., and S. Kumar (2003) Heterogeneity of nucleotide frequencies among evolutionary lineages and phylogenetic inference. Molecular Biology and Evolution 20(4):610–621.
  • Rosenberg, M.S., and S. Kumar (2003) Taxon sampling, bioinformatics, and phylogenomics. Systematic Biology 52(1):119–124.
  • Dungan, J.L., J.N. Perry, M.R.T. Dale, P. Legendre, S. Citron-Pousty, M.-J. Fortin, A. Jakomulska, M.N. Miriti, and M.S. Rosenberg (2002) A balanced view of scaling in spatial statistical analysis. Ecography 25(5):626–640.
  • Perry, J.N., A.M. Liebhold, M.S. Rosenberg, J.L. Dungan, M.N. Miriti, A. Jakomulska, and S. Citron-Pousty (2002) Illustration and guidelines for selecting statistical methods for quantifying spatial patterns in ecological data. Ecography 25(5):578–600.
  • Dale, M.R.T., P.M. Dixon, M.-J. Fortin, P. Legendre, D.E. Myers, and M.S. Rosenberg (2002) Conceptual and mathematical relationships among methods for spatial analysis. Ecography 25(5):558–577.
  • Rosenberg, M.S. (2002) Fiddler crab claw shape variation: A geometric morphometric analysis across the genus Uca. Biological Journal of the Linnean Society 75(2):147–162.
  • Rosenberg, M.S., and S. Kumar (2001) Incomplete taxon sampling is not a problem for phylogenetic inference. Proceedings of the National Academy of Sciences USA 98(19):10751–10756.
  • Rosenberg, M.S., and S. Kumar (2001) Traditional phylogenetic reconstruction methods reconstruct shallow and deep evolutionary relationships equally well. Molecular Biology and Evolution 18(9):1823–1827.
  • Rosenberg, M.S. (2001) The systematics and taxonomy of fiddler crabs: A phylogeny of the genus Uca. Journal of Crustacean Biology 21(3):839–869.
  • Rosenberg, M.S. (2000) The bearing correlogram: A new method of analyzing directional spatial autocorrelation. Geographical Analysis 32(3):267–278.
  • Sokal, R.R., N.L. Oden, M.S. Rosenberg, and B.A. Thomson (2000) Cancer incidences in Europe related to mortalities, and ethnohistoric, genetic, and geographic distances. Proceedings of the National Academy of Sciences USA 97(11):6067–6072.
  • Rosenberg, M.S., R.R. Sokal, N.L. Oden, and D. DiGiovanni (1999) Spatial autocorrelation of cancer in Western Europe. European Journal of Epidemiology 15(1):15–22.
  • Adams, D.C., and M.S. Rosenberg (1998) Partial warps, phylogeny, and ontogeny: A comment on Fink and Zelditch (1995). Systematic Biology 47(1):168–173.
  • Sokal, R.R., N.L. Oden, M.S. Rosenberg, and D. DiGiovanni (1997) Ethnohistory, genetics, and cancer mortality in Europeans. Proceedings of the National Academy of Sciences USA 94(23):12728–12731.
  • Sokal, R.R., N.L. Oden, M.S. Rosenberg, and D. DiGiovanni (1997) The patterns of historical population movements in Europe and some of their genetic consequences. American Journal of Human Biology 9(3):391–404.
  • Adams, D.C., J. Gurevitch, and M.S. Rosenberg (1997) Resampling tests for meta-analysis of ecological data. Ecology 78(4):1277–1283.
  • Rosenberg, M.S. (1997) Evolution of shape differences between the major and minor chelipeds of Uca pugnax (Decapoda: Ocypodidae). Journal of Crustacean Biology 17(1):52–59.

Edited Books

  • Rosenberg, M.S. (2009) Sequence Alignment: Methods, Models, Concepts, and Strategies. University of California Press: Berkeley, CA.

Book Chapters (Peer-reviewed)

  • Rosenberg, M.S., and C.D. Anderson (2016) Spatial Pattern Analysis. In Oxford Bibliographies in Ecology, D. Gibson, ed. Oxford University Press: New York. [18 pages]
  • Lajeunesse, M.J., M.S. Rosenberg, and M.D. Jennions (2013) Phylogenetically independent meta-analysis. Pp. 284–299 in Handbook of Meta-analysis in Ecology and Evolution, J. Koricheva, J. Gurevitch and K.L. Mengersen, eds. Princeton University Press: Princeton, NJ.
  • Jennions, M.D., C.J. Lortie, M.S. Rosenberg, and H.R. Rothstein (2013) Publication and related biases. Pp. 207–236 in Handbook of Meta-analysis in Ecology and Evolution, J. Koricheva, J. Gurevitch and K.L. Mengersen, eds. Princeton University Press: Princeton, NJ.
  • Rosenberg, M.S. (2013) Moment and least-squares based approaches to meta-analytic inference. Pp. 108–124 in Handbook of Meta-analysis in Ecology and Evolution, J. Koricheva, J. Gurevitch and K.L. Mengersen, eds. Princeton University Press: Princeton, NJ.
  • Rosenberg, M.S., H.R. Rothstein, and J. Gurevitch (2013) Effect sizes: Conventional choices and calculations. Pp. 61–71 in Handbook of Meta-analysis in Ecology and Evolution, J. Koricheva, J. Gurevitch and K.L. Mengersen, eds. Princeton University Press: Princeton, NJ.
  • Chen, S.-C., M. Li, M.S. Rosenberg, and B.G. Lindsay (2011) Mixture tree construction and its applications. Pp. 135–147 in Handbook of Statistical Bioinformatics, H.H.-S. Lu, B. Schölkopf and H. Zhao, eds. Springer-Verlag: Berlin.
  • Rosenberg, M.S., and T.H. Ogden (2009) Simulation approaches to evaluating alignment error and methods for comparing alternate alignments. Pp. 179–207 in Sequence Alignment: Methods, Models, Concepts, and Strategies, M.S. Rosenberg, ed. University of California Press: Berkeley, CA.
  • Rosenberg, M.S. (2009) Sequence alignment: Concepts and history. Pp. 1–22 in Sequence Alignment: Methods, Models, Concepts, and Strategies, M.S. Rosenberg, ed. University of California Press: Berkeley, CA.

Software

  • Rosenberg, M.S. (2013) Impact Factor Calculator. Version 1.
  • Rosenberg, M.S., and C.D. Anderson (2011) PASSaGE. Pattern Analysis, Spatial Statistics and Geographic Exegesis. Version 2.
  • Rosenberg, M.S. (2010) IndelCoder. Version 1.
  • Rosenberg, M.S. (2005) Fail-Safe Number Calculator. Version 1.
  • Rosenberg, M.S. (2005) MySSP: Non-stationary evolutionary sequence simulation, including indels. Version 1.
  • Rosenberg, M.S. (2001) PASSAGE. Pattern Analysis, Spatial Statistics and Geographic Exegesis. Version 1.
  • Rosenberg, M.S., D.C. Adams, and J. Gurevitch (2000) MetaWin: Statistical Software for Meta-Analysis. Version 2. Sinauer Associates: Sunderland, MA.
  • Rosenberg, M.S., D.C. Adams, and J. Gurevitch (1997) MetaWin: Statistical Software for Meta-Analysis with Resampling Tests. Version 1. Sinauer Associates: Sunderland, MA.

Reports

  • Dowling, T.E., P.C. Marsh, C.D. Anderson, M.S. Rosenberg, and A.T. Kelsen (2008) Population structure in the roundtail chub (Gila robusta complex) of the Gila River basin as determined by microsatellites. Arizona Game and Fish Department: Phoenix, AZ.

Other Publications

  • Rosenberg, M.S. (2014) A biologist's guide to impact factors. PeerJ Preprints 2:e477v1.
  • Ainsworth, E.A., M.S. Rosenberg, and X. Wang (2007) Meta-analysis: The past, present and future. New Phytologist 176(4):742–745.
  • Rosenberg, M.S. (2005) Why lectures seem to last forever. Journal of Irreproducible Results 49(3):16.

Book/Software Reviews

  • Rosenberg, M.S. (2015) (Book Review) Handbook of Spatial Point-Pattern Analysis in Ecology. International Journal of Geographical Information Science 29(9):1718–1719.
  • Rosenberg, M.S. (1998) (Book Review) Modeling Dynamic Biological Systems. Quarterly Review of Biology 73(3):340.
  • Rosenberg, M.S. (1997) (Software Review) Minitab for Windows. Quarterly Review of Biology 72(2):240–241.

Dissertation

  • Rosenberg, M.S. (2000) The Comparative Claw Morphology, Phylogeny, and Behavior of Fiddler Crabs (Genus Uca) (doctoral dissertation). Ecology and Evolution, State University of New York at Stony Brook, Stony Brook, NY.

Abstracts

  • Honap, T.P., Å. Vågene, A. Herbig, M.S. Rosenberg, J.E. Buikstra, K.I. Bos, J. Krause, and A.C. Stone (2016) Genetic analyses of pre- and post-contact North American Mycobacterium tuberculosis complex strains. American Journal of Physical Anthropology 159(S62):177.
  • Luque, J., A.J.W. Hendy, M.S. Rosenberg, R.W. Portell, and A.R. Palmer (2015) Cenozoic inter-tidal, supra-tidal, and freshwater crabs from tropical America. GSA Abstracts with Programs 47(7):423.
  • Pfister, L.-A., L.T. Nash, M.S. Rosenberg, and A.C. Stone (2009) Influence of androgen receptor variation in primate and carnivore female social dominance. American Journal of Physical Anthropology 138(S48):210.
  • Pfister, L.-A., M.S. Rosenberg, and A.C. Stone (2008) Full genome comparisons of Mycobacterium: Insight into the origin of tuberculosis and leprosy. American Journal of Physical Anthropology 135(S46):171.
  • Sokal, R.R., N.L. Oden, M.S. Rosenberg, and B.A. Thomson (2000) Cancer incidences in Europe related to ethnohistoric and genetic distances. American Journal of Physical Anthropology 111(S30):286–287.
Fall 2017
Course NumberCourse Title
EVO 598Special Topics
Summer 2017
Course NumberCourse Title
BIO 345Evolution
Spring 2017
Course NumberCourse Title
BIO 345Evolution
Spring 2016
Course NumberCourse Title
BIO 345Organic Evolution
EVO 598Special Topics
EVO 610Research Areas of Evolution
Fall 2015
Course NumberCourse Title
BIO 189Life Sciences Career Paths
EVO 598Special Topics
EVO 610Research Areas of Evolution
Spring 2015
Course NumberCourse Title
BIO 345Organic Evolution
Fall 2014
Course NumberCourse Title
EVO 590Reading and Conference
EVO 598Special Topics
EVO 790Reading and Conference
Spring 2014
Course NumberCourse Title
BIO 494Special Topics
EVO 598Special Topics
EVO 610Research Areas of Evolution
Fall 2013
Course NumberCourse Title
BIO 345Organic Evolution
EVO 610Research Areas of Evolution
Spring 2013
Course NumberCourse Title
EVO 598Special Topics
EVO 610Research Areas of Evolution
Editorships
  • Associate Editor, Molecular Biology and Evolution (2014–present)
  • Associate Editor, Evolution (2012–2014)
Professional Associations
American Association for the Advancement of Science, American Society of Naturalists, Citizen Science Association, Scientific Research Society of North America (Sigma Xi), Society for Molecular Biology and Evolution, Society of Systematic Biologists, Society for the Study of Evolution, The Crustacean Society
Service
  • GIOS & OKED Leadership Academy (Cohort II) (2014–2015)
  • Chair, Data Archive Working Group (2014–2015)
  • University Senate (2011–2014)
    • Committee on Curriculum Review Procedures (2013)
  • Research and Creative Activities Committee (2011–2014)
    • Chair Pro Tem (2012)
    • Chair, Data Archive Task Force (2013–2014)
  • College of Liberal Arts & Sciences
    • College Senate (2011–2016)
      • Presiding Officer (2015–2016)
      • Presiding Officer-Elect (2014–2015)
      • CLAS Senate Committee on Unit Bylaws (2011–2012)
  • School of Life Sciences
    • Chair, Bylaws Revision Committee (2015–2016)
    • Director, Evolutionary Biology Graduate Program (2010–2016)
    • SOLS Strategic Assessment Committee (2014–2015)
    • Personnel Committee: Genomics, Evolution, and Bioinformatics (2003–present)
    • Undergraduate Program Committee (2005–2012)
    • Member/Liaison to Informatics Certificate Committee, School of Computing and Informatics (2007–2009)
    • IT Resources Committee (2005–2009)
    • Leader, Computational Biosciences iGELS (2006–2008)
    • Search Committee: Evolutionary Bioinformatics (2004–2005)
    • Adjunct/Affiliate Membership Committee (2004–2005)
    • Search Committee: Computational Biology (2003–2004)
    • Search Committee: Evolutionary Bioinformatics (2003–2004)
    • Visualization Laboratory/Information Technology Committee (2003)
  • Center for Evolutionary Functional Genomics, Biodesign Institute
    • Chair, Website Committee (2006–2009)
  • Department of Biology
    • Search Committee: Center for Evolutionary Functional Genomics (2003)
Graduate Faculties / Mentoring History
Tanvi Honap (Ph.D. Evolutionary Biology, 2017), “Tracing the evolutionary histories of leprosy and tuberculosis using ancient DNA and phylogenomics methods.” • Andreina Castillo (Ph.D. Evolutionary Biology, 2016) “Evolution of multi-gene families and single copy genes in Plasmodium spp.” • Crystal M. Hepp (Ph.D. Molecular and Cellular Biology, 2013) “HIV Evolution: Biogeography and Intra-Individual Dynamics.” • Virginia Earl-Mirowski (M.S. Computational Biosciences, 2007) “Compare and contrast the effects of using less stringent criteria in BLASTCLUST to a novel iterative method for identifying gene families.” • Meraj Aziz (M.S. Computational Biosciences, 2007) “Estimating ClustalW pairwise alignment parameters for non-coding DNA sequences.” • Loretta Goldberg (M.S. Computational Biosciences, 2006) “Extending gene families via predicted ancestral sequences.”