Ancestral paralogs and pseudoparalogs and their role in the emergence of the eukaryotic cell
暂无分享,去创建一个
Boris G. Mirkin | Kira S. Makarova | Eugene V. Koonin | Yuri I. Wolf | E. Koonin | Y. Wolf | K. Makarova | B. Mirkin | S. L. Mekhedov | Sergey L. Mekhedov
[1] W. Doolittle,et al. Reconstructing/Deconstructing the Earliest Eukaryotes How Comparative Genomics Can Help , 2001, Cell.
[2] A. Hughes,et al. Gene duplication and the structure of eukaryotic genomes. , 2001, Genome research.
[3] C. Gille,et al. A comprehensive view on proteasomal sequences: implications for the evolution of the proteasome. , 2003, Journal of molecular biology.
[4] P. Forterre,et al. Evolution of the Archaea. , 2002, Theoretical population biology.
[5] Y. Dong,et al. Systematic functional analysis of the Caenorhabditis elegans genome using RNAi , 2003, Nature.
[6] Calvin B. Bridges,et al. SALIVARY CHROMOSOME MAPSWith a Key to the Banding of the Chromosomes of Drosophila Melanogaster , 1935 .
[7] D. Goldfarb,et al. Evolutionary specialization of the nuclear targeting apparatus. , 1997, Proceedings of the National Academy of Sciences of the United States of America.
[8] B. Birren,et al. Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae , 2004, Nature.
[9] Karsten Hokamp,et al. Extensive genomic duplication during early chordate evolution , 2002, Nature Genetics.
[10] Michael Y. Galperin,et al. Comparative genomics of the Archaea (Euryarchaeota): evolution of conserved protein families, the stable core, and the variable shell. , 1999, Genome research.
[11] P. Forterre,et al. Evolution of DNA Polymerase Families: Evidences for Multiple Gene Exchange Between Cellular and Viral Proteins , 2002, Journal of Molecular Evolution.
[12] M. Lynch,et al. The Origins of Genome Complexity , 2003, Science.
[13] Jodie J. Yin,et al. A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes , 2004, Genome Biology.
[14] M. Schwab. Amplification of oncogenes in human cancer cells , 1998, BioEssays : news and reviews in molecular, cellular and developmental biology.
[15] Ronald W. Davis,et al. Functional profiling of the Saccharomyces cerevisiae genome , 2002, Nature.
[16] E. Koonin,et al. Horizontal gene transfer in prokaryotes: quantification and classification. , 2001, Annual review of microbiology.
[17] J. Felsenstein. Inferring phylogenies from protein sequences by parsimony, distance, and likelihood methods. , 1996, Methods in enzymology.
[18] Robert C. Edgar,et al. MUSCLE: multiple sequence alignment with high accuracy and high throughput. , 2004, Nucleic acids research.
[19] S. Kearsey,et al. MCM proteins: evolution, properties, and role in DNA replication. , 1998, Biochimica et biophysica acta.
[20] E V Koonin,et al. Prediction of the archaeal exosome and its connections with the proteasome and the translation and transcription machineries by a comparative-genomic approach. , 2001, Genome research.
[21] W. Dalton,et al. The proteasome. , 2004, Seminars in oncology.
[22] M. Taira,et al. Gene Amplification , 2020, Definitions.
[23] Dr. Susumu Ohno. Evolution by Gene Duplication , 1970, Springer Berlin Heidelberg.
[24] Hiroyuki Araki,et al. GINS, a novel multiprotein complex required for chromosomal DNA replication in budding yeast. , 2003, Genes & development.
[25] W. Doolittle,et al. Gene duplication and the evolution of group II chaperonins: implications for structure and function. , 2001, Journal of Structural Biology.
[26] C. Pál,et al. Dosage sensitivity and the evolution of gene families in yeast , 2003, Nature.
[27] Eugene V Koonin,et al. A Non-Adaptationist Perspective on Evolution of Genomic Complexity or the Continued Dethroning of Man , 2004, Cell cycle.
[28] A. F. Neuwald,et al. HEAT repeats associated with condensins, cohesins, and other complexes involved in chromosome-related functions. , 2000, Genome research.
[29] Andrew J. Roger,et al. Reconstructing Early Events in Eukaryotic Evolution , 1999, The American Naturalist.
[30] A. Hughes,et al. Pattern and timing of gene duplication in animal genomes. , 2001, Genome research.
[31] R Palacios,et al. Gene amplification and genomic plasticity in prokaryotes. , 1997, Annual review of genetics.
[32] J. Shabanowitz,et al. A large nucleolar U3 ribonucleoprotein required for 18S ribosomal RNA biogenesis , 2002, Nature.
[33] E. Koonin,et al. Trends in protein evolution inferred from sequence and structure analysis. , 2002, Current opinion in structural biology.
[34] K. H. Wolfe,et al. Molecular evidence for an ancient duplication of the entire yeast genome , 1997, Nature.
[35] J. Adachi,et al. MOLPHY, programs for molecular phylogenetics , 1992 .
[36] H. Araki,et al. A novel ring-like complex of Xenopus proteins essential for the initiation of DNA replication. , 2003, Genes & development.
[37] Benjamin A. Shoemaker,et al. CDD: a database of conserved domain alignments with links to domain three-dimensional structure , 2002, Nucleic Acids Res..
[38] J. Archambault,et al. Genetics of eukaryotic RNA polymerases I, II, and III. , 1993, Microbiological reviews.
[39] W. Doolittle,et al. A kingdom-level phylogeny of eukaryotes based on combined protein data. , 2000, Science.
[40] E. Koonin. Orthologs, paralogs, and evolutionary genomics. , 2005, Annual review of genetics.
[41] John S. Conery,et al. The evolutionary demography of duplicate genes , 2004, Journal of Structural and Functional Genomics.
[42] J. Haldane,et al. The Part Played by Recurrent Mutation in Evolution , 1933, The American Naturalist.
[43] Darren A. Natale,et al. The COG database: an updated version includes eukaryotes , 2003, BMC Bioinformatics.
[44] K. Wolfe. Evolutionary Genomics: Yeasts Accelerate beyond BLAST , 2004, Current Biology.
[45] S. Baldauf,et al. The Deep Roots of Eukaryotes , 2003, Science.
[46] E. Koonin,et al. The role of lineage-specific gene family expansion in the evolution of eukaryotes. , 2002, Genome research.
[47] K. H. Wolfe,et al. Eukaryote genome duplication - where's the evidence? , 1998, Current opinion in genetics & development.
[48] E. Koonin,et al. Selection in the evolution of gene duplications , 2002, Genome Biology.
[49] Geoffrey J. Barton,et al. JPred : a consensus secondary structure prediction server , 1999 .
[50] H Philippe,et al. Where is the root of the universal tree of life? , 1999, BioEssays : news and reviews in molecular, cellular and developmental biology.
[51] T. Cavalier-smith,et al. The neomuran origin of archaebacteria, the negibacterial root of the universal tree and bacterial megaclassification. , 2002, International journal of systematic and evolutionary microbiology.
[52] A. Force,et al. Preservation of duplicate genes by complementary, degenerative mutations. , 1999, Genetics.
[53] W. Doolittle. You are what you eat: a gene transfer ratchet could account for bacterial genes in eukaryotic nuclear genomes. , 1998, Trends in genetics : TIG.
[54] Austin L. Hughes,et al. Evolution of the proteasome components , 1997, Immunogenetics.
[55] E V Koonin,et al. Lineage-specific gene expansions in bacterial and archaeal genomes. , 2001, Genome research.
[56] Eugene V Koonin,et al. Monophyly of class I aminoacyl tRNA synthetase, USPA, ETFP, photolyase, and PP‐ATPase nucleotide‐binding domains: implications for protein evolution in the RNA world , 2002, Proteins.
[57] R. Veitia,et al. Nonlinear effects in macromolecular assembly and dosage sensitivity. , 2003, Journal of theoretical biology.
[58] E. Koonin,et al. Comparative genomics of archaea: how much have we learned in six years, and what's next? , 2003, Genome Biology.
[59] H. Muller. The origination of chromatin deficiencies as minute deletions subject to insertion elsewhere , 1935, Genetica.
[60] A. Hughes,et al. Evolution of duplicate genes in a tetraploid animal, Xenopus laevis. , 1993, Molecular biology and evolution.
[61] Masasuke Yoshida,et al. Evolution of the vacuolar H+-ATPase: implications for the origin of eukaryotes. , 1989, Proceedings of the National Academy of Sciences of the United States of America.
[62] E. Koonin,et al. Coelomata and not Ecdysozoa: evidence from genome-wide phylogenetic analysis. , 2003, Genome research.
[63] Rory A. Fisher,et al. The Possible Modification of the Response of the Wild Type to Recurrent Mutations , 1928, The American Naturalist.
[64] J. Andersson,et al. Phylogenetic Analyses of Diplomonad Genes Reveal Frequent Lateral Gene Transfers Affecting Eukaryotes , 2003, Current Biology.
[65] Radhey S. Gupta. Evolution of the chaperonin families (HSP60, HSP 10 and TCP‐1) of proteins and the origin of eukaryotic cells , 1995, Molecular microbiology.
[66] Michael Y. Galperin,et al. The COG database: a tool for genome-scale analysis of protein functions and evolution , 2000, Nucleic Acids Res..
[67] M. Lynch,et al. The evolutionary fate and consequences of duplicate genes. , 2000, Science.
[68] A. Force,et al. The probability of duplicate gene preservation by subfunctionalization. , 2000, Genetics.
[69] S. Osawa,et al. Evolutionary relationship of archaebacteria, eubacteria, and eukaryotes inferred from phylogenetic trees of duplicated genes. , 1989, Proceedings of the National Academy of Sciences of the United States of America.
[70] Christian E. V. Storm,et al. Automatic clustering of orthologs and in-paralogs from pairwise species comparisons. , 2001, Journal of molecular biology.
[71] Russell F. Doolittle,et al. Intron Distribution in Ancient Paralogs Supports Random Insertion and Not Random Loss , 1997, Journal of Molecular Evolution.
[72] Jianzhi Zhang,et al. Rapid Subfunctionalization Accompanied by Prolonged and Substantial Neofunctionalization in Duplicate Gene Evolution , 2005, Genetics.
[73] C. Brown,et al. Multiple duplications of yeast hexose transport genes in response to selection in a glucose-limited environment. , 1998, Molecular biology and evolution.
[74] Eörs Szathmáry,et al. The Major Transitions in Evolution , 1997 .
[75] A. Hughes,et al. The temporal distribution of gene duplication events in a set of highly conserved human gene families. , 2003, Molecular biology and evolution.
[76] James R. Brown,et al. Archaea and the prokaryote-to-eukaryote transition. , 1997, Microbiology and molecular biology reviews : MMBR.
[77] Temple F. Smith,et al. Comparison of the complete protein sets of worm and yeast: orthology and divergence. , 1998, Science.
[78] Michael Y. Galperin,et al. Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes , 2003, BMC Evolutionary Biology.
[79] M. Hochstrasser,et al. Evolution and function of ubiquitin-like protein-conjugation systems , 2000, Nature Cell Biology.
[80] W. Doolittle,et al. How big is the iceberg of which organellar genes in nuclear genomes are but the tip? , 2003, Philosophical transactions of the Royal Society of London. Series B, Biological sciences.