Johann Peter Gogarten

gogartenjp
Board of Trustees Distinguished Professor 

University of Connecticut
Department of Molecular and Cell Biology
91 North Eagleville Road, Unit 3125
Biology/Physics Building 404
Storrs, CT 06269-3125

Telephone: 860-486-4061
Fax: 860-486-4331
gogarten@uconn.edu
Twitter-Gogarten

Visit Board of Trustees Distinguished Professor Gogarten’s Website.

Education: Ph.D. University of Giessen, FRG; Postdoctoral study, University of California Santa Cruz.

Research Interests: Molecular evolution; origin and early evolution of cellular life; evolution of the eukaryotic endomembrane system; horizontal gene transfer and gene duplications; comparative genome analyses; inteins, molecular parasites, and levels of selection.

Selected Publications:
[A complete list of publication including links to online versions is at http://gogarten.uconn.edu ]

  • Dick AA, Harlow TJ, Gogarten JP (2017) Short branches lead to systematic artifacts when BLAST searches are used as surrogate for phylogenetic reconstruction. Mol Phylogenet 107:338-344. doi: 10.1016/j.ympev.2016.11.016. [Epub ahead of print]
  • Omer S, Harlow TJ, GogartenJP (2017) Does Sequence Conservation Provide Evidence for Biological Function? Trends in Microbiology 25(1):11-18, doi: 10.1016/j.tim.2016.09.010
  • Gogarten JP , Deamer D (2016) Is LUCA a thermophilic progenote? Nature Microbiology 1, 16229; doi: 10.1038/nmicrobiol.2016.229
  • Adit Naor, Neta Altman-Price, Shannon M. Soucy, Anna G. Green (UConn undergrad), Yulia Mitiagin, Israela Turgeman-Grott, Noam Davidovich, Johann Peter Gogarten*, Uri Gophna*  (2016).
    Impact of a homing intein on recombination frequency and organismal fitness.
    PNAS 2016; published ahead of print July 26, 2016, doi:10.1073/pnas.1606416113
  • Fournier G, Andam CP, Gogarten JP (2015)
    Ancient horizontal gene transfer and the last common ancestors.
    BMC Evolutionary Biology 15 (1) p. 70 doi: 10.1186/s12862-015-0350-0.
  • Colston#, S., M. Fullmer#, L. Beka, B. Lamy, J. P. Gogarten*, J. Graf*. 2014.
    Evaluation of Bioinformatic Genome Comparisons for Taxonomic and Phylogenic Assignments using Aeromonas as a Test Case. #Co-first authors, *Co-corresponding authors.
    mBio doi:10.1128/mBio.02136-14
  • Fullmer MS, Soucy SM, Swithers KS, Makkay AM, Wheeler R, Ventosa A, Gogarten JP, Papke RT:
    Population and genomic analysis of the genus Halorubrum.
    Frontiers in Microbiology 2014, 5: 140. doi: 10.3389/fmicb.2014.00140
  • Ram Mohan N, Fullmer MS, Makkay AM, Wheeler R, Ventosa A, Naor A, Gogarten JP and Papke RT (2014)
    Evidence from phylogenetic and genome fingerprinting analyses suggests rapidly changing variation in Halorubrum and Haloarcula populations.
    Front. Microbiol. 5:143. doi: 10.3389/fmicb.2014.00143
  • Lapierre P, Lasek-Nesselquist E, and Gogarten JP (2012)
    The impact of HGT on phylogenomic reconstruction methods
    Brief Bioinform [first published online August 20, 2012] doi:10.1093/bib/bbs050 [Fulltext]
  • Swithers KS, Soucy SM, Gogarten JP (2012)
    The Role of Reticulate Evolution in Creating Innovation and Complexity.
    International Journal of Evolutionary Biology 2012, ID 418964, 10 pages, doi: 10.1155/2012/418964
  • Fournier GP, Andam CP, Alm EJ, Gogarten JP (2012)
    Molecular Evolution of Aminoacyl tRNA Synthetase Proteins in the Early History of Life.
    Origins of Life and Evolution of Biospheres 41:621–632 [Pre-proof version] doi: 10.1007/s11084-011-9261-2
  • Andam CP, Gogarten JP (2011)
    Biased gene transfer in microbial evolution.
    Nature Reviews in Microbiology 9(7): 543-555 , doi:10.1038/nrmicro2593 pubmed
  • Cheryl P. Andam, David Williams, and J. Peter Gogarten (2010)
    Biased gene transfer mimics patterns created through shared ancestry.
    PNAS 107(23):10679-84 [Epub 2010 May 21] doi:10.1073/pnas.1001418107
    Reviewed by Yuri Wolf as a “Must Read” on Faculty of 1000
  • Fournier GP, Gogarten JP (2010)
    Rooting the Ribosomal Tree of Life.
    Molecular Biology and Evolution (Epub ahead of print)
  • Swithers KS, Senejani AG, Fournier GP, Gogarten JP (2009)
    Conservation of intron and intein insertion sites: Implications for life histories of parasitic genetic elements.
    BMC Evolutionary Biology 2009, 9:303 doi:10.1186/1471-2148-9-303
  • Zhaxybayeva O, Doolittle WF, Papke RT, Gogarten JP (2009)
    Intertwined Evolutionary Histories of Marine Synechococcus and Prochlorococcus marinus
    Genome Biology and Evolution: doi:10.1093/gbe/evp032
  • Fournier GP, Huang JL, Gogarten JP (2009)
    Horizontal gene transfer from extinct and extant lineages: Biological innovation and the coral of life.
    Philos Trans R Soc Lond B Biol Sci. 364 (1527):2229-39.
  • Maria B. Gogarten, Johann Peter Gogarten, Lorraine C. Olendzenski (Editors)
    Horizontal Gene Transfer: Genomes in Flux.
    Humana Press – Springer; 1 edition (February 13, 2009), ISBN-13: 978-1603278522
  • Lapierre P., Gogarten J.P. (2009)
    Estimating the size of the bacterial pan-genome.
    Trends in Genetics, doi:10.1016/j.tig.2008.12.004
  • Xu, Ying and J Peter Gogarten (eds.) (2008)
    Computational Methods for Understanding Bacterial and Archaeal Genomes.
    Imperial College Press, London, ISBN-13: 978-1-86094-982-1.
  • Huang J, Gogarten JP (2008)
    Concerted gene recruitment in early plant evolution.
    Genome Biology 9(7): R109
  • Fournier GP, Gogarten JP (2008)
    Evolution of Acetoclastic Methanogenesis in Methanosarcina via Horizontal Gene Transfer from Cellulolytic Clostridia.
    J. Bacteriol. 190(3):1124-7
  • Huang, Jinling and J. Peter Gogarten (2007)
    Did an ancient chlamydial endosymbiosis facilitate the establishment of primary plastids?
    Genome Biology 8(6): R99
  • Zhaxybayeva, O., Gogarten, J.P., Charlebois, R.L., Doolittle, W.F., and Papke, R.T. (2006)
    Phylogenetic analyses of cyanobacterial genomes: Quantification of horizontal gene transfer events.
    Genome Research
    16(9):1099-108
  • Gogarten, J.P. and Hilario, E. (2006)
    Inteins, introns, and homing endonucleases: Recent revelations about the life cycle of parasitic genetic elements.
    BMC Evolutionary Biology
    6:94
  • Huang, J. and Gogarten, J.P. (2006) Ancient horizontal gene transfer can benefit phylogenetic reconstruction.
    Trends in Genetics 22(7):361-6.
  • Lapierre P, Shial R, Gogarten JP (2006): Distribution of F- and A/V- type ATPases in Thermus scotoductus and Other Closely Related Species.
    Systematic and Applied Microbiology 29(1):15-23
  • Zhaxybayeva, O., Lapierre, P., and Gogarten, J. P. (2006): Ancient Gene Duplications and the Root(s) of the Tree of Life.
    Protoplasma 227(1): 53-64
  • Gogarten, J. P., and Townsend, J. P. (2005): Horizontal gene transfer, genome innovation, and evolution.
    Nature Reviews in Microbiology 3(9) 679-687
  • Huang J., Xu, Y,. and Gogarten, J.P. (2005): The Presence of a Haloarchaeal Type Tyrosyl tRNA Synthetase Marks theOpisthokonts as Monophyletic.
    Molecular Biology and Evolution
    22(11): 2142-6
  • Zhaxybayeva, O. and Gogarten, J.P. (2004):
    Cladogenesis, Coalescence and the Evolution of the Three Domains of Life.
    Trends in Genetics 20 (4): 182- 187
  • Raymond, J., Zhaxybayeva, O., Gogarten,J.P., Gerdes, S., Blankenship, R.E. (2002):
    Whole Genome Analysis of Photosynthetic Prokaryotes.
    Science 298: 1616-1620.
  • Gogarten, J. P., Doolittle, W. F. and Lawrence, J. G. (2002): Prokaryotic Evolution in Light of Gene Transfer.
    Molecular Biology and Evolution 19: 2226-2238.
  • Gogarten, J. P., Senejani, A. G., Zhaxybayeva, O., Olendzenski, L. and Hilario, E. (2002)
    Inteins: Structure, Function, and Evolution.
    Annu. Rev. Microbiol.
    56: 263-287
  • Zhaxybayeva O, Gogarten JP (2002) Bootstrap, Bayesian probability and maximum likelihood mapping: Exploring new tools for comparative genome analyses.
    BMC Genomics
    3:4,1-13
  • Olendzenski, L., Liu, L., Zhaxybayeva, O., Murphey, R., Shin, D.-G., and Gogarten, J.P. (2000):
    Horizontal Transfer of Archaeal Genes into the Deinococcaceae: Detection by molecular and computer based approaches.
    Journal of Molecular Evolution, 51(6): 587-599.
  • Gogarten JP, Oldendzenski L, Hilario E, Simon C, Holsinger KE (1996)
    Dating the Cenancester of Organisms – Technical Comment,
    Science, 274, 1750-1751.
  • Gogarten-Boekels M, Hilario E, Gogarten JP (1995)
    The effects of heavy meteorite bombardment on the early evolution – the emergence of the three domains of life.
    Origin of Life and Evolution of the Biosphere, 25, 251-264
  • Hilario, E, Gogarten, J.P. (1993):
    Horizontal Transfer of ATPase Genes -The Tree of Life becomes a Net of Life,
    BioSystems
    31, 111-119.
  • Gogarten, J.P., Kibak, H., Dittrich, P. Taiz, L., Bowman, E.J., Bowman, B., Manolson, M., Poole, R., Date, T., Oshima, T., Konishi, J., Denda, K., Yoshida, M. (1989)
    The evolution of the vacuolar H+-ATPase: Implications for the origin of eukaryotes.
    Proceedings of the National Academy of Sciences U.S.A.
    86, 6661-6665