메뉴 건너뛰기




Volumn 9, Issue 2, 2008, Pages

Functional protein divergence in the evolution of Homo sapiens

Author keywords

[No Author keywords available]

Indexed keywords

GLUCAGON; INSULIN; PROTEIN; TRANSCRIPTION FACTOR; PROTEOME;

EID: 43549090410     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/gb-2008-9-2-r33     Document Type: Article
Times cited : (50)

References (56)
  • 1
    • 0015162882 scopus 로고
    • The structures of cytochrome c and the rates of molecular evolution
    • 10.1007/BF01659392 4377446
    • Dickerson RE The structures of cytochrome c and the rates of molecular evolution. J Mol Evol 1971, 1:26-45. 10.1007/BF01659392 4377446
    • (1971) J Mol Evol , vol.1 , pp. 26-45
    • Dickerson, R.E.1
  • 2
    • 0000228203 scopus 로고
    • A model of evolutionary change in proteins
    • Silver Springs, MD: National Biomedical Research Foundation Dayhoff M
    • Dayhoff M Schwartz R Orcutt B A model of evolutionary change in proteins Atlas of Protein Sequence and Structure Silver Springs, MD: National Biomedical Research Foundation Dayhoff M 1978, 5:345-352.
    • (1978) Atlas of Protein Sequence and Structure , vol.5 , pp. 345-352
    • Dayhoff, M.1    Schwartz, R.2    Orcutt, B.3
  • 4
    • 14544279484 scopus 로고    scopus 로고
    • Inverse relationship between evolutionary rate and age of mammalian genes
    • 10.1093/molbev/msi045 15537804
    • Albà MM Castresana J Inverse relationship between evolutionary rate and age of mammalian genes. Mol Biol Evol 2005, 22:598-606. 10.1093/ molbev/msi045 15537804
    • (2005) Mol Biol Evol , vol.22 , pp. 598-606
    • Albà, M.M.1    Castresana, J.2
  • 5
    • 33646864119 scopus 로고    scopus 로고
    • Family specific rates of protein evolution
    • 10.1093/bioinformatics/btl073 16510497
    • Luz H Vingron M Family specific rates of protein evolution. Bioinformatics 2006, 22:1166-1171. 10.1093/bioinformatics/btl073 16510497
    • (2006) Bioinformatics , vol.22 , pp. 1166-1171
    • Luz, H.1    Vingron, M.2
  • 6
    • 33646182934 scopus 로고    scopus 로고
    • An integrated view of protein evolution
    • 10.1038/nrg1838 16619049
    • Pál C Papp B Lercher MJ An integrated view of protein evolution. Nat Rev Genet 2006, 7:337-348. 10.1038/nrg1838 16619049
    • (2006) Nat Rev Genet , vol.7 , pp. 337-348
    • Pál, C.1    Papp, B.2    Lercher, M.J.3
  • 8
    • 2442637669 scopus 로고    scopus 로고
    • The functional genomic distribution of protein divergence in two animal phyla: Coevolution, genomic conflict, and constraint
    • 479106 15123580 10.1101/gr.2195604
    • Castillo-Davis CI Kondrashov FA Hartl DL Kulathinal RJ The functional genomic distribution of protein divergence in two animal phyla: coevolution, genomic conflict, and constraint. Genome Res 2004, 14:802-811. 479106 15123580 10.1101/gr.2195604
    • (2004) Genome Res , vol.14 , pp. 802-811
    • Castillo-Davis, C.I.1    Kondrashov, F.A.2    Hartl, D.L.3    Kulathinal, R.J.4
  • 10
    • 24344500211 scopus 로고    scopus 로고
    • Initial sequence of the chimpanzee genome and comparison with the human genome
    • The Chimpanzee Sequencing and Analysis Consortium 10.1038/nature04072 16136131
    • The Chimpanzee Sequencing and Analysis Consortium Initial sequence of the chimpanzee genome and comparison with the human genome. Nature 2005, 437:69-87. 10.1038/nature04072 16136131
    • (2005) Nature , vol.437 , pp. 69-87
  • 11
    • 79959524146 scopus 로고    scopus 로고
    • A haplotype map of the human genome
    • The International HapMap Consortium 1880871 16255080 10.1038/nature04226
    • The International HapMap Consortium A haplotype map of the human genome. Nature 2005, 437:1299-1320. 1880871 16255080 10.1038/nature04226
    • (2005) Nature , vol.437 , pp. 1299-1320
  • 12
    • 33644981509 scopus 로고    scopus 로고
    • A map of recent positive selection in the human genome
    • 1382018 16494531 10.1371/journal.pbio.0040072
    • Voight BF Kudaravalli S Wen X Pritchard JK A map of recent positive selection in the human genome. PLoS Biol 2006, 4:e72. 1382018 16494531 10.1371/journal.pbio.0040072
    • (2006) PLoS Biol , vol.4
    • Voight, B.F.1    Kudaravalli, S.2    Wen, X.3    Pritchard, J.K.4
  • 13
    • 33646244720 scopus 로고    scopus 로고
    • Positive selection, relaxation, and acceleration in the evolution of the human and chimp genome
    • 1447656 16683019 10.1371/journal.pcbi.0020038
    • Arbiza L Dopazo J Dopazo H Positive selection, relaxation, and acceleration in the evolution of the human and chimp genome. PLoS Comput Biol 2006, 2:e38. 1447656 16683019 10.1371/journal.pcbi.0020038
    • (2006) PLoS Comput Biol , vol.2
    • Arbiza, L.1    Dopazo, J.2    Dopazo, H.3
  • 15
    • 33646113855 scopus 로고    scopus 로고
    • Evolutionary dynamics of prokaryotic transcriptional regulatory networks
    • 10.1016/j.jmb.2006.02.019 16530225
    • Madan Babu M Teichmann SA Aravind L Evolutionary dynamics of prokaryotic transcriptional regulatory networks. J Mol Biol 2006, 358:614-633. 10.1016/j.jmb.2006.02.019 16530225
    • (2006) J Mol Biol , vol.358 , pp. 614-633
    • Madan Babu, M.1    Teichmann, S.A.2    Aravind, L.3
  • 16
    • 0037440195 scopus 로고    scopus 로고
    • The phylogenetic diversity of eukaryotic transcription
    • 140520 12527774 10.1093/nar/gkg156
    • Coulson RM Ouzounis CA The phylogenetic diversity of eukaryotic transcription. Nucleic Acids Res 2003, 31:653-660. 140520 12527774 10.1093/nar/gkg156
    • (2003) Nucleic Acids Res , vol.31 , pp. 653-660
    • Coulson, R.M.1    Ouzounis, C.A.2
  • 17
    • 0037350415 scopus 로고    scopus 로고
    • The phylogenetic extent of metabolic enzymes and pathways
    • 430287 12618373 10.1101/gr.246903
    • Peregrin-Alvarez JM Tsoka S Ouzounis CA The phylogenetic extent of metabolic enzymes and pathways. Genome Res 2003, 13:422-427. 430287 12618373 10.1101/gr.246903
    • (2003) Genome Res , vol.13 , pp. 422-427
    • Peregrin-Alvarez, J.M.1    Tsoka, S.2    Ouzounis, C.A.3
  • 18
    • 0041828241 scopus 로고    scopus 로고
    • Scaling laws in the functional content of genomes
    • 10.1016/S0168-9525(03)00203-8 12957540
    • van Nimwegen E Scaling laws in the functional content of genomes. Trends Genet 2003, 19:479-484. 10.1016/S0168-9525(03)00203-8 12957540
    • (2003) Trends Genet , vol.19 , pp. 479-484
    • van Nimwegen, E.1
  • 19
    • 1042298811 scopus 로고    scopus 로고
    • Evolution of protein superfamilies and bacterial genome size
    • 10.1016/j.jmb.2003.12.044 15095866
    • Ranea JA Buchan DW Thornton JM Orengo CA Evolution of protein superfamilies and bacterial genome size. J Mol Biol 2004, 336:871-887. 10.1016/j.jmb.2003.12.044 15095866
    • (2004) J Mol Biol , vol.336 , pp. 871-887
    • Ranea, J.A.1    Buchan, D.W.2    Thornton, J.M.3    Orengo, C.A.4
  • 20
    • 33646909100 scopus 로고    scopus 로고
    • Protein family expansions and biological complexity
    • 1464810 16733546 10.1371/journal.pcbi.0020048
    • Vogel C Chothia C Protein family expansions and biological complexity. PLoS Comput Biol 2006, 2:e48. 1464810 16733546 10.1371/ journal.pcbi.0020048
    • (2006) PLoS Comput Biol , vol.2
    • Vogel, C.1    Chothia, C.2
  • 22
    • 0037376913 scopus 로고    scopus 로고
    • Glucagon and regulation of glucose metabolism
    • 12626323
    • Jiang G Zhang BB Glucagon and regulation of glucose metabolism. Am J Physiol Endocrinol Metab 2003, 284:E671-E678. 12626323
    • (2003) Am J Physiol Endocrinol Metab , vol.284
    • Jiang, G.1    Zhang, B.B.2
  • 23
    • 33644855479 scopus 로고    scopus 로고
    • Expression profiling in primates reveals a rapid evolution of human transcription factors
    • 10.1038/nature04559 16525476
    • Gilad Y Oshlack A Smyth GK Speed TP White KP Expression profiling in primates reveals a rapid evolution of human transcription factors. Nature 2006, 440:242-245. 10.1038/nature04559 16525476
    • (2006) Nature , vol.440 , pp. 242-245
    • Gilad, Y.1    Oshlack, A.2    Smyth, G.K.3    Speed, T.P.4    White, K.P.5
  • 24
    • 0035916357 scopus 로고    scopus 로고
    • An evolutionarily conserved function of the Drosophila insulin receptor and insulin-like peptides in growth control
    • 10.1016/S0960-9822(01)00068-9 11250149
    • Brogiolo W Stocker H Ikeya T Rintelen F Fernandez R Hafen E An evolutionarily conserved function of the Drosophila insulin receptor and insulin-like peptides in growth control. Curr Biol 2001, 11:213-221. 10.1016/S0960-9822(01)00068-9 11250149
    • (2001) Curr Biol , vol.11 , pp. 213-221
    • Brogiolo, W.1    Stocker, H.2    Ikeya, T.3    Rintelen, F.4    Fernandez, R.5    Hafen, E.6
  • 26
    • 0031895566 scopus 로고    scopus 로고
    • New insulin-like proteins with atypical disulfide bond pattern characterized in Caenorhabditis elegans by comparative sequence analysis and homology modeling
    • 9548970
    • Duret L Guex N Peitsch MC Bairoch A New insulin-like proteins with atypical disulfide bond pattern characterized in Caenorhabditis elegans by comparative sequence analysis and homology modeling. Genome Res 1998, 8:348-353. 9548970
    • (1998) Genome Res , vol.8 , pp. 348-353
    • Duret, L.1    Guex, N.2    Peitsch, M.C.3    Bairoch, A.4
  • 27
    • 0035916805 scopus 로고    scopus 로고
    • Growth control: Invertebrate insulin surprises!
    • 10.1016/S0960-9822(01)00107-5 11301264
    • Leevers SJ Growth control: Invertebrate insulin surprises! Curr Biol 2001, 11:R209-R212. 10.1016/S0960-9822(01)00107-5 11301264
    • (2001) Curr Biol , vol.11
    • Leevers, S.J.1
  • 28
    • 46749109409 scopus 로고    scopus 로고
    • Evolvability Web Server
    • Evolvability Web Server http://bg.upf.edu/evolvability
  • 30
    • 11844252070 scopus 로고    scopus 로고
    • The descent of the antibody-based immune system by gradual evolution
    • 544055 15618397 10.1073/pnas.0408480102
    • Klein J Nikolaidis N The descent of the antibody-based immune system by gradual evolution. Proc Natl Acad Sci USA 2005, 102:169-174. 544055 15618397 10.1073/pnas.0408480102
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 169-174
    • Klein, J.1    Nikolaidis, N.2
  • 31
    • 29344475707 scopus 로고    scopus 로고
    • Diversity and function of adaptive immune receptors in a jawless vertebrate
    • 10.1126/science.1119420 16373579
    • Alder MN Rogozin IB Iyer LM Glazko GV Cooper MD Pancer Z Diversity and function of adaptive immune receptors in a jawless vertebrate. Science 2005, 310:1970-1973. 10.1126/science.1119420 16373579
    • (2005) Science , vol.310 , pp. 1970-1973
    • Alder, M.N.1    Rogozin, I.B.2    Iyer, L.M.3    Glazko, G.V.4    Cooper, M.D.5    Pancer, Z.6
  • 32
    • 0030297962 scopus 로고    scopus 로고
    • Molecular cloning of a human neuroD from a neuroblastoma cell line specifically expressed in the fetal brain and adult cerebellum
    • 10.1016/S0169-328X(96)00154-4 8915591
    • Yokoyama M Nishi Y Miyamoto Y Nakamura M Akiyama K Matsubara K Okubo K Molecular cloning of a human neuroD from a neuroblastoma cell line specifically expressed in the fetal brain and adult cerebellum. Brain Res Mol Brain Res 1996, 42:135-139. 10.1016/S0169-328X(96)00154-4 8915591
    • (1996) Brain Res Mol Brain Res , vol.42 , pp. 135-139
    • Yokoyama, M.1    Nishi, Y.2    Miyamoto, Y.3    Nakamura, M.4    Akiyama, K.5    Matsubara, K.6    Okubo, K.7
  • 33
    • 32444446240 scopus 로고    scopus 로고
    • Gene regulatory networks and the evolution of animal body plans
    • 10.1126/science.1113832 16469913
    • Davidson EH Erwin DH Gene regulatory networks and the evolution of animal body plans. Science 2006, 311:796-800. 10.1126/science.1113832 16469913
    • (2006) Science , vol.311 , pp. 796-800
    • Davidson, E.H.1    Erwin, D.H.2
  • 34
    • 22244452677 scopus 로고    scopus 로고
    • Distribution and intensity of constraint in mammalian genomic sequence
    • 1172034 15965027 10.1101/gr.3577405
    • Cooper GM Stone EA Asimenos G Green ED Batzoglou S Sidow A Distribution and intensity of constraint in mammalian genomic sequence. Genome Res 2005, 15:901-913. 1172034 15965027 10.1101/gr.3577405
    • (2005) Genome Res , vol.15 , pp. 901-913
    • Cooper, G.M.1    Stone, E.A.2    Asimenos, G.3    Green, E.D.4    Batzoglou, S.5    Sidow, A.6
  • 35
    • 33344460411 scopus 로고    scopus 로고
    • Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins
    • 1175987 15998445 10.1186/gb-2005-6-7-r56
    • Freilich S Massingham T Bhattacharyya S Ponsting H Lyons PA Freeman TC Thornton JM Relationship between the tissue-specificity of mouse gene expression and the evolutionary origin and function of the proteins. Genome Biol 2005, 6:R56. 1175987 15998445 10.1186/gb-2005-6-7-r56
    • (2005) Genome Biol , vol.6
    • Freilich, S.1    Massingham, T.2    Bhattacharyya, S.3    Ponsting, H.4    Lyons, P.A.5    Freeman, T.C.6    Thornton, J.M.7
  • 37
    • 7644238181 scopus 로고    scopus 로고
    • Biological robustness
    • 10.1038/nrg1471 15520792
    • Kitano H Biological robustness. Nat Rev Genet 2004, 5:826-837. 10.1038/ nrg1471 15520792
    • (2004) Nat Rev Genet , vol.5 , pp. 826-837
    • Kitano, H.1
  • 38
    • 0032555135 scopus 로고    scopus 로고
    • Evolvability
    • 33871 9671692 10.1073/pnas.95.15.8420
    • Kirschner M Gerhart J Evolvability. Proc Natl Acad Sci USA 1998, 95:8420-8427. 33871 9671692 10.1073/pnas.95.15.8420
    • (1998) Proc Natl Acad Sci USA , vol.95 , pp. 8420-8427
    • Kirschner, M.1    Gerhart, J.2
  • 39
    • 28944439309 scopus 로고    scopus 로고
    • Animal microRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution
    • 10.1016/j.cell.2005.11.023 16337999
    • Stark A Brennecke J Bushati N Russell RB Cohen SM Animal microRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution. Cell 2005, 123:1133-1146. 10.1016/j.cell.2005.11.023 16337999
    • (2005) Cell , vol.123 , pp. 1133-1146
    • Stark, A.1    Brennecke, J.2    Bushati, N.3    Russell, R.B.4    Cohen, S.M.5
  • 40
    • 29144505309 scopus 로고    scopus 로고
    • The widespread impact of mammalian microRNAs on mRNA repression and evolution
    • 10.1126/science.1121158 16308420
    • Farh KK Grimson A Jan C Lewis BP Johnston WK Lim LP Burge CB Bartel DP The widespread impact of mammalian microRNAs on mRNA repression and evolution. Science 2005, 310:1817-1821. 10.1126/science.1121158 16308420
    • (2005) Science , vol.310 , pp. 1817-1821
    • Farh, K.K.1    Grimson, A.2    Jan, C.3    Lewis, B.P.4    Johnston, W.K.5    Lim, L.P.6    Burge, C.B.7    Bartel, D.P.8
  • 41
    • 28844482836 scopus 로고    scopus 로고
    • Genes involved in complex adaptive processes tend to have highly conserved upstream regions in mammalian genomes
    • 1310621 16309559 10.1186/1471-2164-6-168
    • Lee S Kohane I Kasif S Genes involved in complex adaptive processes tend to have highly conserved upstream regions in mammalian genomes. BMC Genomics 2005, 6:168. 1310621 16309559 10.1186/1471-2164-6-168
    • (2005) BMC Genomics , vol.6 , pp. 168
    • Lee, S.1    Kohane, I.2    Kasif, S.3
  • 43
    • 22744439568 scopus 로고    scopus 로고
    • Evolution at two levels: On genes and form
    • 1174822 16000021 10.1371/journal.pbio.0030245
    • Carroll SB Evolution at two levels: On genes and form. PLoS Biol 2005, 3:e245. 1174822 16000021 10.1371/journal.pbio.0030245
    • (2005) PLoS Biol , vol.3
    • Carroll, S.B.1
  • 44
    • 33847057226 scopus 로고    scopus 로고
    • The evolutionary significance of cis-regulatory mutations
    • 10.1038/nrg2063 17304246
    • Wray GA The evolutionary significance of cis-regulatory mutations. Nat Rev Genet 2007, 8:206-216. 10.1038/nrg2063 17304246
    • (2007) Nat Rev Genet , vol.8 , pp. 206-216
    • Wray, G.A.1
  • 45
    • 22144447840 scopus 로고    scopus 로고
    • Parallel patterns of evolution in the genomes and transcriptomes of humans and chimpanzees
    • 10.1126/science.1108296 16141373
    • Khaitovich P Hellmann I Enard W Nowick K Leinweber M Franz H Weiss G Lachmann M Pääbo S Parallel patterns of evolution in the genomes and transcriptomes of humans and chimpanzees. Science 2005, 309:1850-1854. 10.1126/science.1108296 16141373
    • (2005) Science , vol.309 , pp. 1850-1854
    • Khaitovich, P.1    Hellmann, I.2    Enard, W.3    Nowick, K.4    Leinweber, M.5    Franz, H.6    Weiss, G.7    Lachmann, M.8    Pääbo, S.9
  • 50
    • 33644875286 scopus 로고    scopus 로고
    • The Gene Ontology (GO) project in 2006
    • Gene Ontology Consortium (Database issue): 1347384 16381878 10.1093/nar/ gkj021
    • Gene Ontology Consortium The Gene Ontology (GO) project in 2006. Nucleic Acids Res 2006, 34(Database issue):D322-D326. 1347384 16381878 10.1093/ nar/gkj021
    • (2006) Nucleic Acids Res , vol.34
  • 51
    • 33846057724 scopus 로고    scopus 로고
    • NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins
    • (Database issue): 10.1093/nar/gkl842 17130148 1716718
    • Pruitt KD Tatusova T Maglott DR NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins. Nucleic Acids Res 2007, 35(Database issue):D61-D65. 10.1093/ nar/gkl842 17130148 1716718
    • (2007) Nucleic Acids Res , vol.35
    • Pruitt, K.D.1    Tatusova, T.2    Maglott, D.R.3
  • 52
    • 33644878620 scopus 로고    scopus 로고
    • DBD: A transcription factor prediction database
    • (Database issue): 1347493 16381970 10.1093/nar/gkj131
    • Kummerfeld SK Teichmann SA DBD: A transcription factor prediction database. Nucleic Acids Res 2006, 34(Database issue):D74-D81. 1347493 16381970 10.1093/nar/gkj131
    • (2006) Nucleic Acids Res , vol.34
    • Kummerfeld, S.K.1    Teichmann, S.A.2
  • 53
    • 46749126363 scopus 로고    scopus 로고
    • WU BLAST2.0
    • WU BLAST2.0 http://blast.wustl.edu/blast-2.0
  • 54
    • 3543106033 scopus 로고    scopus 로고
    • Genome-wide identification of genes likely to be involved in human genetic disease
    • 434425 15181176 10.1093/nar/gkh605
    • Lopez-Bigas N Ouzounis CA Genome-wide identification of genes likely to be involved in human genetic disease. Nucleic Acids Res 2004, 32:3108-3114. 434425 15181176 10.1093/nar/gkh605
    • (2004) Nucleic Acids Res , vol.32 , pp. 3108-3114
    • Lopez-Bigas, N.1    Ouzounis, C.A.2
  • 55
    • 3242891684 scopus 로고    scopus 로고
    • DIALIGN: Multiple DNA and protein sequence alignment at BiBiServ
    • (Web Server issue): 441511 15215344 10.1093/nar/gkh373
    • Morgenstern B DIALIGN: Multiple DNA and protein sequence alignment at BiBiServ. Nucleic Acids Res 2004, 32(Web Server issue):W33-W36. 441511 15215344 10.1093/nar/gkh373
    • (2004) Nucleic Acids Res , vol.32
    • Morgenstern, B.1
  • 56
    • 0036110773 scopus 로고    scopus 로고
    • A structural EM algorithm for phylogenetic inference
    • 10.1089/10665270252935494 12015885
    • Friedman N Ninio M Pe'er I Pupko T A structural EM algorithm for phylogenetic inference. J Comput Biol 2002, 9:331-353. 10.1089/ 10665270252935494 12015885
    • (2002) J Comput Biol , vol.9 , pp. 331-353
    • Friedman, N.1    Ninio, M.2    Pe'er, I.3    Pupko, T.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.