메뉴 건너뛰기




Volumn 6, Issue 4, 1996, Pages 404-416

Sequencing and analysis of bacterial genomes

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIA (MICROORGANISMS); MYCOPLASMA GENITALIUM;

EID: 0030113436     PISSN: 09609822     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0960-9822(02)00508-0     Document Type: Article
Times cited : (88)

References (80)
  • 3
    • 0026754531 scopus 로고
    • Analysis of the Escherichia coli genome: DNA sequence of the region from 84.5 to 86.5 minutes
    • Daniels D, Plunkett G, Burland V, Blattner FR: Analysis of the Escherichia coli genome: DNA sequence of the region from 84.5 to 86.5 minutes. Science 1992, 257:771-778.
    • (1992) Science , vol.257 , pp. 771-778
    • Daniels, D.1    Plunkett, G.2    Burland, V.3    Blattner, F.R.4
  • 4
    • 0039077700 scopus 로고
    • Maps, genes, sequences, and computers. An Escherichia coli case study
    • Rudd KE: Maps, genes, sequences, and computers. An Escherichia coli case study. ASM News 1993, 59:335-341.
    • (1993) ASM News , vol.59 , pp. 335-341
    • Rudd, K.E.1
  • 6
    • 0027224061 scopus 로고
    • Colibri: A functional data base for the Escherichia coli genome
    • Medigue C, Viari A, Henaut A, Danchin A: Colibri: a functional data base for the Escherichia coli genome. Microbiol Rev 1993, 57:623-654.
    • (1993) Microbiol Rev , vol.57 , pp. 623-654
    • Medigue, C.1    Viari, A.2    Henaut, A.3    Danchin, A.4
  • 7
    • 0028024152 scopus 로고
    • ECD - A totally integrated database of Escherichia coli K-12
    • Wahl R, Rice P, Rice CM, Kröger M: ECD - a totally integrated database of Escherichia coli K-12. Nucleic Acids Res 1994, 22:3450-3455.
    • (1994) Nucleic Acids Res , vol.22 , pp. 3450-3455
    • Wahl, R.1    Rice, P.2    Rice, C.M.3    Kröger, M.4
  • 8
    • 0028935455 scopus 로고
    • Subtilist: A relational database for the B. subtilis genome
    • Moszer I, Glaser P, Danchin A: Subtilist: a relational database for the B. subtilis genome. Microbiology 1995, 141:261-268.
    • (1995) Microbiology , vol.141 , pp. 261-268
    • Moszer, I.1    Glaser, P.2    Danchin, A.3
  • 9
    • 0028584242 scopus 로고
    • NRSub: A non-redundant database for the Bacillus subtilis genome
    • Perriere G, Gouy M, Gojobori T: NRSub: a non-redundant database for the Bacillus subtilis genome. Nucleic Acids Res 1994, 22:5525-5529.
    • (1994) Nucleic Acids Res , vol.22 , pp. 5525-5529
    • Perriere, G.1    Gouy, M.2    Gojobori, T.3
  • 12
    • 0345130783 scopus 로고
    • Analysis of a Bacillus subtilis genome fragment using a co-operative computer system prototype
    • Medigue C, Moszer I, Viari A, Danchin A: Analysis of a Bacillus subtilis genome fragment using a co-operative computer system prototype. Gene-Combis 1995, 165:37-51.
    • (1995) Gene-Combis , vol.165 , pp. 37-51
    • Medigue, C.1    Moszer, I.2    Viari, A.3    Danchin, A.4
  • 13
    • 0029073731 scopus 로고
    • Analysis of the Escherichia coli genome VI: DNA sequence of the region from 92.8 through 100 minutes
    • Burland V, Plunkett G, Sofia HJ, Daniels DL, Blattner FR: Analysis of the Escherichia coli genome VI: DNA sequence of the region from 92.8 through 100 minutes. Nucleic Acids Res 1995, 23:2105-2119.
    • (1995) Nucleic Acids Res , vol.23 , pp. 2105-2119
    • Burland, V.1    Plunkett, G.2    Sofia, H.J.3    Daniels, D.L.4    Blattner, F.R.5
  • 14
    • 0029136718 scopus 로고
    • Organization of the European Bacillus subtilis genome sequencing project
    • Kunst F, Vassarotti A, Danchin A: Organization of the European Bacillus subtilis genome sequencing project. Microbiology 1995, 141:249-255.
    • (1995) Microbiology , vol.141 , pp. 249-255
    • Kunst, F.1    Vassarotti, A.2    Danchin, A.3
  • 16
    • 0028863772 scopus 로고
    • Bacterial genomes: A TIGR in the tank
    • Devine KM, Wolfe K: Bacterial genomes: a TIGR in the tank. Trends Biochem Sci 1995, 11:429-431.
    • (1995) Trends Biochem Sci , vol.11 , pp. 429-431
    • Devine, K.M.1    Wolfe, K.2
  • 18
    • 0029886749 scopus 로고    scopus 로고
    • Protein sequence comparison at a genome scale
    • Koonin EV, Tatusov RL, Rudd KE: Protein sequence comparison at a genome scale. Meth Enzymol 1996, 266:295-322.
    • (1996) Meth Enzymol , vol.266 , pp. 295-322
    • Koonin, E.V.1    Tatusov, R.L.2    Rudd, K.E.3
  • 19
    • 0027940025 scopus 로고
    • New genes in old sequence: A strategy for finding genes in the bacterial genome
    • Borodovsky M., Koonin EV, Rudd KE: New genes in old sequence: a strategy for finding genes in the bacterial genome. Trends Biochem Sci 1994, 19:309-313.
    • (1994) Trends Biochem Sci , vol.19 , pp. 309-313
    • Borodovsky, M.1    Koonin, E.V.2    Rudd, K.E.3
  • 20
    • 0027399530 scopus 로고
    • Identification of protein-coding regions by sequence similarity searches
    • Gish W, States DJ: Identification of protein-coding regions by sequence similarity searches. Nat Genet 1993, 3:266-272.
    • (1993) Nat Genet , vol.3 , pp. 266-272
    • Gish, W.1    States, D.J.2
  • 21
    • 0028004414 scopus 로고
    • Intrinsic and extrinsic approaches for detecting genes in a bacterial genome
    • Borodovsky M, Rudd KE, Koonin EV: Intrinsic and extrinsic approaches for detecting genes in a bacterial genome. Nucleic Acids Res 1994, 22:4756-4767.
    • (1994) Nucleic Acids Res , vol.22 , pp. 4756-4767
    • Borodovsky, M.1    Rudd, K.E.2    Koonin, E.V.3
  • 22
    • 0027944605 scopus 로고
    • A hidden Markov model that finds genes in E. coli DNA
    • Krogh A, Mian IS, Haussler D: A hidden Markov model that finds genes in E. coli DNA. Nucleic Acids Res 1994, 22:4768-4778.
    • (1994) Nucleic Acids Res , vol.22 , pp. 4768-4778
    • Krogh, A.1    Mian, I.S.2    Haussler, D.3
  • 23
    • 0028291320 scopus 로고
    • Large scale bacterial gene discovery by similarity search
    • Robison K, Gilbert W, Church GM: Large scale bacterial gene discovery by similarity search. Nat Genet 1994, 7:205-214.
    • (1994) Nat Genet , vol.7 , pp. 205-214
    • Robison, K.1    Gilbert, W.2    Church, G.M.3
  • 24
    • 0027059264 scopus 로고
    • Assessment of protein-coding measures
    • Fickett JW, Tung CS: Assessment of protein-coding measures. Nucleic Acids Res 1992, 20:6441-6450.
    • (1992) Nucleic Acids Res , vol.20 , pp. 6441-6450
    • Fickett, J.W.1    Tung, C.S.2
  • 25
    • 0029258948 scopus 로고
    • Prediction of function in DNA sequence analysis
    • Gelfand MS: Prediction of function in DNA sequence analysis. 1995. J Comput Biol 2:87-115.
    • (1995) J Comput Biol , vol.2 , pp. 87-115
    • Gelfand, M.S.1
  • 28
    • 0029559311 scopus 로고
    • Sequence similarity analysis of Escherichia coli proteins: Functional and evolutionary implications
    • Koonin EV, Tatusov RL, Rudd KE: Sequence similarity analysis of Escherichia coli proteins: functional and evolutionary implications. Proc Natl Acad Sci USA 1995, 92:11921-11925.
    • (1995) Proc Natl Acad Sci USA , vol.92 , pp. 11921-11925
    • Koonin, E.V.1    Tatusov, R.L.2    Rudd, K.E.3
  • 31
    • 0027133165 scopus 로고
    • Functions of the gene products of Escherichia coli
    • Riley M: Functions of the gene products of Escherichia coli. 1993, Microbiol Rev 57:862-952.
    • (1993) Microbiol Rev , vol.57 , pp. 862-952
    • Riley, M.1
  • 32
    • 0017794180 scopus 로고
    • Evolution of the bacterial genome
    • Riley M, Anilionis A: Evolution of the bacterial genome. 1978, Annu Rev Microbiol 32:519-560.
    • (1978) Annu Rev Microbiol , vol.32 , pp. 519-560
    • Riley, M.1    Anilionis, A.2
  • 33
    • 0028929984 scopus 로고
    • Widespread protein sequence similarities: Origins of Escherichia coli genes
    • Labedan B, Riley M: Widespread protein sequence similarities: origins of Escherichia coli genes. J Bacteriol 1995, 177:1585-1588.
    • (1995) J Bacteriol , vol.177 , pp. 1585-1588
    • Labedan, B.1    Riley, M.2
  • 34
    • 0028802662 scopus 로고
    • Gene products of Escherichia coli: Sequence comparisons and common ancestries
    • Labedan B, Riley M: Gene products of Escherichia coli: sequence comparisons and common ancestries. Mol Biol Evol 1995, 12:980-987.
    • (1995) Mol Biol Evol , vol.12 , pp. 980-987
    • Labedan, B.1    Riley, M.2
  • 35
    • 0014800108 scopus 로고
    • Distinguishing homologous from analogous proteins
    • Fitch WM: Distinguishing homologous from analogous proteins. Syst Zool 1970, 19:99-106.
    • (1970) Syst Zool , vol.19 , pp. 99-106
    • Fitch, W.M.1
  • 36
    • 0028791864 scopus 로고
    • Life with 482 genes
    • Goffeau A: Life with 482 genes. Science 1995, 270:445-446.
    • (1995) Science , vol.270 , pp. 445-446
    • Goffeau, A.1
  • 37
    • 0001514262 scopus 로고
    • Statistics of local complexity in amino acid sequences and sequence databases
    • Wootton JC, Federhen S: Statistics of local complexity in amino acid sequences and sequence databases. Comput Chem 1993, 17:149-163.
    • (1993) Comput Chem , vol.17 , pp. 149-163
    • Wootton, J.C.1    Federhen, S.2
  • 38
    • 0028501914 scopus 로고
    • Non-globular domains in protein sequences: Automated segmentation using complexity measures
    • Wootton JC: Non-globular domains in protein sequences: automated segmentation using complexity measures. Comput Chem 1994, 18:269-285.
    • (1994) Comput Chem , vol.18 , pp. 269-285
    • Wootton, J.C.1
  • 39
    • 0026356891 scopus 로고
    • Predicting coiled coils from protein sequences
    • Lupas A, Van Dyke M, Stock J: Predicting coiled coils from protein sequences. Science 1991, 252:1162-1164.
    • (1991) Science , vol.252 , pp. 1162-1164
    • Lupas, A.1    Van Dyke, M.2    Stock, J.3
  • 42
    • 0027121315 scopus 로고
    • Peculiar properties of mycoplasmas: The smallest self-replicating prokaryotes
    • Razin S: Peculiar properties of mycoplasmas: the smallest self-replicating prokaryotes. FEMS Microbiol Lett 1992, 79:423-431
    • (1992) FEMS Microbiol Lett , vol.79 , pp. 423-431
    • Razin, S.1
  • 43
    • 0003585202 scopus 로고
    • Saunder College Publishers, Philadelphia
    • Barnes RD: Invertebrate Zoology. Saunder College Publishers, Philadelphia; 1987.
    • (1987) Invertebrate Zoology
    • Barnes, R.D.1
  • 44
    • 0023958268 scopus 로고
    • Characterization of the glutamyl-tRNA(Gln)-to-glutaminyl-tRNA(Gln) amidotransferase reaction
    • Strauch MA, Zalkin H, Aronson AI: Characterization of the glutamyl-tRNA(Gln)-to-glutaminyl-tRNA(Gln) amidotransferase reaction. J Bacteriol 1988, 170:916-920.
    • (1988) J Bacteriol , vol.170 , pp. 916-920
    • Strauch, M.A.1    Zalkin, H.2    Aronson, A.I.3
  • 45
    • 0023088853 scopus 로고
    • Nucleotide sequence of the pnp gene of Escherichia coli encoding polynucleotide phosphorylase. Homology of the primary structure of the protein with RNA-binding domain of ribosomal protein S1
    • Regnier P, Grunberg-Manago M, Portier C: Nucleotide sequence of the pnp gene of Escherichia coli encoding polynucleotide phosphorylase. Homology of the primary structure of the protein with RNA-binding domain of ribosomal protein S1. J Biol Chem 1987, 262:63-68.
    • (1987) J Biol Chem , vol.262 , pp. 63-68
    • Regnier, P.1    Grunberg-Manago, M.2    Portier, C.3
  • 46
    • 0026730491 scopus 로고
    • Translational initiation factors IF-1 and elF-2 alpha share an RNA-binding motif with prokaryotic ribosomal protein S1 and polynucleotide phosphorylase
    • Gribskov M: Translational initiation factors IF-1 and elF-2 alpha share an RNA-binding motif with prokaryotic ribosomal protein S1 and polynucleotide phosphorylase. Gene 1992, 119:107-111.
    • (1992) Gene , vol.119 , pp. 107-111
    • Gribskov, M.1
  • 47
    • 0023660679 scopus 로고
    • nusA protein of Escherichia coli is an efficient transcription termination factor for certain terminator sites
    • Schmidt MC, Chamberlin MJ: nusA protein of Escherichia coli is an efficient transcription termination factor for certain terminator sites. J Mol. Biol 1987, 195:809-818.
    • (1987) J Mol. Biol , vol.195 , pp. 809-818
    • Schmidt, M.C.1    Chamberlin, M.J.2
  • 48
    • 0029913902 scopus 로고    scopus 로고
    • Ancient duplication of DNA polymerase inferred from analysis of complete bacterial genomes
    • Koonin EV, Bork P: Ancient duplication of DNA polymerase inferred from analysis of complete bacterial genomes. Trend Biochem Sci, 1996
    • (1996) Trend Biochem Sci
    • Koonin, E.V.1    Bork, P.2
  • 49
    • 0003174053 scopus 로고
    • The stringent response
    • Edited by Neidhardt FC, Ingraham JL, Low KB, Magasanik B, Schaechter M, Umbarger HE. Washington: American Society for Microbiology
    • Cashel M, Rudd KE: The stringent response. In Escherichia coli and Salmonella typhimurium: cellular and molecular biology. Edited by Neidhardt FC, Ingraham JL, Low KB, Magasanik B, Schaechter M, Umbarger HE. Washington: American Society for Microbiology; 1987:1410-1438.
    • (1987) Escherichia Coli and Salmonella Typhimurium: Cellular and Molecular Biology , pp. 1410-1438
    • Cashel, M.1    Rudd, K.E.2
  • 50
    • 0028804889 scopus 로고
    • Control of rRNA transcription in Escherichia coli
    • Condon C, Squires C, Squires CL: Control of rRNA transcription in Escherichia coli. Microbiol Rev 1995, 59:623-645.
    • (1995) Microbiol Rev , vol.59 , pp. 623-645
    • Condon, C.1    Squires, C.2    Squires, C.L.3
  • 51
    • 0025312949 scopus 로고
    • Regulation of vaccinia virus transcription
    • Moss B: Regulation of vaccinia virus transcription. Annu Rev Biochem 1990, 59:661-688.
    • (1990) Annu Rev Biochem , vol.59 , pp. 661-688
    • Moss, B.1
  • 52
    • 0026004857 scopus 로고
    • Transcriptional activation by viral regulatory proteins
    • Nevins JR: Transcriptional activation by viral regulatory proteins. Trends Biochem Sci 1991, 16:435-439.
    • (1991) Trends Biochem Sci , vol.16 , pp. 435-439
    • Nevins, J.R.1
  • 55
    • 0028568602 scopus 로고
    • Eukaryotic translation elongation factor 1g contains a glutathione transferase domain - Study of a diverse, ancient protein superfamily using motif search and structural modeling
    • Koonin EV, Mushegian AR, Tatusov RL, Altschul SF, Bryant SH, Bork P, Valencia A: Eukaryotic translation elongation factor 1g contains a glutathione transferase domain - study of a diverse, ancient protein superfamily using motif search and structural modeling. Protein Sci 1994, 3:2045-2054.
    • (1994) Protein Sci , vol.3 , pp. 2045-2054
    • Koonin, E.V.1    Mushegian, A.R.2    Tatusov, R.L.3    Altschul, S.F.4    Bryant, S.H.5    Bork, P.6    Valencia, A.7
  • 56
    • 0029144599 scopus 로고
    • Multidomain organization of eukaryotic guanine nucleotide exchange translation initiation factor elF-2B subunits revealed by analysis of conserved sequence motifs
    • Koonin EV: Multidomain organization of eukaryotic guanine nucleotide exchange translation initiation factor elF-2B subunits revealed by analysis of conserved sequence motifs. Protein Sci 1995, 4:1608-1617.
    • (1995) Protein Sci , vol.4 , pp. 1608-1617
    • Koonin, E.V.1
  • 57
    • 0028357246 scopus 로고
    • Prediction of an rRNA methyltransferase domain in human tumor-specific nucleolar protein P120
    • Koonin EV: Prediction of an rRNA methyltransferase domain in human tumor-specific nucleolar protein P120. Nucleic Acids Res 1994, 22:2476-2478.
    • (1994) Nucleic Acids Res , vol.22 , pp. 2476-2478
    • Koonin, E.V.1
  • 58
    • 0028091659 scopus 로고
    • Detection of conserved segments in proteins: Iterative scanning of sequence databases with alignment blocks
    • Tatusov RL, Altschul SF, Koonin EV: Detection of conserved segments in proteins: iterative scanning of sequence databases with alignment blocks. Proc Natl Acad Sci USA 1994, 91:12091-12095.
    • (1994) Proc Natl Acad Sci USA , vol.91 , pp. 12091-12095
    • Tatusov, R.L.1    Altschul, S.F.2    Koonin, E.V.3
  • 59
    • 0025734995 scopus 로고
    • The N-terminal and C-terminal portions of NifV are encoded by two different genes in Clostridium pasteurianum
    • Wang S-Z, Dean DR, Che JS, Johnson JL: The N-terminal and C-terminal portions of NifV are encoded by two different genes in Clostridium pasteurianum. J Bacteriol 1991, 173:3041-3046.
    • (1991) J Bacteriol , vol.173 , pp. 3041-3046
    • Wang, S.-Z.1    Dean, D.R.2    Che, J.S.3    Johnson, J.L.4
  • 60
    • 0023245565 scopus 로고
    • Modulation of spectrin-actin assembly by erythrocyte adducin
    • Gardner K, Bennett V: Modulation of spectrin-actin assembly by erythrocyte adducin. Nature 1987, 328:359-362.
    • (1987) Nature , vol.328 , pp. 359-362
    • Gardner, K.1    Bennett, V.2
  • 63
    • 0027457409 scopus 로고
    • Global regulation of gene expression in Escherichia coli
    • Chuang SE, Daniels DL, Blattner FR: Global regulation of gene expression in Escherichia coli. J Bacteriol 1993, 175:2026-2036
    • (1993) J Bacteriol , vol.175 , pp. 2026-2036
    • Chuang, S.E.1    Daniels, D.L.2    Blattner, F.R.3
  • 66
    • 0025820322 scopus 로고
    • Complete physical map of the Bacillus subtilis 168 chromosome constructed by a gene-directed mutagenesis method
    • Itaya M, Tanaka T: Complete physical map of the Bacillus subtilis 168 chromosome constructed by a gene-directed mutagenesis method. J Mol Biol 1991, 220:631-648.
    • (1991) J Mol Biol , vol.220 , pp. 631-648
    • Itaya, M.1    Tanaka, T.2
  • 67
    • 0026509083 scopus 로고
    • Locating essential Escherichia coli genes by using mini-Tn10 transposons
    • Takiff HE, Baker T, Copeland T, Chen SM, Court DL: Locating essential Escherichia coli genes by using mini-Tn10 transposons. J Bacteriol 1992, 174:1544-1553.
    • (1992) J Bacteriol , vol.174 , pp. 1544-1553
    • Takiff, H.E.1    Baker, T.2    Copeland, T.3    Chen, S.M.4    Court, D.L.5
  • 68
    • 0028906201 scopus 로고
    • An estimation of minimal genome size required for life
    • Itaya M: An estimation of minimal genome size required for life. FEBS Lett 1995, 362:257-260.
    • (1995) FEBS Lett , vol.362 , pp. 257-260
    • Itaya, M.1
  • 69
    • 0028341112 scopus 로고
    • Tempo, mode, the progenote, and the universal root
    • Doolittle WF, Brown JR: Tempo, mode, the progenote, and the universal root. Proc Natl Acad Sci USA 1994, 91:6721-6728.
    • (1994) Proc Natl Acad Sci USA , vol.91 , pp. 6721-6728
    • Doolittle, W.F.1    Brown, J.R.2
  • 73
    • 0029655167 scopus 로고
    • Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. I. Sequence features in the 1 Mb region from map positions 64 % to 92 % of the genome
    • Kaneko T, Tanaka A, Sato S, Kotani H, Sazuka T, Miyajima N, Sugiura M, Tabata S: Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. I. Sequence features in the 1 Mb region from map positions 64 % to 92 % of the genome. DNA Res 1995, 2:153-166; 191-198 (suppl).
    • (1995) DNA Res , vol.2 , Issue.SUPPL. , pp. 153-166
    • Kaneko, T.1    Tanaka, A.2    Sato, S.3    Kotani, H.4    Sazuka, T.5    Miyajima, N.6    Sugiura, M.7    Tabata, S.8
  • 75
    • 0029059785 scopus 로고
    • Bacterial genome sequence bagged
    • Nowak R: Bacterial genome sequence bagged. Science 1995, 269:468-470
    • (1995) Science , vol.269 , pp. 468-470
    • Nowak, R.1
  • 79
    • 0028055018 scopus 로고
    • The winds of (evolutionary) change: Breathing new life into microbiology
    • Olsen GJ, Woese CR, Overbeek R: The winds of (evolutionary) change: breathing new life into microbiology. J Bacteriol 1994, 176:1-6
    • (1994) J Bacteriol , vol.176 , pp. 1-6
    • Olsen, G.J.1    Woese, C.R.2    Overbeek, R.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.