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Ключевое слово genome_evolution [83 articles]

Recent papers classified by the tag genome_evolution.
  • Intragenomic Variation and Evolution of the Internal Transcribed Spacer of the rRNA Operon in Bacteria
    Journal of Molecular Evolution, Vol. 65, No. 1. (July 2007), pp. 44-67.
    by Stewart, Frank, Cavanaugh, Colleen
    posted to lh-pcr its genome_evolution arisa 16srrna by vrich on 2008-05-10 17:21:08 as **
  • A burst of protein sequence evolution and a prolonged period of asymmetric evolution follow gene duplication in yeast.
    Genome Res, Vol. 18, No. 1. (January 2008), pp. 137-147.
    by DR Scannell, KH Wolfe
    posted to duplication genome_evolution protein_evolution saccharomyces whole_genome yeast by stajich on 2008-03-10 17:52:44 as ** along with 3 people and 1 group djkt dandaman gjuggler Berkeley Mycology
  • Improved Consensus Network Techniques for Genome-Scale Phylogeny
    Molecular Biology and Evolution, Vol. 23, No. 5. (15 May 2006), pp. 848-855.
    by Barbara R Holland, Lars S Jermiin, Vincent Moulton
    posted to genome_evolution methods phylogenetics phylogenomics by stajich on 2007-08-28 09:23:26 as ** along with 1 person and 1 group rvosa FAB-lab
  • Genome evolution and speciation genetics of clawed frogs (Xenopus and Silurana).
    Frontiers in bioscience : a journal and virtual library, Vol. 13 (2008), pp. 4687-4706.
    by BJ Evans
    posted to speciation genome_evolution frog by stajich on 2008-06-02 03:32:12 as ** along with 1 person and 1 group alhufton Berkeley Mycology
  • Genome structure and emerging evidence of an incipient sex chromosome in Populus
    Genome Res. (6 February 2008), gr.7076308.
    by Tongming Yin, Stephen P Difazio, Lee E Gunter, Xinye Zhang, Michell M Sewell, Scott A Woolbright, Gery J Allan, Collin T Kelleher, Carl J Douglas, Mingxiu Wang, Gerald A Tuskan
    posted to genome_evolution plant populus sex_chromosome tree by stajich on 2008-02-29 21:46:26 as ** along with 3 people and 1 group cabbagesofdoom natstreet yoonk Berkeley Mycology
  • Genome Analysis of the Unicellular Green Alga Chlamydomonas reinhardtii Indicates an Ancient Evolutionary Origin for Key Pattern Recognition and Cell-Signaling Protein Families
    Genetics, Vol. 179, No. 1. (1 May 2008), pp. 193-197.
    by Glen L Wheeler, Diego Miranda-Saavedra, Geoffrey J Barton
    posted to signaling genome_evolution genome gene_family evolution chlamydomonas by stajich on 2008-05-26 16:51:35 as ** along with 1 person and 1 group cmzmasek Berkeley Mycology
  • Physical and Genetic Structure of the Maize Genome Reflects Its Complex Evolutionary History.
    PLoS genetics, Vol. 3, No. 7. (20 July 2007)
    by Fusheng Wei, Ed Coe, William Nelson, Arvind K K Bharti, Fred Engler, Ed Butler, Hyeran Kim, Jose Luis L Goicoechea, Mingsheng Chen, Seunghee Lee, Galina Fuks, Hector Sanchez-Villeda, Steven Schroeder, Zhiwei Fang, Michael McMullen, Georgia Davis, John E E Bowers, Andrew H H Paterson, Mary Schaeffer, Jack Gardiner, Karen Cone, Joachim Messing, Carol Soderlund, Rod A A Wing
    posted to synteny maize genome_evolution genome by stajich on 2008-06-09 05:37:06 as ** along with 1 person and 1 group kengg Berkeley Mycology
  • The Effect of Chromosome Geometry on Genetic Diversity
    Genetics, Vol. 179, No. 1. (1 May 2008), pp. 511-516.
    by Pradeep R Marri, Leigh K Harris, Kathryn Houmiel, Steven C Slater, Howard Ochman
    posted to genome_evolution bacteria by stajich on 2008-05-21 04:35:59 as ** along with 1 group Berkeley Mycology
  • Recent Evolution of the Human Pathogen Cryptococcus neoformans by Intervarietal Transfer of a 14-Gene Fragment
    Molecular Biology and Evolution, Vol. 23, No. 10. (15 October 2006), pp. 1879-1890.
    by Kavanaugh, A Laura, Fraser, A James, Dietrich, S Fred
    posted to genome_evolution cryptococcus by stajich on 2007-01-18 23:08:34 as **
  • The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics
    PLoS Biology, Vol. 1, No. 2. (1 November 2003), e45.
    by Lincoln D Stein, Zhirong Bao, Darin Blasiar, Thomas Blumenthal, Michael R Brent, Nansheng Chen, Asif Chinwalla, Laura Clarke, Chris Clee, Avril Coghlan, Alan Coulson, Peter D'eustachio, David H Fitch, Lucinda A Fulton, Robert E Fulton, Sam Griffiths-Jones, Todd W Harris, Ladeana W Hillier, Ravi Kamath, Patricia E Kuwabara, Elaine R Mardis, Marco A Marra, Tracie L Miner, Patrick Minx, James C Mullikin, Robert W Plumb, Jane Rogers, Jacqueline E Schein, Marc Sohrmann, John Spieth, Jason E Stajich, Chaochun Wei, David Willey, Richard K Wilson, Richard Durbin, Robert H Waterston
    posted to caenorhabditis comparative_genomics genome genome_evolution by stajich on 2006-12-08 21:09:37 as read along with 2 people and 1 group indigoviolet sujaikumar EisenLab
  • Are There Rearrangement Hotspots in the Human Genome?
    PLoS Comput Biol, Vol. 3, No. 11. (9 November 2007)
    by Max A A Alekseyev, Pavel A A Pevzner
    posted to genome_evolution synteny by stajich on 2007-12-03 05:28:50 as ** along with 1 person ealloza
  • Host genome surveillance for retrotransposons by transposon-derived proteins
    Nature (19 December 2007)
    by Hugh P Cam, Ken-Ichi Noma, Hirotaka Ebina, Henry L Levin, Shiv IS Grewal
    posted to centromere genome_evolution pombe transposable_elements transposon by stajich on 2008-01-25 07:26:33 as ** along with 6 people and 1 group karfunkel operon sebastien_vigneau timflutre biomcgary rschulz Berkeley Mycology
  • t2prhd: a tool to study the patterns of repeat evolution
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Botond Sipos, Kalman Somogyi, Istvan Ando, Zsolt Penzes
    posted to genome_evolution repeats by stajich on 2008-01-23 08:20:20 as ** along with 1 person and 1 group RamuAnandakrishnan Berkeley Mycology
  • The Complete Genome Sequence and Comparative Genome Analysis of the High Pathogenicity Yersinia enterocolitica Strain 8081.
    PLoS Genet, Vol. 2, No. 12. (15 December 2006)
    by Nicholas R R Thomson, Sarah Howard, Brendan W W Wren, Matthew T G T Holden, Lisa Crossman, Gregory L L Challis, Carol Churcher, Karen Mungall, Karen Brooks, Tracey Chillingworth, Theresa Feltwell, Zahra Abdellah, Heidi Hauser, Kay Jagels, Mark Maddison, Sharon Moule, Mandy Sanders, Sally Whitehead, Michael A A Quail, Gordon Dougan, Julian Parkhill, Michael B B Prentice
    posted to pathogen microbial genome_evolution genome by stajich on 2007-01-18 01:00:26 as ** along with 2 people AaronDarling martainn
  • DAGchainer: a tool for mining segmental genome duplications and synteny.
    Bioinformatics, Vol. 20, No. 18. (12 December 2004), pp. 3643-3646.
    by BJ Haas, AL Delcher, JR Wortman, SL Salzberg
    posted to duplication genome_evolution synteny by stajich on 2007-12-02 23:43:45 as ** along with 3 people and 2 groups jwortman indigoviolet AaronDarling EisenLab Berkeley Mycology
  • Coevolution of genomic intron number and splice sites
    Trends in Genetics, Vol. In Press, Corrected Proof
    by Manuel Irimia, David Penny, Scott W Roy
    posted to evolution genome_evolution intron splicing by stajich on 2007-05-22 06:27:40 as read along with 1 person and 2 groups dchughes G4ID Genetics-of-Gambling
  • The determinants of gene order conservation in yeasts
    Genome Biology, Vol. 8 (05 November 2007), R233.
    by Juan F Poyatos, Laurence D Hurst
    posted to genome_evolution synteny yeast by stajich on 2007-12-02 23:35:07 as ** along with 3 people and 1 group cjeans maximilianh hpaces Berkeley Mycology
  • Lateral gene transfer and the nature of bacterial innovation.
    Nature, Vol. 405, No. 6784. (18 May 2000), pp. 299-304.
    by H Ochman, JG Lawrence, EA Groisman
    posted to genome_evolution hgt by ana to the group Bioinformatics on 2005-06-13 19:56:18 as *** along with 5 people and 1 group gregdingle jmeppley Ayest treangen manzanita structural_bioinformatics
  • Horizontal gene transfer in prokaryotes: quantification and classification.
    Annu Rev Microbiol, Vol. 55 (2001), pp. 709-742.
    by EV Koonin, KS Makarova, L Aravind
    posted to comparative_genomics genome_evolution hgt molecular_mimicry virulence_factor by ana to the group Bioinformatics on 2005-06-13 19:40:39 as read along with 4 people and 3 groups jmeppley madhadron caporaso vwchan structural_bioinformatics biomedical-nlp beta
  • The yeast coexpression network has a small-world, scale-free architecture and can be explained by a simple model
    EMBO Reports, Vol. 5, No. 3. (March 2004), pp. 280-284.
    by Vera van Noort, Berend Snel, Martijn Huynen
    posted to genome_evolution power-law protein_expression selection stochastic_process by ana to the group Bioinformatics on 2005-06-27 18:49:43 as * along with 2 people and 1 group mmt gurkanbebek structural_bioinformatics
  • A neutral model of transcriptome evolution
    PLoS Biology, Vol. 2, No. 5. (May 2004), pp. E132-E132.
    by Philipp Khaitovich, Gunter Weiss, Michael Lachmann, Ines Hellmann, Wolfgang Enard, Bjoern Muetzel, Ute Wirkner, Wilhelm Ansorge, Svante Paabo
    posted to genome_evolution power-law protein_expression selection stochastic_process by ana to the group Bioinformatics on 2005-06-27 18:46:08 as ** along with 1 group structural_bioinformatics
  • The Relationship Between Domain Duplication and Recombination
    Journal of Molecular Biology, Vol. 346, No. 1. (11 February 2005), pp. 355-365.
    by Christine Vogel, Sarah A Teichmann, Jose Pereira-Leal
    posted to gene_duplication genome_evolution power-law protein_evolution protein_interaction protein_universe selection stochastic_process by ana to the group Bioinformatics on 2005-06-27 18:10:37 as * along with 5 people and 3 groups marcius tny cjeans martainn mdimon structural_bioinformatics BioinfoCIPF SGU-CIPF
  • A phylogenomic approach to microbial evolution.
    Nucleic Acids Res, Vol. 29, No. 2. (15 January 2001), pp. 545-552.
    by T Sicheritz-Pontén, SG Andersson
    posted to comparative_genomics genome_evolution hgt orthology phylogeny protein_sequence sequence_comparison by ana to the group Bioinformatics on 2005-06-16 19:33:02 as * along with 2 people and 1 group LeightonP greger_halltorp structural_bioinformatics
  • The mosaic nature of the eukaryotic nucleus.
    Mol Biol Evol, Vol. 15, No. 7. (July 1998), pp. 779-788.
    by S Ribeiro, GB Golding
    posted to comparative_genomics genome_evolution hgt phylogeny protein_sequence sequence_comparison by ana to the group Bioinformatics on 2005-06-15 19:53:00 as ***** along with 1 group structural_bioinformatics
  • PhyloGenie: automated phylome generation and analysis.
    Nucleic Acids Res, Vol. 32, No. 17. (2004), pp. 5231-5238.
    by T Frickey, AN Lupas
    posted to comparative_genomics genome_evolution hgt orthology phylogeny protein_sequence sequence_comparison by ana to the group Bioinformatics on 2005-06-15 19:38:44 as *** along with 2 people and 1 group Patola Garamonfok structural_bioinformatics
  • Microbial genes in the human genome: lateral transfer or gene loss?
    Science, Vol. 292, No. 5523. (8 June 2001), pp. 1903-1906.
    by SL Salzberg, O White, J Peterson, JA Eisen
    posted to genome_evolution hgt by ana to the group Bioinformatics on 2005-06-15 06:12:29 as ***** along with 1 person and 3 groups mattjb structural_bioinformatics ComplexAdaptiveSystems DSTO-CAS
  • Origins of introns based on the definition of exon modules and their conserved interfaces.
    Bioinformatics, Vol. 21, No. 1. (1 January 2005), pp. 2-9.
    by AD de Roos
    posted to alternative_splicing genome_evolution genome_structure by greg to the group spliceml on 2005-01-05 04:25:54
  • Selection on Major Components of Angiosperm Genomes
    Science, Vol. 320, No. 5875. (25 April 2008), pp. 484-486.
    by Brandon S Gaut, Jeffrey Ross-Ibarra
    posted to genomics genome_evolution by echinotrix on 2008-06-09 11:32:28 as ** along with 4 people and 1 group aprasad ArtemPankin timflutre biomcgary Khavkin's lab
  • The Ups and Downs of Genome Size Evolution in Polyploid Species of Nicotiana (Solanaceae)
    Ann Bot, Vol. 101, No. 6. (1 April 2008), pp. 805-814.
    by IJ Leitch, L Hanson, KY Lim, A Kovarik, MW Chase, JJ Clarkson, AR Leitch
    posted to genome_evolution by echinotrix on 2008-06-30 11:42:24 as **
  • Genome Size Scaling through Phenotype Space.
    Ann Bot (Lond) (24 January 2008)
    by Charles A A Knight, Jeremy M M Beaulieu
    posted to phenotypic_plasticity genome_evolution by echinotrix on 2008-06-30 12:21:30 as ** along with 1 person aprasad
  • Genome evolution in polyploids.
    Plant Mol Biol, Vol. 42, No. 1. (January 2000), pp. 225-249.
    by JF Wendel
    posted to polypoidy genome_evolution by dandaman on 2008-05-15 14:34:25 as ** along with 2 people echinotrix timflutre
  • Reciprocal gene loss between Tetraodon and zebrafish after whole genome duplication in their ancestor
    Trends in Genetics, Vol. 23, No. 3. (March 2007), pp. 108-112.
    by Marie Semon, Kenneth H Wolfe
    posted to gene_evolution genome_duplication genome_evolution wgd by dandaman on 2008-02-15 10:39:28 as *** along with 1 person and 2 groups dchughes G4ID Genetics-of-Gambling
  • Following tetraploidy in an Arabidopsis ancestor, genes were removed preferentially from one homeolog leaving clusters enriched in dose-sensitive genes
    Genome Res., Vol. 16, No. 7. (1 July 2006), pp. 934-946.
    by Brian C Thomas, Brent Pedersen, Michael Freeling
    posted to gene_evolution genome_duplication genome_evolution homeologs wgd by dandaman on 2008-02-15 10:36:43 as ***
  • Many gene and domain families have convergent fates following independent whole-genome duplication events in Arabidopsis, Oryza, Saccharomyces and Tetraodon
    Trends in Genetics, Vol. 22, No. 11. (November 2006), pp. 597-602.
    by Andrew H Paterson, Brad A Chapman, Jessica C Kissinger, John E Bowers, Frank A Feltus, James C Estill
    posted to gene_evolution genome_duplication genome_evolution wgd by dandaman on 2008-02-18 13:10:15 as **
  • How many genes are there in plants (... and why are they there)?
    Current Opinion in Plant Biology, Vol. 10, No. 2. (April 2007), pp. 199-203.
    by Lieven Sterck, Stephane Rombauts, Klaas Vandepoele, Pierre Rouze, Yves Van de Peer
    posted to genes genome_evolution genome_size plant_genomes by dandaman on 2008-01-29 17:06:45 as **
  • Comparative genomics.
    PLoS Biol, Vol. 1, No. 2. (November 2003)
    by RC Hardison
    posted to comparative_genomics genome_evolution review by aprasad on 2006-04-10 17:34:40 as ** along with 4 people and 1 group Neeperando axelon beatrizfernandez nklee Microbial-Ecology
  • On the coevolution of genes and genetic code.
    Gene, Vol. 362 (5 December 2005), pp. 133-140.
    by H Goodarzi, H Shateri Najafabadi, N Torabi
    posted to codon genome_evolution usage yeast by aprasad on 2006-04-10 17:27:08 as **
  • Genome trees and the nature of genome evolution.
    Annu Rev Microbiol, Vol. 59 (2005), pp. 191-209.
    by B Snel, BE Dutilh
    posted to evolution genome_evolution horizontal_gene_transfer phylogenomics supertree by aprasad on 2005-09-14 16:11:37 as ** along with 2 people knaseanka dayjm
  • Intron length and accelerated 3' gene evolution
    Genomics, Vol. 88, No. 6. (December 2006), pp. 682-689.
    by Clara S Tang, Yong Z Zhao, David K Smith, Richard J Epstein
    posted to mutation_rate mutation genome_evolution by aprasad on 2007-01-17 21:33:23 as **
  • Scan of Human Genome Reveals No New Loci Under Ancient Balancing Selection
    Genetics, Vol. 173, No. 4. (1 August 2006), pp. 2165-2177.
    by KL Bubb, D Bovee, D Buckley, E Haugen, M Kibukawa, M Paddock, A Palmieri, S Subramanian, Y Zhou, R Kaul, P Green, MV Olson
    posted to genome_evolution selection by aprasad on 2006-09-26 14:24:32 as ** along with 1 person proulx
  • Is the population size of a species relevant to its evolution?
    Evolution Int J Org Evolution, Vol. 55, No. 11. (11 November 2001), pp. 2161-2169.
    by JH Gillespie
    posted to genome_evolution selection by aprasad on 2006-09-26 14:21:50 as ** along with 2 people bpcusack jmeppley
  • Opposite Evolutionary Effects between Different Alternative Splicing Patterns
    Mol Biol Evol, Vol. 24, No. 7. (1 July 2007), pp. 1443-1446.
    by Feng-Chi Chen, Shu-Miaw Chaw, Yun-Huei Tzeng, Sheng-Shun Wang, Trees-Juen Chuang
    posted to coding evolution genome_evolution splicing whole_genome by aprasad on 2007-07-24 17:22:39 as **
  • Genomic Convergence toward Diploidy in Saccharomyces cerevisiae.
    PLoS Genet, Vol. 2, No. 9. (22 September 2006)
    by Aleeza C C Gerstein, Hye-Jung E J Chun, Alex Grant, Sarah P P Otto
    posted to genome_evolution genome_size yeast by aprasad on 2006-10-04 19:13:59 as **
  • Complete nucleotide sequence of the chlorarachniophyte nucleomorph: nature's smallest nucleus.
    Proc Natl Acad Sci U S A, Vol. 103, No. 25. (20 June 2006), pp. 9566-9571.
    by PR Gilson, V Su, CH Slamovits, ME Reith, PJ Keeling, GI McFadden
    posted to exon genome_evolution by aprasad on 2006-09-26 14:02:13 as **
  • Gene complexity and gene duplicability.
    Curr Biol, Vol. 15, No. 11. (7 June 2005), pp. 1016-1021.
    by X He, J Zhang
    posted to functional genome_evolution genomics by aprasad on 2005-10-05 18:30:56 as **
  • Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes.
    Genome Res, Vol. 15, No. 8. (August 2005), pp. 1034-1050.
    by A Siepel, G Bejerano, JS Pedersen, AS Hinrichs, M Hou, K Rosenbloom, H Clawson, J Spieth, LW Hillier, S Richards, GM Weinstock, RK Wilson, RA Gibbs, WJ Kent, W Miller, D Haussler
    posted to cns comparative_genomics conservation evolution genome_evolution mutation_rate phastcons by aprasad on 2005-12-02 22:15:13 as ** along with 14 people and 2 groups pradiptaray bpb balajis eckart_bindewald indigoviolet brant adepace djkt olympos sujaikumar Stew cisevol dmc elfar EisenLab cis-regulatory-evolution
  • A fine-scale map of recombination rates and hotspots across the human genome.
    Science, Vol. 310, No. 5746. (14 October 2005), pp. 321-324.
    by S Myers, L Bottolo, C Freeman, G McVean, P Donnelly
    posted to genome_evolution recombination by aprasad on 2005-12-02 22:08:09 as *** along with 5 people sriram_s larios djkt hms oelemento
  • Large-scale structure of genomic methylation patterns.
    Genome Res (19 December 2005)
    by Robert A A Rollins, Fatemeh Haghighi, John R R Edwards, Rajdeep Das, Michael Q Q Zhang, Jingyue Ju, Timothy H H Bestor
    posted to genome_evolution genome_size methylation by aprasad on 2006-01-03 18:14:04 as *** along with 3 people and 1 group kaspermunch tabu epigenetics Bioinformatics
  • The mode and tempo of genome size evolution in eukaryotes.
    Genome Res (9 April 2007)
    by Matthew J J Oliver, Dmitri Petrov, David Ackerly, Paul Falkowski, Oscar M M Schofield
    posted to genome_evolution genome_size by aprasad on 2007-04-16 15:47:24 as **** along with 4 people and 3 groups diamantis dpollard dchughes lilou EisenLab G4ID Genetics-of-Gambling
  • What tangled web: barriers to rampant horizontal gene transfer.
    Bioessays, Vol. 27, No. 7. (July 2005), pp. 741-747.
    by CG Kurland
    posted to evolution genome_evolution genome_size horizontal_gene_transfer indel review by aprasad on 2005-08-18 20:01:41 as read along with 1 person rklancer
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