Bacterial origins of thymidylate metabolism in Asgard archaea and Eukarya
暂无分享,去创建一个
H. Myllykallio | Zhihui Li | J. Filée | U. Liebl | J. Lambry | H. Becker | L. Mellottée | Wenlu Yin | Rima Zein Eddine | Zhihui Li
[1] P. Forterre,et al. Expanded Dataset Reveals the Emergence and Evolution of DNA Gyrase in Archaea , 2022, Molecular biology and evolution.
[2] M. Gillings,et al. Discovery of integrons in Archaea: Platforms for cross-domain gene transfer , 2022, bioRxiv.
[3] Fang Qin,et al. Newly identified HMO-2011-type phages reveal genomic diversity and biogeographic distributions of this marine viral group , 2022, The ISME Journal.
[4] Connor T. Skennerton,et al. Comparative genomics reveals electron transfer and syntrophic mechanisms differentiating methanotrophic and methanogenic archaea , 2021, bioRxiv.
[5] E. Koonin,et al. Expanded diversity of Asgard archaea and their relationships with eukaryotes , 2021, Nature.
[6] P. Bork,et al. Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation , 2021, Nucleic Acids Res..
[7] H. Drost,et al. Sensitive protein alignments at tree-of-life scale using DIAMOND , 2021, Nature Methods.
[8] J. Barretina,et al. Obesity-associated deficits in inhibitory control are phenocopied to mice through gut microbiota changes in one-carbon and aromatic amino acids metabolic pathways , 2021, Gut.
[9] Ruixin Zhu,et al. Anomalous Phylogenetic Behavior of Ribosomal Proteins in Metagenome-Assembled Asgard Archaea. , 2020, Genome biology and evolution.
[10] Cameron L.M. Gilchrist,et al. clinker & clustermap.js: Automatic generation of gene cluster comparison figures , 2020, bioRxiv.
[11] Č. Venclovas,et al. Diversity and evolution of B-family DNA polymerases , 2020, Nucleic acids research.
[12] H. Flint,et al. Vitamin Biosynthesis by Human Gut Butyrate-Producing Bacteria and Cross-Feeding in Synthetic Microbial Communities , 2020, mBio.
[13] T. Embley,et al. Phylogenomics provides robust support for a two-domains tree of life , 2019, Nature Ecology & Evolution.
[14] Takashi Yamaguchi,et al. Isolation of an archaeon at the prokaryote–eukaryote interface , 2019, Nature.
[15] S. Gribaldo,et al. An archaeal origin of the Wood–Ljungdahl H4MPT branch and the emergence of bacterial methylotrophy , 2019, Nature Microbiology.
[16] Andrew D. Mathis,et al. A Two-Enzyme Adaptive Unit within Bacterial Folate Metabolism. , 2019, Cell reports.
[17] P. Herdewijn,et al. Synthesis and Structure–Activity Relationship Studies of Benzo[b][1,4]oxazin‐3(4H)‐one Analogues as Inhibitors of Mycobacterial Thymidylate Synthase X , 2019, ChemMedChem.
[18] H. Myllykallio,et al. Unique Features and Anti-microbial Targeting of Folate- and Flavin-Dependent Methyltransferases Required for Accurate Maintenance of Genetic Information , 2018, Front. Microbiol..
[19] Lukas Zimmermann,et al. A Completely Reimplemented MPI Bioinformatics Toolkit with a New HHpred Server at its Core. , 2017, Journal of molecular biology.
[20] P. Herdewijn,et al. Discovery of a new Mycobacterium tuberculosis thymidylate synthase X inhibitor with a unique inhibition profile , 2017, Biochemical pharmacology.
[21] S. Albers,et al. Mechanisms of gene flow in archaea , 2017, Nature Reviews Microbiology.
[22] Thomas K. F. Wong,et al. ModelFinder: Fast Model Selection for Accurate Phylogenetic Estimates , 2017, Nature Methods.
[23] Thijs J. G. Ettema,et al. Asgard archaea illuminate the origin of eukaryotic cellular complexity , 2017, Nature.
[24] Ben M. Webb,et al. Comparative Protein Structure Modeling Using MODELLER , 2016, Current protocols in protein science.
[25] Yann Ponty,et al. ecceTERA: comprehensive gene tree-species tree reconciliation using parsimony , 2016, Bioinform..
[26] M. Kanehisa,et al. BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences. , 2016, Journal of molecular biology.
[27] Vincent Berry,et al. SylvX: a viewer for phylogenetic tree reconciliations , 2016, Bioinform..
[28] Liping Yu,et al. An unprecedented mechanism of nucleotide methylation in organisms containing thyX , 2016, Science.
[29] Thijs J. G. Ettema,et al. Complex archaea that bridge the gap between prokaryotes and eukaryotes , 2015, Nature.
[30] A. von Haeseler,et al. IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies , 2014, Molecular biology and evolution.
[31] F. Rodríguez-Valera,et al. Pangenome Evidence for Extensive Interdomain Horizontal Transfer Affecting Lineage Core and Shell Genes in Uncultured Planktonic Thaumarchaeota and Euryarchaeota , 2014, Genome biology and evolution.
[32] Qiyun Zhu,et al. HGTector: an automated method facilitating genome-wide discovery of putative horizontal gene transfers , 2014, BMC Genomics.
[33] Eric J Alm,et al. Horizontal gene transfer and the evolution of bacterial and archaeal population structure. , 2013, Trends in genetics : TIG.
[34] Robert H. White,et al. Comparative Genomics Guided Discovery of Two Missing Archaeal Enzyme Families Involved in the Biosynthesis of the Pterin Moiety of Tetrahydromethanopterin and Tetrahydrofolate , 2012, ACS chemical biology.
[35] U. Gophna,et al. An Evolutionary Analysis of Lateral Gene Transfer in Thymidylate Synthase Enzymes , 2010, Systematic biology.
[36] Jianpeng Ma,et al. CHARMM: The biomolecular simulation program , 2009, J. Comput. Chem..
[37] Scott A. Lesley,et al. An unusual mechanism of thymidylate biosynthesis in organisms containing the thyX Gene , 2009, Nature.
[38] H. Myllykallio,et al. Flavin-dependent thymidylate synthase X limits chromosomal DNA replication , 2008, Proceedings of the National Academy of Sciences.
[39] Y. Boum,et al. Functional Analysis of the Mycobacterium tuberculosis FAD-Dependent Thymidylate Synthase, ThyX, Reveals New Amino Acid Residues Contributing to an Extended ThyX Motif , 2008, Journal of bacteriology.
[40] Rick L. Stevens,et al. The RAST Server: Rapid Annotations using Subsystems Technology , 2008, BMC Genomics.
[41] H. Nijhout,et al. Flavin-Dependent Thymidylate Synthase ThyX Activity: Implications for the Folate Cycle in Bacteria , 2007, Journal of bacteriology.
[42] Arthur M. Lesk,et al. Quantitative sequence-function relationships in proteins based on gene ontology , 2007, BMC Bioinformatics.
[43] M. Graille,et al. Catalytic Mechanism and Structure of Viral Flavin-dependent Thymidylate Synthase ThyX* , 2006, Journal of Biological Chemistry.
[44] Laxmikant V. Kalé,et al. Scalable molecular dynamics with NAMD , 2005, J. Comput. Chem..
[45] C. Pál,et al. Adaptive evolution of bacterial metabolic networks by horizontal gene transfer , 2005, Nature Genetics.
[46] M. Noordewier,et al. Genome Streamlining in a Cosmopolitan Oceanic Bacterium , 2005, Science.
[47] J. Breznak,et al. Folate Cross-Feeding Supports Symbiotic Homoacetogenic Spirochetes , 2005, Applied and Environmental Microbiology.
[48] J. V. Van Etten,et al. Functional Analysis of FAD-dependent Thymidylate Synthase ThyX from Paramecium bursaria Chlorella Virus-1* , 2004, Journal of Biological Chemistry.
[49] Conrad C. Huang,et al. UCSF Chimera—A visualization system for exploratory research and analysis , 2004, J. Comput. Chem..
[50] Peter Kuhn,et al. Mechanistic studies of a flavin-dependent thymidylate synthase. , 2004, Biochemistry.
[51] H. Myllykallio,et al. Functional evidence for active site location of tetrameric thymidylate synthase X at the interphase of three monomers. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[52] H. Myllykallio,et al. Life without dihydrofolate reductase FolA. , 2003, Trends in microbiology.
[53] W. Doolittle,et al. Prokaryotic evolution in light of gene transfer. , 2002, Molecular biology and evolution.
[54] M. Giladi,et al. Genetic evidence for a novel thymidylate synthase in the halophilic archaeon Halobacterium salinarum and in Campylobacter jejuni. , 2002, FEMS microbiology letters.
[55] K. Katoh,et al. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. , 2002, Nucleic acids research.
[56] Patrick Forterre,et al. An Alternative Flavin-Dependent Mechanism for Thymidylate Synthesis , 2002, Science.
[57] P. Bork,et al. Quod erat demonstrandum? The mystery of experimental validation of apparently erroneous computational analyses of protein sequences , 2001, Genome Biology.
[58] B. Maden. Tetrahydrofolate and tetrahydromethanopterin compared: functionally distinct carriers in C1 metabolism. , 2000, The Biochemical journal.
[59] R. White,et al. dTMP biosynthesis in Archaea , 1996, Journal of bacteriology.
[60] D. Santi,et al. The catalytic mechanism and structure of thymidylate synthase. , 1995, Annual review of biochemistry.
[61] H. Hogenkamp,et al. Purification and partial characterization of a putative thymidylate synthase from Methanobacterium thermoautotrophicum. , 1994, European journal of biochemistry.
[62] E. Stokstad,et al. Transport and metabolism of folates by bacteria. , 1975, The Journal of biological chemistry.