Professor Johann Peter Gogarten
University of Connecticut System
Professor, Life Sciences
United States
My co-authors include
Dr Yan Boucher
Professor Prabhakara Choudary
Professor Joerg Graf
My Publications
Bacterial cooperation through horizontal gene transfer
Trends in Ecology & Evolution
March 2022
An Efficient, Nonphylogenetic Method for Detecting Genes Sharing Evolutionary Signals i...
Genome Biology and Evolution
August 2021
Improving Phylogenies Based on Average Nucleotide Identity, Incorporating Saturation Co...
Systematic Biology
July 2021
The Evolutionary Origins of Extreme Halophilic Archaeal Lineages
Genome Biology and Evolution
July 2021
Systematic Detection of Large-Scale Multigene Horizontal Transfer in Prokaryotes
Molecular Biology and Evolution
February 2021
Insights into gene expression changes under conditions that facilitate horizontal gene ...
July 2020
The Impact of Restriction-Modification Systems on Mating in Haloferax volcanii
June 2020
Interaction of two strongly divergent archaellins stabilizes the structure of the ...
MicrobiologyOpen
April 2020
Expanding the utility of sequence comparisons using data from whole genomes
January 2020
Reconstructing the evolutionary origins of extreme halophilic Archaeal lineages
December 2019
Identification and characterization of putative Aeromonas spp. T3SS effectors
PLoS ONE
June 2019
Complete Genome Sequence of Halorubrum ezzemoulense Strain Fb21
Microbiology Resource Announcements
March 2019
The Patchy Distribution of Restriction–Modification System Genes and the Conservation o...
Genes
March 2019
Identification and characterization of putative Aeromonas spp. T3SS effectors
March 2019
The Patchy Distribution of Restriction-Modification System Genes and the Conservation o...
February 2019
Factors influencing bacterial microbiome composition in a wild non-human primate commun...
The ISME Journal
June 2018
Comparative Analysis of Surface Layer Glycoproteins and Genes Involved in Protein Glyco...
Genes
March 2018
Characterizing the DNA Methyltransferases of Haloferax volcanii via Bioinformatics, Gen...
Genes
February 2018
Short branches lead to systematic artifacts when BLAST searches are used as surrogate f...
Molecular Phylogenetics and Evolution
February 2017
Does Sequence Conservation Provide Evidence for Biological Function?
Trends in Microbiology
January 2017
Is LUCA a thermophilic progenote?
Nature Microbiology
November 2016
Leisingera sp. JC1, a Bacterial Isolate from Hawaiian Bobtail Squid Eggs, Produces Indi...
Frontiers in Microbiology
September 2016
Impact of a homing intein on recombination frequency and organismal fitness
Proceedings of the National Academy of Sciences
July 2016
Horizontal gene transfer: building the web of life
Nature Reviews Genetics
August 2015
The pan-genome as a shared genomic resource: mutual cheating, cooperation and the black...
Frontiers in Microbiology
July 2015
Ancient horizontal gene transfer and the last common ancestors
BMC Evolutionary Biology
April 2015
Comparative genomics of Roseobacter clade bacteria isolated from the accessory nidament...
Frontiers in Microbiology
February 2015
Bioinformatic Genome Comparisons for Taxonomic and Phylogenetic Assignments Using Aerom...
mBio
November 2014
Inteins as indicators of gene flow in the halobacteria
Frontiers in Microbiology
June 2014
AST: An Automated Sequence-Sampling Method for Improving the Taxonomic Diversity of Gen...
PLoS ONE
June 2014
Population and genomic analysis of the genus Halorubrum
Frontiers in Microbiology
April 2014
Evidence from phylogenetic and genome fingerprinting analyses suggests rapidly changing...
Frontiers in Microbiology
April 2014
Reconstructed Ancestral Myo-Inositol-3-Phosphate Synthases Indicate That Ancestors of t...
PLoS ONE
December 2013
The effects of model choice and mitigating bias on the ribosomal tree of life
Molecular Phylogenetics and Evolution
October 2013
Distribution and Evolution of the Mobile vma-1b Intein
Molecular Biology and Evolution
September 2013
Thermotoga lettingae Can Salvage Cobinamide To Synthesize Vitamin B12
Applied and Environmental Microbiology
September 2013
Reconstruction of Ancestral 16S rRNA Reveals Mutation Bias in the Evolution of Optimal ...
Molecular Biology and Evolution
August 2013
Orthologues, Paralogues and Horizontal Gene Transfer in the Human Holobiont
March 2013
Systematic inference of highways of horizontal gene transfer in prokaryotes
Bioinformatics
January 2013
Biased Gene Transfer Contributes to Maintaining the Tree of Life
January 2013
Pre-Posting and OLEB
Origins of Life and Evolution of Biospheres
December 2012
The impact of HGT on phylogenomic reconstruction methods
Briefings in Bioinformatics
August 2012
Erratum to: Molecular Evolution of Aminoacyl tRNA Synthetase Proteins in the Early Hist...
Origins of Life and Evolution of Biospheres
August 2012
Genes for the Major Structural Components of Thermotogales Species’ Togas Revealed by P...
PLoS ONE
June 2012
How Bacterial Lineages Emerge
Science
April 2012
Ancient origin of the divergent forms of leucyl-tRNA synthetases in the Halobacteriales
BMC Evolutionary Biology
January 2012
Quantifying Homologous Replacement of Loci between Haloarchaeal Species
Genome Biology and Evolution
January 2012
Quartet decomposition server: a platform for analyzing phylogenetic trees
BMC Bioinformatics
January 2012
The Role of Reticulate Evolution in Creating Innovation and Complexity
International Journal of Evolutionary Biology
January 2012
Vitamin B12 Synthesis and Salvage Pathways Were Acquired by Horizontal Gene Transfer to...
Genome Biology and Evolution
January 2012
Molecular Evolution of Aminoacyl tRNA Synthetase Proteins in the Early History of Life
Origins of Life and Evolution of Biospheres
December 2011
Genome Sequence of Thermotoga sp. Strain RQ2, a Hyperthermophilic Bacterium Isolated fr...
Journal of Bacteriology
September 2011
Genome Sequence of Kosmotoga olearia Strain TBF 19.5.1, a Thermophilic Bacterium with a...
Journal of Bacteriology
September 2011
Multilevel populations and the evolution of antibiotic resistance through horizontal ge...
FEMS Microbiology Reviews
September 2011
Detecting Highways of Horizontal Gene Transfer
Journal of Computational Biology
September 2011
Reassessment of the Lineage Fusion Hypothesis for the Origin of Double Membrane Bacteria
PLoS ONE
August 2011
Biased gene transfer in microbial evolution
Nature Reviews Microbiology
June 2011
Complex Evolutionary History of the Aeromonas veronii Group Revealed by Host Interactio...
PLoS ONE
February 2011
Home and away- the evolutionary dynamics of homing endonucleases
BMC Evolutionary Biology
January 2011
Evolution of the archaea: emerging views on origins and phylogeny
Research in Microbiology
January 2011
A Rooted Net of Life
Biology Direct
January 2011
Biased gene transfer and its implications for the concept of lineage
Biology Direct
January 2011
Biased gene transfer mimics patterns created through shared ancestry
Proceedings of the National Academy of Sciences
May 2010
Natural taxonomy in light of horizontal gene transfer
Biology & Philosophy
May 2010
Using comparative genome analysis to identify problems in annotated microbial genomes
Microbiology
April 2010
Inferring the Ancient History of the Translation Machinery and Genetic Code via Recapit...
PLoS ONE
March 2010
Rooting the Ribosomal Tree of Life
Molecular Biology and Evolution
March 2010
Bioinformatics Research and Applications
January 2010
Detecting Highways of Horizontal Gene Transfer
January 2010
Filling the gaps in the genomic landscape
Genome Biology
January 2010
Evolution of Genes and Organisms
Annals of the New York Academy of Sciences
October 2009
Horizontal gene transfer from extinct and extant lineages: biological innovation and th...
Philosophical Transactions of the Royal Society B Biological Sciences
August 2009
On the chimeric nature, thermophilic origin, and phylogenetic placement of the Thermoto...
Proceedings of the National Academy of Sciences
April 2009
Estimating the size of the bacterial pan-genome
Trends in Genetics
March 2009
Horizontal Gene Transfer
January 2009
Gene Transfer: Who Benefits?
January 2009
Ancient Gene Transfer as a Tool in Phylogenetic Reconstruction
January 2009
Trees in the Web of Life
Journal of Biology
January 2009
Insertion sequence content reflects genome plasticity in strains of the root nodule act...
BMC Genomics
January 2009
Prokaryotic evolution and the tree of life are two different things
Biology Direct
January 2009
Conservation of intron and intein insertion sites: implications for life histories of p...
BMC Evolutionary Biology
January 2009
Intertwined Evolutionary Histories of Marine Synechococcus and Prochlorococcus marinus
Genome Biology and Evolution
January 2009
Computational Methods for Understanding Bacterial and Archaeal Genomes
August 2008
HORIZONTAL GENE TRANSFER: ITS DETECTION AND ROLE IN MICROBIAL EVOLUTION
August 2008
Orthologues, Paralogues and Xenologues in Human and Other Genomes
March 2008
Computational Methods for Understanding Bacterial and Archaeal Genomes
January 2008
Concerted gene recruitment in early plant evolution
Genome Biology
January 2008
Evolution of mal ABC transporter operons in the Thermococcales and Thermotogales
BMC Evolutionary Biology
January 2008
Unsupervised Learning in Detection of Gene Transfer
Journal of Biomedicine and Biotechnology
January 2008
Evolution of Acetoclastic Methanogenesis in Methanosarcina via Horizontal Gene Transfer...
Journal of Bacteriology
November 2007
Signature of a Primitive Genetic Code in Ancient Protein Lineages
Journal of Molecular Evolution
October 2007
Gene Transfer and the Reconstruction of Life’s Early History from Genomic Data
Space Science Reviews
October 2007
GPX: A Tool for the Exploration and Visualization of Genome Evolution
October 2007
A hyperconserved protein in Prochlorococcus and marine Synechococcus
FEMS Microbiology Letters
September 2007
The Evolution of Eukaryotes
Science
April 2007
BranchClust: a phylogenetic algorithm for selecting gene families
BMC Bioinformatics
April 2007
Did an ancient chlamydial endosymbiosis facilitate the establishment of primary plastids?
Genome Biology
January 2007
The power of phylogenetic approaches to detect horizontally transferred genes
BMC Evolutionary Biology
January 2007
Unsupervised Learning in Spectral Genome Analysis
January 2007
Structural stability and endonuclease activity of a PI-SceI GFP-fusion protein
International Journal of Biological Sciences
January 2007
Genome characteristics of facultatively symbiotic Frankia sp. strains reflect host rang...
Genome Research
December 2006
Phylogenetic analyses of cyanobacterial genomes: Quantification of horizontal gene tran...
Genome Research
August 2006
Orthologs, Paralogs and Xenologs in Human and Other Genomes
July 2006
Ancient horizontal gene transfer can benefit phylogenetic reconstruction
Trends in Genetics
July 2006
Distribution of F- and A/V-type ATPases in Thermus scotoductus and other closely relate...
Systematic and Applied Microbiology
January 2006
BMC Evolutionary Biology
January 2006
Ancient gene duplications and the root(s) of the tree of life
PROTOPLASMA
December 2005
Evolutionary and Diagnostic Implications of Intragenomic Heterogeneity in the 16S rRNA ...
Journal of Bacteriology
September 2005
Horizontal gene transfer, genome innovation and evolution
Nature Reviews Microbiology
August 2005
The Presence of a Haloarchaeal Type Tyrosyl-tRNA Synthetase Marks the Opisthokonts as M...
Molecular Biology and Evolution
July 2005
Cladistics: A Practical Primer on CD-ROM. By Peter Skelton and Andrew Smith, with accom...
Origins of Life and Evolution of Biospheres
February 2005
Were arachnids the first to use combinatorial peptide libraries?
Peptides
January 2005
BMC Bioinformatics
January 2005
Erratum: Cladogenesis, coalescence and the evolution of the three domains of life
Trends in Genetics
July 2004
Genome mosaicism and organismal lineages
Trends in Genetics
May 2004
Cladogenesis, coalescence and the evolution of the three domains of life
Trends in Genetics
April 2004
BMC Bioinformatics
January 2004
Genome Biology
January 2004
Spliceosomal Introns: New Insights into their Evolution
Current Biology
September 2003
Evolution of photosynthetic prokaryotes: a maximum-likelihood mapping approach
Philosophical Transactions of the Royal Society B Biological Sciences
January 2003
BMC Genomics
January 2003
Gene Transfer: Gene Swapping Craze Reaches Eukaryotes
Current Biology
January 2003
Prokaryotic Evolution in Light of Gene Transfer
Molecular Biology and Evolution
December 2002
Whole-Genome Analysis of Photosynthetic Prokaryotes
Science
November 2002
Inteins: Structure, Function, and Evolution
Annual Review of Microbiology
October 2002
Progenote
January 2002
Horizontal Gene Transfer
January 2002
BMC Genomics
January 2002
BMC Plant Biology
January 2002
BMC Biochemistry
January 2001
Comparing trees in a phylogenetic relationship repository
January 2001
BMC Biochemistry
January 2001
Horizontal Transfer of Archaeal Genes into the Deinococcaceae: Detection by Molecular a...
Journal of Molecular Evolution
December 2000
Orthologs, paralogs and genome comparisons
Current Opinion in Genetics & Development
December 1999
Horizontal Gene Transfer: Pitfalls and Promises
Biological Bulletin
June 1999
Gene Transfer in Early Evolution
January 1999
The Prokaryote-to-Eukaryote Transition Reflected in the Evolution of the V/F/A-ATPase C...
Journal of Molecular Evolution
June 1998
cDNA cloning of a mandibular organ inhibiting hormone from the spider crabLibinia emarg...
Invertebrate Neuroscience
September 1997
Dating the Cenancester of Organisms
Science
December 1996
Dating the Cenancester of Organisms
Science
December 1996
Gene duplications and horizontal gene transfer during early evolution
Origins of Life and Evolution of Biospheres
October 1996
The V-ATPase A subunit gene (vma-1 from Giardia lamblia
Biochimica et Biophysica Acta (BBA) - Biomembranes
August 1995
The effects of heavy meteorite bombardment on the early evolution — The emergence of th...
Origins of Life and Evolution of Biospheres
June 1995
The early evolution of cellular life
Trends in Ecology & Evolution
April 1995
A Second Cell Wall Acid Invertase Gene in Arabidopsis thaliana
PLANT PHYSIOLOGY
February 1995
Which is the most conserved group of proteins? Homology-orthology, paralogy, xenology, ...
Journal of Molecular Evolution
November 1994
Letter to the editor
Plant Molecular Biology
October 1993
A conserved intron in the V-ATPase A subunit genes of plants and algae
FEBS Letters
January 1993
Horizontal transfer of ATPase genes — the tree of life becomes a net of life
Biosystems
January 1993
Evolution of proton pumping ATPases: Rooting the tree of life
Photosynthesis Research
August 1992
Evolution of structure and function of V-ATPases
Journal of Bioenergetics and Biomembranes
August 1992
The Use of Antisense mRNA to Inhibit the Tonoplast H+ ATPase in Carrot
The Plant Cell
July 1992
Tracing origins with molecular sequences: rooting the universal tree of life
Trends in Biochemical Sciences
January 1991
Evolution of the vacuolar H+-ATPase: implications for the origin of eukaryotes.
Proceedings of the National Academy of Sciences
September 1989
The H+ ATPase regulatory subunit of Methanococcus thermolithotrophicus : Amplification...
FEBS Letters
July 1989
Substrate specifity of the hexose carrier in the plasmalemma of Chenopodium suspension ...
Planta
January 1989
The electrogenic proton/hexose carrier in the plasmalemma of Chenopodium rubrum suspens...
Biochimica et Biophysica Acta (BBA) - Biomembranes
January 1989
Sugar nucleotides dissipate ATP-generated transmembrane pH gradient in Golgi vesicles f...
Planta
June 1988
Physical properties of the cell wall of photoautotrophic suspension cells fromChenopodi...
Planta
June 1988
ATP-dependent acidification and tonoplast hyperpolarization in isolated vacuoles from g...
Proceedings of the National Academy of Sciences
April 1986
Lateral electrophoresis versus 2D-diffusion
Trends in Biochemical Sciences
December 1985
A Patch Clamp Study of Tonoplast Electrical Properties in Vacuoles Isolated from Chenop...
Zeitschrift für Naturforschung C
October 1985
Kinetics and Specificity of ATP-dependent Proton Translocation Measured with Acridine O...
Journal of Plant Physiology
March 1985
Phlorizin inhibits hexose transport across the plasmalemma of Riccia fluitans
Planta
April 1983
Fluxes and compartmentation of 3-O-methyl-D-glucose in Riccia fluitans
Planta
January 1983
What’s in a Tree?
Horizontal gene transfer, gene histories, and the root of the tree of life
Gene Transfer and the Reconstruction of Life’s Early History from Genomic Data
II.11. Evolution in the Prokaryotic Grade