Widespread distribution of archaeal reverse gyrase in thermophilic bacteria suggests a complex history of vertical inheritance and lateral gene transfers

Basic local alignment search tool

Altschul, S. F., Gish, W., Miller, W., Myers, E. W., & Lipman, D. J. (1990) · Journal of Molecular Biology · doi:10.1006/jmbi.1990.9999 · Cited by 98,669 · see citing works

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

Thompson, J. D., Higgins, D. G., & Gibson, T. J. (1994) · Nucleic Acids Research · doi:10.1093/nar/22.22.4673 · Cited by 64,617 · see citing works

MrBayes 3: Bayesian phylogenetic inference under mixed models

Ronquist, F., & Huelsenbeck, J. P. (2003) · Bioinformatics · doi:10.1093/bioinformatics/btg180 · Cited by 28,956 · see citing works

A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood

Guindon, S., & Gascuel, O. (2003) · Systematic Biology · doi:10.1080/10635150390235520 · Cited by 16,698 · see citing works

Glacial history and colonization of Europe by the blue tit Parus caeruleus

Kvist, L., Viiri, K. M., Dias, P. C., Rytkönen, S., & Orell, M. I. (2004) · Journal of Avian Biology · doi:10.1111/j.0908-8857.2004.03297.x · Cited by 2,798 · see citing works

Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima

Nelson, K. E., Clayton, R. A., Gill, S. R., Gwinn, M. L., Dodson, R. J., Haft, D. H., Hickey, E. K., Peterson, J. D., Nelson, W. C., Ketchum, K. A., et al. (1999) · Nature · doi:10.1038/20601 · Cited by 1,493 · see citing works

Horizontal gene transfer in prokaryotes: Quantification and classification

Koonin, E. V., Makarova, K. S., & Aravind, L. (2001) · Annual Review of Microbiology · doi:10.1146/annurev.micro.55.1.709 · Cited by 1,126 · see citing works

A new phylum of Archaea represented by a nanosized hyperthermophilic symbiont

Huber, H., Hohn, M. J., Rachel, R., Fuchs, T., Wimmer, V. C., & STETTER, K. O. (2002) · Nature · doi:10.1038/417063a · Cited by 825 · see citing works

Aminoacyl-tRNA Synthetases, the Genetic Code, and the Evolutionary Process

Woese, C. R., Olsen, G. J., Ibba, M., & Söll, D. (2000) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.64.1.202-236.2000 · Cited by 706 · see citing works

MUST, a computer package of Management Utilities for Sequences and Trees

Philippe, H. (1993) · Nucleic Acids Research · doi:10.1093/nar/21.22.5264 · Cited by 600 · see citing works

The genome of Nanoarchaeum equitans: Insights into early archaeal evolution and derived parasitism

Waters, E. R., Hohn, M. J., Ahel, I., Graham, D. E., Adams, M. D., Barnstead, M., Beeson, K. Y., Bibbs, L., Bolanos, R. A., Keller, M., et al. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1735403100 · Cited by 512 · see citing works

The Closest BLAST Hit Is Often Not the Nearest Neighbor

Koski, L. B., & Golding, G. B. (2001) · Journal of Molecular Evolution · doi:10.1007/s002390010184 · Cited by 466 · see citing works

A Nonhyperthermophilic Common Ancestor to Extant Life Forms

Galtier, N., Tourasse, N., & Gouy, M. (1999) · Science · doi:10.1126/science.283.5399.220 · Cited by 442 · see citing works

The genome sequence of the extreme thermophile Thermus thermophilus

Henne, A., Brüggemann, H., Raasch, C., Wiezer, A., Hartsch, T., Liesegang, H., Johann, A., Lienard, T., Gohl, O., Martínez‐Arias, R., et al. (2004) · Nature Biotechnology · doi:10.1038/nbt956 · Cited by 385 · see citing works

Evidence for massive gene exchange between archaeal and bacterial hyperthermophiles

Aravind, L., Tatusov, R. L., Wolf, Y. I., Walker, D. R., & Koonin, E. V. (1998) · Trends in Genetics · doi:10.1016/s0168-9525(98)01553-4 · Cited by 333 · see citing works

Reverse gyrase—a topoisomerase which introduces positive superhelical turns into DNA

Kikuchi, A., & Asai, K. (1984) · Nature · doi:10.1038/309677a0 · Cited by 292 · see citing works

Hyperthermophiles in the history of life

STETTER, K. O. (2006) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2006.1907 · Cited by 291 · see citing works

Higher‐level classification of the Archaea: evolution of methanogenesis and methanogens

Bapteste, E. P., Brochier‐Armanet, C., & Boucher, Y. (2005) · Archaea · doi:10.1155/2005/859728 · Cited by 261 · see citing works

A non-hyperthermophilic ancestor for Bacteria

Brochier‐Armanet, C., & Philippe, H. (2002) · Nature · doi:10.1038/417244a · Cited by 253 · see citing works

A hot story from comparative genomics: reverse gyrase is the only hyperthermophile-specific protein

Forterre, P. (2002) · Trends in Genetics · doi:10.1016/s0168-9525(02)02650-1 · Cited by 228 · see citing works

Nanoarchaea: representatives of a novel archaeal phylum or a fast-evolving euryarchaeal lineage related to Thermococcales?

Brochier‐Armanet, C., Gribaldo, S., Zivanovic, Y., Confalonieri, F., & Forterre, P. (2005) · Genome biology · doi:10.1186/gb-2005-6-5-r42 · Cited by 168 · see citing works

Reverse Gyrase Is Not a Prerequisite for Hyperthermophilic Life

Atomi, H., Matsumi, R., & Imanaka, T. (2004) · Journal of Bacteriology · doi:10.1128/jb.186.14.4829-4833.2004 · Cited by 146 · see citing works

DNA stability at temperatures typical for hyperthermophiles

Marguet, E., & Forterre, P. (1994) · Nucleic Acids Research · doi:10.1093/nar/22.9.1681 · Cited by 127 · see citing works

Reverse gyrase from hyperthermophiles: probable transfer of a thermoadaptation trait from Archaea to Bacteria

Forterre, P., de la Tour, C. B., Philippe, H., & Duguet, M. (2000) · Trends in Genetics · doi:10.1016/s0168-9525(00)01980-6 · Cited by 126 · see citing works

Evolution of the Archaea

Forterre, P., Brochier‐Armanet, C., & Philippe, H. (2002) · Theoretical Population Biology · doi:10.1006/tpbi.2002.1592 · Cited by 112 · see citing works

Environmental signals and cell fate specification in premigratory neural crest

Dorsky, R. I., Moon, R. T., & Raible, D. W. (2000) · BioEssays · doi:10.1002/1521-1878(200008)22:8 · Cited by 111 · see citing works

An emerging phylogenetic core of Archaea: phylogenies of transcription and translation machineries converge following addition of new genome sequences

Brochier‐Armanet, C., Forterre, P., & Gribaldo, S. (2005) · BMC Evolutionary Biology · doi:10.1186/1471-2148-5-36 · Cited by 94 · see citing works

Reverse gyrase has heat-protective DNA chaperone activity independent of supercoiling

Kampmann, M. (2004) · Nucleic Acids Research · doi:10.1093/nar/gkh683 · Cited by 94 · see citing works

Comparison of plasmid DNA topology among mesophilic and thermophilic eubacteria and archaebacteria

Charbonnier, F., & Forterre, P. (1994) · Journal of Bacteriology · doi:10.1128/jb.176.5.1251-1259.1994 · Cited by 91 · see citing works

Reverse gyrase in thermophilic eubacteria

de la Tour, C. B., Portemer, C., Huber, R., Forterre, P., & Duguet, M. (1991) · Journal of Bacteriology · doi:10.1128/jb.173.12.3921-3923.1991 · Cited by 83 · see citing works

Both DNA gyrase and reverse gyrase are present in the hyperthermophilic bacterium Thermotoga maritima

Guipaud, O., Marguet, E., Noll, K. M., de la Tour, C. B., & Forterre, P. (1997) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.94.20.10606 · Cited by 72 · see citing works

Hyperthermophiles in the history of life.

STETTER, K. O. (1996) · PubMed · Cited by 71 · see citing works

Reverse Gyrase, the Two Domains Intimately Cooperate to Promote Positive Supercoiling

Déclais, A., Marsault, J., Confalonieri, F., de la Tour, C. B., & Duguet, M. (2000) · Journal of Biological Chemistry · doi:10.1074/jbc.m910091199 · Cited by 70 · see citing works

Some liked it hot

Nisbet, E. G., & Fowler, C. M. R. (1996) · Nature · doi:10.1038/382404a0 · Cited by 57 · see citing works

Reverse Gyrase Recruitment to DNA after UV Light Irradiation in Sulfolobus solfataricus

Napoli, A., Valenti, A., Salerno, V., Nadal, M., Garnier, F., Rossi, M., & Ciaramella, M. (2004) · Journal of Biological Chemistry · doi:10.1074/jbc.m402619200 · Cited by 55 · see citing works

Bayesian phylogenetic analysis reveals two-domain topology of S-adenosylhomocysteine hydrolase protein sequences

Stępkowski, T., Brzeziński, K., Legocki, A. B., Jaskólski, M., & Béna, G. (2004) · Molecular Phylogenetics and Evolution · doi:10.1016/j.ympev.2004.09.008 · Cited by 36 · see citing works

Hyperthermophiles in the History of Life

STETTER, K. O. (2007) · Novartis Foundation symposium · doi:10.1002/9780470514986.ch1 · Cited by 27 · see citing works

Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world

Koonin, E., & Wolf, Y. (2008) · Nucleic Acids Research · doi:10.1093/nar/gkn668 · Cited by 722 · see citing works

All tangled up: how cells direct, manage and exploit topoisomerase function

Vos, S. M., Tretter, E. M., Thurtle-Schmidt, B. H., & Berger, J. M. (2011) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm3228 · Cited by 655 · see citing works

DNA topoisomerases: harnessing and constraining energy to govern chromosome topology

Schoeffler, A. J., & Berger, J. M. (2008) · Quarterly Reviews of Biophysics · doi:10.1017/s003358350800468x · Cited by 490 · see citing works

Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota

Spang, A., Hatzenpichler, R., Brochier‐Armanet, C., Rattei, T., Tischler, P., Spieck, E., Streit, W. R., Stahl, D. A., Wagner, M., & Schleper, C. (2010) · Trends in Microbiology · doi:10.1016/j.tim.2010.06.003 · Cited by 452 · see citing works

Origin and evolution of DNA topoisomerases

Forterre, P., Gribaldo, S., Gadelle, D., & Serre, M.-C. (2007) · Biochimie · doi:10.1016/j.biochi.2006.12.009 · Cited by 344 · see citing works

Insights into the evolution of Archaea and eukaryotic protein modifier systems revealed by the genome of a novel archaeal group

Nunoura, T., Takaki, Y., Kakuta, J., Nishi, S., Sugahara, J., Kazama, H., Chee, G.-J., Hattori, M., Kanai, A., Atomi, H., et al. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkq1228 · Cited by 291 · see citing works

Chemistry of Abiotic Nucleotide Synthesis

Yadav, M., Kumar, R., & Krishnamurthy, R. (2020) · Chemical Reviews · doi:10.1021/acs.chemrev.9b00546 · Cited by 225 · see citing works

Phylogenomics of DNA topoisomerases: their origin and putative roles in the emergence of modern organisms

Forterre, P., & Gadelle, D. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkp032 · Cited by 190 · see citing works

The universal tree of life: an update

Forterre, P. (2015) · Frontiers in Microbiology · doi:10.3389/fmicb.2015.00717 · Cited by 186 · see citing works

Adaptations to Submarine Hydrothermal Environments Exemplified by the Genome of Nautilia profundicola

Campbell, B. J., Smith, J. L., Hanson, T. E., Klotz, M. G., Stein, L. Y., Lee, C. K., Wu, D., Robinson, J. M., Khouri, H. M., Eisen, J. A., et al. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000362 · Cited by 143 · see citing works

The essential genome of the crenarchaeal model Sulfolobus islandicus

Zhang, C., Phillips, A. P. R., Wipfler, R. L., Olsen, G. J., & Whitaker, R. J. (2018) · Nature Communications · doi:10.1038/s41467-018-07379-4 · Cited by 123 · see citing works

Horizontal Gene Transfer Can Rescue Prokaryotes from Muller’s Ratchet: Benefit of DNA from Dead Cells and Population Subdivision

Takeuchi, N., Kaneko, K., & Koonin, E. V. (2014) · G3 Genes|Genomes|Genetics · doi:10.1534/g3.113.009845 · Cited by 125 · see citing works

Lateral Gene Transfer from the Dead

Szöllősi, G. J., Tannier, É., Lartillot, N., & Daubin, V. (2013) · Systematic Biology · doi:10.1093/sysbio/syt003 · Cited by 124 · see citing works

Horizontal Gene Transfer and the History of LifePreprint

Daubin, V., & Szöllősi, G. J. (2016) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a018036 · Cited by 123 · see citing works

The Common Ancestor of Archaea and Eukarya Was Not an Archaeon

Forterre, P. (2013) · Archaea · doi:10.1155/2013/372396 · Cited by 112 · see citing works

Bacterial gene import and mesophilic adaptation in archaea

López‐García, P., Zivanovic, Y., Deschamps, P., & Moreira, D. (2015) · Nature Reviews Microbiology · doi:10.1038/nrmicro3485 · Cited by 112 · see citing works

Candidatus Nitrosocaldus cavascurensis, an Ammonia Oxidizing, Extremely Thermophilic Archaeon with a Highly Mobile Genome

Abby, S. S., Melcher, M., Kerou, M., Krupovìč, M., Stieglmeier, M., Rossel, C., Pfeifer, K., & Schleper, C. (2018) · Frontiers in Microbiology · doi:10.3389/fmicb.2018.00028 · Cited by 89 · see citing works

Major players on the microbial stage: why archaea are important

Jarrell, K. F., Walters, A. D., Bochiwal, C., Borgia, J. M., Dickinson, T., & Chong, J. P. J. (2011) · Microbiology · doi:10.1099/mic.0.047837-0 · Cited by 74 · see citing works

Multidomain ribosomal protein trees and the planctobacterial origin of neomura (eukaryotes, archaebacteria)

Cavalier‐Smith, T., & Chao, E. E. Y. (2020) · PROTOPLASMA · doi:10.1007/s00709-019-01442-7 · Cited by 68 · see citing works

The Evolution of Reverse Gyrase Suggests a Nonhyperthermophilic Last Universal Common Ancestor

Catchpole, R. J., & Forterre, P. (2019) · Molecular Biology and Evolution · doi:10.1093/molbev/msz180 · Cited by 66 · see citing works

Random mutagenesis of a hyperthermophilic archaeon identified tRNA modifications associated with cellular hyperthermotolerance

Orita, I., Futatsuishi, R., Adachi, K., Ohira, T., Kaneko, A., Minowa, K., Suzuki, M. M., Tamura, T., Nakamura, S., Imanaka, T., et al. (2018) · Nucleic Acids Research · doi:10.1093/nar/gky1313 · Cited by 65 · see citing works

Reverse gyrase—recent advances and current mechanistic understanding of positive DNA supercoiling

Lulchev, P., & Klostermeier, D. (2014) · Nucleic Acids Research · doi:10.1093/nar/gku589 · Cited by 61 · see citing works

How hyperthermophiles adapt to change their lives: DNA exchange in extreme conditions

van Wolferen, M., Ajon, M., Driessen, A. J. M., & Albers, S. (2013) · Extremophiles · doi:10.1007/s00792-013-0552-6 · Cited by 57 · see citing works

Environmental Adaptation from the Origin of Life to the Last Universal Common Ancestor

Cantine, M. D., & Fournier, G. P. (2018) · Origins of Life and Evolution of Biospheres · doi:10.1007/s11084-017-9542-5 · Cited by 54 · see citing works

The origin of modern terrestrial life

Forterre, P., & Gribaldo, S. (2007) · HFSP journal · doi:10.2976/1.2759103 · Cited by 54 · see citing works

A new analysis of archaea-bacteria domain separation: Variable phylogenetic distance and the tempo of early evolution

Berkemer, S. J., & McGlynn, S. E. (2020) · Molecular Biology and Evolution · doi:10.1093/molbev/msaa089 · Cited by 52 · see citing works

Reverse gyrase and genome stability in hyperthermophilic organisms

Perugino, G., Valenti, A., D’Amaro, A., Rossi, M., & Ciaramella, M. (2009) · Biochemical Society Transactions · doi:10.1042/bst0370069 · Cited by 50 · see citing works

Insights into thermoadaptation and the evolution of mesophily from the bacterial phylum Thermotogae

Pollo, S. M. J., Zhaxybayeva, O., & Nesbø, C. L. (2015) · Canadian Journal of Microbiology · doi:10.1139/cjm-2015-0073 · Cited by 46 · see citing works

The linkage between reverse gyrase and hyperthermophiles: A review of their invariable association

Heine, M., & Chandra, S. (2009) · The Journal of Microbiology · doi:10.1007/s12275-009-0019-8 · Cited by 46 · see citing works

Strain-level genomic variation in natural populations of Lebetimonas from an erupting deep-sea volcano

Meyer, J. L., & Huber, J. A. (2013) · The ISME Journal · doi:10.1038/ismej.2013.206 · Cited by 45 · see citing works

Comparative Genomic Analysis Reveals the Distribution, Organization, and Evolution of Metal Resistance Genes in the Genus Acidithiobacillus

Li, L., Liu, Z., Meng, D., Liu, X., Li, X., Zhang, M., Tao, J., Gu, Y., Zhong, S., & Yin, H. (2018) · Applied and Environmental Microbiology · doi:10.1128/aem.02153-18 · Cited by 45 · see citing works

Helical Chirality: a Link between Local Interactions and Global Topology in DNA

Timsit, Y., & Várnai, P. (2010) · PLoS ONE · doi:10.1371/journal.pone.0009326 · Cited by 43 · see citing works

The legacy of Carl Woese and Wolfram Zillig: from phylogeny to landmark discoveries

Albers, S., Forterre, P., Prangishvili, D. A., & Schleper, C. (2013) · Nature Reviews Microbiology · doi:10.1038/nrmicro3124 · Cited by 43 · see citing works

Whole-genome comparison clarifies close phylogenetic relationships between the phyla Dictyoglomi and Thermotogae

Nishida, H., Beppu, T., & Uéda, K. (2011) · Genomics · doi:10.1016/j.ygeno.2011.08.001 · Cited by 40 · see citing works

Low Temperature Adaptation Is Not the Opposite Process of High Temperature Adaptation in Terms of Changes in Amino Acid Composition

Yang, L., Tang, S., Huang, Y., & Zhi, X. (2015) · Genome Biology and Evolution · doi:10.1093/gbe/evv232 · Cited by 36 · see citing works

Phylogenetic systematics of microorganisms inhabiting thermal environments

Lebedinsky, A. V., Chernyh, N. A., & Bonch-Osmolovskaya, E. A. (2007) · Biochemistry (Moscow) · doi:10.1134/s0006297907120048 · Cited by 33 · see citing works

Inhibition of translesion DNA polymerase by archaeal reverse gyrase

Valenti, A., Perugino, G., Nohmi, T., Rossi, M., & Ciaramella, M. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkp386 · Cited by 33 · see citing works

Evolution of the biosynthesis of di‐ myo ‐inositol phosphate, a marker of adaptation to hot marine environments

Gonçalves, L. G., Borges, N., Serra, F., Fernandes, P., Dopazo, H., & Santos, H. (2011) · Environmental Microbiology · doi:10.1111/j.1462-2920.2011.02621.x · Cited by 32 · see citing works

Dissection of reverse gyrase activities: insight into the evolution of a thermostable molecular machine †

Valenti, A., Perugino, G., D’Amaro, A., Cacace, A., Napoli, A., Rossi, M., & Ciaramella, M. (2008) · Nucleic Acids Research · doi:10.1093/nar/gkn418 · Cited by 30 · see citing works

Plasmids from Euryarchaeota

Forterre, P., Krupovìč, M., Raymann, K., & Soler, N. (2014) · Microbiology Spectrum · doi:10.1128/microbiolspec.plas-0027-2014 · Cited by 30 · see citing works

Genome-wide identification of SF1 and SF2 helicases from archaea

Chamieh, H., Ibrahim, H. S., & Kozah, J. (2015) · Gene · doi:10.1016/j.gene.2015.10.007 · Cited by 29 · see citing works

Unravelling the mechanisms of Type 1A topoisomerases using single-molecule approaches

Spakman, D., Bakx, J. A. M., Biebricher, A. S., Peterman, E. J. G., Wuite, G. J. L., & King, G. A. (2021) · Nucleic Acids Research · doi:10.1093/nar/gkab239 · Cited by 27 · see citing works

DNA Self-Assembly: From Chirality to Evolution

Timsit, Y. (2013) · International Journal of Molecular Sciences · doi:10.3390/ijms14048252 · Cited by 28 · see citing works

The split genes of Nanoarchaeum equitans are an ancestral character

Giulio, M. D. (2008) · Gene · doi:10.1016/j.gene.2008.06.010 · Cited by 28 · see citing works

TopR2, the Second Reverse Gyrase of Sulfolobus solfataricus, Exhibits Unusual Properties

Bizard, A. H., Garnier, F., & Nadal, M. (2011) · Journal of Molecular Biology · doi:10.1016/j.jmb.2011.03.030 · Cited by 27 · see citing works

Positive supercoiling in thermophiles and mesophiles: of the good and evil

Valenti, A., Perugino, G., Rossi, M., & Ciaramella, M. (2011) · Biochemical Society Transactions · doi:10.1042/bst0390058 · Cited by 26 · see citing works

Separate and Combined Biochemical Activities of the Subunits of a Naturally Split Reverse Gyrase

Capp, C., Qian, Y., Sage, H. J., Huber, H., & Hsieh, T. (2010) · Journal of Biological Chemistry · doi:10.1074/jbc.m110.173989 · Cited by 25 · see citing works

In vivo and in vitro protein imaging in thermophilic archaea by exploiting a novel protein tag

Visone, V., Han, W., Perugino, G., del Monaco, G., She, Q., Rossi, M., Valenti, A., & Ciaramella, M. (2017) · PLoS ONE · doi:10.1371/journal.pone.0185791 · Cited by 25 · see citing works

The Last Universal Common Ancestor of Ribosome-Encoding Organisms: Portrait of LUCA

Forterre, P. (2024) · Journal of Molecular Evolution · doi:10.1007/s00239-024-10186-9 · Cited by 26 · see citing works

Gaining and losing the thermophilic adaptation in prokaryotes

Puigbò, P., Pasamontes, A., & Garcı́a-Vallvé, S. (2007) · Trends in Genetics · doi:10.1016/j.tig.2007.10.005 · Cited by 24 · see citing works

The Reverse Gyrase from Pyrobaculum calidifontis, a Novel Extremely Thermophilic DNA Topoisomerase Endowed with DNA Unwinding and Annealing Activities

Jamroze, A., Perugino, G., Valenti, A., Rashid, N., Rossi, M., Akhtar, M., & Ciaramella, M. (2013) · Journal of Biological Chemistry · doi:10.1074/jbc.m113.517649 · Cited by 23 · see citing works

Horizontal gene transfer of zinc and non-zinc forms of bacterial ribosomal protein S4

Chen, K., Roberts, E., & Luthey-Schulten, Z. A. (2009) · BMC Evolutionary Biology · doi:10.1186/1471-2148-9-179 · Cited by 23 · see citing works

Chromatin Structure and Dynamics in Hot Environments: Architectural Proteins and DNA Topoisomerases of Thermophilic Archaea

Visone, V., Vettone, A., Serpe, M., Valenti, A., Perugino, G., Rossi, M., & Ciaramella, M. (2014) · International Journal of Molecular Sciences · doi:10.3390/ijms150917162 · Cited by 22 · see citing works

The Molecular Determinants of Thermoadaptation:Methanococcalesas a Case Study

Lecocq, M., Groussin, M., Gouy, M., & Brochier‐Armanet, C. (2020) · Molecular Biology and Evolution · doi:10.1093/molbev/msaa312 · Cited by 22 · see citing works

Lysine-specific acetylated proteome from the archaeon Thermococcus gammatolerans reveals the presence of acetylated histones

Alpha‐Bazin, B., Gorlas, A., Lagorce, A., Joulié, D., Boyer, J.-B., Dutertre, M., Gaillard, J., Lopes, A., Zivanovic, Y., Dedieu, A., et al. (2020) · Journal of Proteomics · doi:10.1016/j.jprot.2020.104044 · Cited by 21 · see citing works

The Complete Genome Sequence of Hyperthermophile Dictyoglomus turgidum DSM 6724™ Reveals a Specialized Carbohydrate Fermentor

Brumm, P. J., Gowda, K., Robb, F. T., & Mead, D. A. (2016) · Frontiers in Microbiology · doi:10.3389/fmicb.2016.01979 · Cited by 20 · see citing works

Comparative Genomic Analysis Reveals Organization, Function and Evolution of ars Genes in Pantoea spp.

Wang, L., Wang, J., & Jing, C. (2017) · Frontiers in Microbiology · doi:10.3389/fmicb.2017.00471 · Cited by 20 · see citing works

Into the Thermus Mobilome: Presence, Diversity and Recent Activities of Insertion Sequences Across Thermus spp.

Blesa, A., Sánchez‐Costa, M., Sacristán-Horcajada, E., la Fuente, S. G., Peiró‐Pastor, R., & Berenguer, J. (2019) · Microorganisms · doi:10.3390/microorganisms7010025 · Cited by 19 · see citing works

Horizontal Gene Transfers with or without Cell Fusions in All Categories of the Living Matter

Sinkovics, J. G. (2011) · Advances in experimental medicine and biology · doi:10.1007/978-94-007-0782-5_2 · Cited by 19 · see citing works

Analysis of the complete genome of Fervidococcus fontis confirms the distinct phylogenetic position of the order Fervidicoccales and suggests its environmental function

Lebedinsky, A. V., Mardanov, A. V., Kublanov, I. V., Gumerov, V. M., Beletsky, A. V., Perevalova, A. A., Bidzhieva, S. K., Bonch-Osmolovskaya, E. A., Георгиевич, С. К., & Ravin, N. V. (2013) · Extremophiles · doi:10.1007/s00792-013-0616-7 · Cited by 18 · see citing works

Genome stability: recent insights in the topoisomerase reverse gyrase and thermophilic DNA alkyltransferase

Vettone, A., Perugino, G., Rossi, M., Valenti, A., & Ciaramella, M. (2014) · Extremophiles · doi:10.1007/s00792-014-0662-9 · Cited by 18 · see citing works

Genomic attributes of thermophilic and hyperthermophilic bacteria and archaea

Verma, D., Kumar, V., & Satyanarayana, T. (2022) · World Journal of Microbiology and Biotechnology · doi:10.1007/s11274-022-03327-z · Cited by 19 · see citing works

Horizontal Gene Transfer in Thermus spp.

Blesa, A., Averhoff, B., & Berenguer, J. (2018) · Current Issues in Molecular Biology · doi:10.21775/cimb.029.023 · Cited by 17 · see citing works

Adenosine 5′-O-(3-thio)triphosphate (ATPγS) Promotes Positive Supercoiling of DNA by T. maritima Reverse Gyrase

Jungblut, S. P., & Klostermeier, D. (2007) · Journal of Molecular Biology · doi:10.1016/j.jmb.2007.05.031 · Cited by 17 · see citing works

Genus Thermotoga: A valuable home of multifunctional glycoside hydrolases (GHs) for industrial sustainability

Akram, F., Haq, I. U., Shah, F. I., Aqeel, A., Ahmed, Z., Mir, A. S., Qureshi, S. S., & Raja, S. I. (2022) · Bioorganic Chemistry · doi:10.1016/j.bioorg.2022.105942 · Cited by 15 · see citing works

Introduction and Historical Perspective

Forterre, P. (2011) · Cancer drug discovery and develogment/Cancer drug discovery and development · doi:10.1007/978-1-4614-0323-4_1 · Cited by 11 · see citing works

Insight into the cellular involvement of the two reverse gyrases from the hyperthermophilic archaeon Sulfolobus solfataricus

Couturier, M., Bizard, A. H., Garnier, F., & Nadal, M. (2014) · BMC Molecular Biology · doi:10.1186/1471-2199-15-18 · Cited by 11 · see citing works

Horizontal Gene Transfer in Microbial Ecosystems

Brochier‐Armanet, C., & Moreira, D. (2014) · Springer eBooks · doi:10.1007/978-94-017-9118-2_12 · Cited by 11 · see citing works

Functional evaluation of four putative DNA-binding regions in Thermoanaerobacter tengcongensis reverse gyrase

Li, J., Liu, J., Zhou, J. B., & Xiang, H. (2011) · Extremophiles · doi:10.1007/s00792-011-0356-5 · Cited by 11 · see citing works

Increase of positive supercoiling in a hyperthermophilic archaeon after UV irradiation

Gorlas, A., Catchpole, R. J., Marguet, E., & Forterre, P. (2018) · Extremophiles · doi:10.1007/s00792-018-1068-x · Cited by 10 · see citing works

Genome-wide identification, domain architectures and phylogenetic analysis provide new insights into the early evolution of shikimate pathway in prokaryotes

Zhi, X., Yao, J., Li, H., Huang, Y., & Li, W. (2014) · Molecular Phylogenetics and Evolution · doi:10.1016/j.ympev.2014.02.015 · Cited by 10 · see citing works

Torsional stress in DNA limits collaboration among reverse gyrase molecules

Ogawa, T., Sutoh, K., Kikuchi, A., & Kinosita, K. (2016) · FEBS Journal · doi:10.1111/febs.13675 · Cited by 8 · see citing works

Detection of Biochemical Pathways by Probabilistic Matching of Phyletic Vectors

Li, H., Kristensen, D. M., Coleman, M. K., & Mushegian, A. R. (2009) · PLoS ONE · doi:10.1371/journal.pone.0005326 · Cited by 8 · see citing works

Microbes Thriving in Extreme Environments: How Do They Do It?

Jha, P. (2014) · International Journal of Applied Sciences and Biotechnology · doi:10.3126/ijasbt.v2i4.10543 · Cited by 7 · see citing works

Integration of phenotypic metadata and protein similarity in Archaea using a spectral bipartitioning approach

Hooper, S. D., Anderson, I., Pati, A., Dalevi, D., Mavromatis, K., & Kyrpides, N. C. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkp075 · Cited by 7 · see citing works

Interdomain Transfers of Sugar Transporters Overcome Barriers to Gene Expression

Noll, K. M., & Thirangoon, K. (2009) · Methods in molecular biology · doi:10.1007/978-1-60327-853-9_18 · Cited by 7 · see citing works

Assembling networks of microbial genomes using linear programming

Holloway, C., & Beiko, R. G. (2010) · BMC Evolutionary Biology · doi:10.1186/1471-2148-10-360 · Cited by 5 · see citing works

‘Parabiotic Evolution’: From Stochasticity in Geochemical and Subsequent Processes to Genes, Genomes and Modular CellsPreprint

Egel, R. (2017) · Preprints.org · doi:10.20944/preprints201710.0153.v1 · Cited by 5 · see citing works

Untangling bacterial DNA topoisomerases functions

Borde, C., Bruno, L., & Espéli, O. (2024) · Biochemical Society Transactions · doi:10.1042/bst20240089 · Cited by 4 · see citing works

Life in a multi-extreme environment: Thermococcales living in deep sea hydrothermal vents

Zhao, W., & Xiang, X. I. A. O. (2017) · Scientia Sinica Vitae · doi:10.1360/n052017-00056 · Cited by 4 · see citing works

Complete Genome Sequence of Pseudoxanthomonas taiwanensis AL17 and its Potential Genes

Afifah, D. N., Brigiyanti, L. N., Widhiastuty, M. P., Restiawaty, E., & Akhmaloka, A. (2024) · Journal of Pure and Applied Microbiology · doi:10.22207/jpam.18.4.33 · Cited by 2 · see citing works

Plasmids fromEuryarchaeota

Forterre, P., Krupovìč, M., Raymann, K., & Soler, N. (2015) · ASM Press eBooks · doi:10.1128/9781555818982.ch20 · Cited by 2 · see citing works

Revisiting metagenome of South-Asian hot springs for exploration of biomolecules

Wani, A. K., Dhanjal, D. S., Chopra, C., & Singh, R. (2024) · Elsevier eBooks · doi:10.1016/b978-0-323-98394-5.00004-3 · Cited by 1 · see citing works

Depletion of CpG dinucleotides in bacterial genomes may represent an adaptation to high temperatures

Forni, D., Pozzoli, U., Mozzi, A., Cagliani, R., & Sironi, M. (2024) · NAR Genomics and Bioinformatics · doi:10.1093/nargab/lqae088 · Cited by 1 · see citing works

Thermophiles and Thermozymes

González-Siso, M.-I. (2019) · MDPI eBooks · doi:10.3390/books978-3-03897-817-6 · Cited by 1 · see citing works

Archaea and the Tree of Life

Forterre, P. (2025) · Wiley eBooks · doi:10.1002/9781394351848.ch3 · Cited by 1 · see citing works

Insights into temperature adaptation in the Thermotogae gained through transcriptomics and comparative genomics - Appendices

Pollo, S. M. J. (2014) · ERA: Education and Research Archive (University of Alberta) · doi:10.7939/r34s1d

Computational genomics of hyperthermophiles

van de Werken, H. J. G. (2008) · doi:10.18174/16325

The Biochemical Characterization of Drosophila melanogaster RecQ4 Helicase

Lee, C. (2011)

Reconstrução Filogenética de microorganismos a partir da Via de Reparo por Excisão de Nucleotídeo

da Silva, U. B. (2008)

Structure and Function of Helicases in Archaea the Third Domain of Life

Huang, Q.-H., Ahmad, S., Zhai, B., & Shen, Y.-L. (2019) · Helicases from All Domains of Life · doi:10.1016/b978-0-12-814685-9.00002-6

Universal Tree of Life

Forterre, P., Cunha, V. D., & Gaïa, M. (2018) · Wiley eBooks · doi:10.1002/9780470015902.a0001525.pub3 · Cited by 1 · see citing works

Hyperthermophile

Stolz, A. (2017) · Springer eBooks · doi:10.1007/978-3-662-55595-8_2

Aquificae

Wäber, N. B., & Hartmann, R. K. (2019) · Elsevier eBooks · doi:10.1016/b978-0-12-809633-8.20783-8

Industrial Marvels of Extreme Microbial Adaptations

Priscilla, R. A., & Saleena, L. M. (2024) · Springer eBooks · doi:10.1007/978-981-97-6270-5_31

Evolution of Archaea and Their Taxonomy

Forterre, P. (2025) · doi:10.1002/9781394351848.ch2

Radiating pattern revealed by a deep learning model traces the evolutionary dynamics of the Archaea domain

Lv, Z., Wang, Y., & Wang, Y. (2026) · The Innovation Life · doi:10.59717/j.xinn-life.2026.100235

Reverse gyrase from hyperthermophiles: probable transfer of a thermoadaptation trait from archaea to bacteria

de la Tour, C. B., Portemer, C., Kaltoum, H., Duguet, M., Information, U., de la Tour, C. B., Tour, D. L., & Kaltoum, H. (2000)

Reverse gyrase in thermophilic eubacteria

de la Tour, C. B., Portemer, C., Huber, R., Forterre, P., & Duguet, M. (1991) · Journal of Bacteriology · doi:10.1128/jb.173.12.3921-3923.1991 · Cited by 83 · see citing works

Distribution of reverse gyrase in representative species of eubacteria and archaebacteria

Collin, R. G., Morgan, H. W., Musgrave, D. R., & Daniel, R. M. (1988) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.1988.tb13940.x · Cited by 33 · see citing works

Reverse gyrase, a hallmark of the hyperthermophilic archaebacteria

de la Tour, C. B., Portemer, C., Nadal, M., STETTER, K. O., Forterre, P., & Duguet, M. (1990) · Journal of Bacteriology · doi:10.1128/jb.172.12.6803-6808.1990 · Cited by 113 · see citing works

The linkage between reverse gyrase and hyperthermophiles: A review of their invariable association

Heine, M., & Chandra, S. (2009) · The Journal of Microbiology · doi:10.1007/s12275-009-0019-8 · Cited by 46 · see citing works