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Volumn 7, Issue 21, 2007, Pages 3853-3866

Comparative analysis of gene expression on mRNA and protein level during development of Streptomyces cultures by using singular value decomposition

Author keywords

Development; Gene expression profiling; Singular value decomposition; Streptomyces

Indexed keywords

ARTICLE; BACTERIUM CULTURE; CONTROLLED STUDY; GENE EXPRESSION; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEOMICS; RNA SYNTHESIS; STREPTOMYCES COELICOLOR; TIME SERIES ANALYSIS; TRANSCRIPTOMICS;

EID: 36048962492     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.200700005     Document Type: Article
Times cited : (12)

References (29)
  • 1
    • 0034730140 scopus 로고    scopus 로고
    • Singular value decomposition for genome-wide expression data processing and modeling
    • Alter, O., Brown, P. O., Botstein, D., Singular value decomposition for genome-wide expression data processing and modeling. Proc. Natl. Acad. Sci. USA 2000, 97, 10101-10106.
    • (2000) Proc. Natl. Acad. Sci. USA , vol.97 , pp. 10101-10106
    • Alter, O.1    Brown, P.O.2    Botstein, D.3
  • 2
    • 0034682504 scopus 로고    scopus 로고
    • Fundamental patterns underlying gene expression profiles: Simplicity from complexity
    • Holter, N. S., Mitra, M., Maritan, A., Cieplak, M. et al., Fundamental patterns underlying gene expression profiles: Simplicity from complexity. Proc. Natl. Acad. Sci. USA 2000, 97, 8409-8414.
    • (2000) Proc. Natl. Acad. Sci. USA , vol.97 , pp. 8409-8414
    • Holter, N.S.1    Mitra, M.2    Maritan, A.3    Cieplak, M.4
  • 3
    • 0037452966 scopus 로고    scopus 로고
    • Generalized singular value decomposition for comparative analysis of genome-scale expression data sets of two different organisms
    • Alter, O., Brown, P. O., Botstein, D., Generalized singular value decomposition for comparative analysis of genome-scale expression data sets of two different organisms. Proc. Natl. Acad. Sci. USA 2003, 100, 3351-3356.
    • (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 3351-3356
    • Alter, O.1    Brown, P.O.2    Botstein, D.3
  • 5
    • 0028239192 scopus 로고
    • Synthesis of ribosomal proteins during growth of Streptomyces coelicolor
    • Blanco, G., Rodicio, M. R., Puglia, A. M., Mendez, C. et al., Synthesis of ribosomal proteins during growth of Streptomyces coelicolor. Mol. Microbiol. 1994, 12, 375-385.
    • (1994) Mol. Microbiol , vol.12 , pp. 375-385
    • Blanco, G.1    Rodicio, M.R.2    Puglia, A.M.3    Mendez, C.4
  • 6
    • 0027368792 scopus 로고
    • Large genomic rearrangements of the unstable region in Streptomyces ambofaciens are associated with major changes in global gene expression
    • Dary, A., Kaiser, P., Bourget, N., Thompson, C. J. et al., Large genomic rearrangements of the unstable region in Streptomyces ambofaciens are associated with major changes in global gene expression. Mol. Microbiol. 1993, 10, 759-769.
    • (1993) Mol. Microbiol , vol.10 , pp. 759-769
    • Dary, A.1    Kaiser, P.2    Bourget, N.3    Thompson, C.J.4
  • 7
    • 0026606502 scopus 로고
    • Global changes in gene expression related to antibiotic synthesis in Streptomyces hygroscopicus
    • Holt, T. G., Chang, C., Laurent-Winter, C., Murakami, T. et al., Global changes in gene expression related to antibiotic synthesis in Streptomyces hygroscopicus. Mol. Microbiol. 1992, 6, 969-980.
    • (1992) Mol. Microbiol , vol.6 , pp. 969-980
    • Holt, T.G.1    Chang, C.2    Laurent-Winter, C.3    Murakami, T.4
  • 8
    • 0028827882 scopus 로고
    • Stress-activated expression of a Streptomyces pristinaespiralis multidrug resistance gene (ptr) in various Streptomyces spp. and Escherichia coli
    • Salah-Bey, K., Blanc, V., Thompson, C. J., Stress-activated expression of a Streptomyces pristinaespiralis multidrug resistance gene (ptr) in various Streptomyces spp. and Escherichia coli. Mol. Microbiol. 1995, 17, 1001-1012.
    • (1995) Mol. Microbiol , vol.17 , pp. 1001-1012
    • Salah-Bey, K.1    Blanc, V.2    Thompson, C.J.3
  • 9
    • 0029047507 scopus 로고
    • Developmental control of the heat-shock stress regulon in Streptomyces coelicolor
    • Puglia, A. M., Vohradský, J., Thompson, C. J., Developmental control of the heat-shock stress regulon in Streptomyces coelicolor. Mol. Microbiol. 1995, 17, 737-746.
    • (1995) Mol. Microbiol , vol.17 , pp. 737-746
    • Puglia, A.M.1    Vohradský, J.2    Thompson, C.J.3
  • 10
    • 0030817690 scopus 로고    scopus 로고
    • Identification of procaryotic developmental stages by statistical analysis of 2D gel patterns
    • Vohradsky, J., Li, X.-M., Thompson, C. J., Identification of procaryotic developmental stages by statistical analysis of 2D gel patterns. Electrophoresis 1997, 18, 1418-1428.
    • (1997) Electrophoresis , vol.18 , pp. 1418-1428
    • Vohradsky, J.1    Li, X.-M.2    Thompson, C.J.3
  • 11
    • 0035576880 scopus 로고    scopus 로고
    • Global analysis of growth phase responsive gene expression and regulation of antibiotic biosynthetic pathways in Streptomyces coelicolor using DNA microarrays
    • Huang, J., Lih, C. J., Pan, K. H., Cohen, S. N., Global analysis of growth phase responsive gene expression and regulation of antibiotic biosynthetic pathways in Streptomyces coelicolor using DNA microarrays. Genes Dev. 2001, 15, 3183-3192.
    • (2001) Genes Dev , vol.15 , pp. 3183-3192
    • Huang, J.1    Lih, C.J.2    Pan, K.H.3    Cohen, S.N.4
  • 13
    • 2542430932 scopus 로고    scopus 로고
    • Berrar, D, Dubitzky, W, Granzow, M, Eds, Kluwer, Norwell, MA
    • Berrar, D., Dubitzky, W., Granzow, M. (Eds.), A Practical Approach to Microarray Data Analysis, Kluwer, Norwell, MA 2003, pp. 91-109.
    • (2003) A Practical Approach to Microarray Data Analysis , pp. 91-109
  • 14
    • 0038460070 scopus 로고    scopus 로고
    • Proteomics studies of diauxic lag in the differentiating prokaryote Streptomyces coelicolor reveal a regulatory network of stress-induced proteins and central metabolic enzymes
    • Novotna, J., Vohradsky, J., Berndt, P., Gramajo, H. et al., Proteomics studies of diauxic lag in the differentiating prokaryote Streptomyces coelicolor reveal a regulatory network of stress-induced proteins and central metabolic enzymes. Mol. Microbiol. 2003, 48, 1289-1303.
    • (2003) Mol. Microbiol , vol.48 , pp. 1289-1303
    • Novotna, J.1    Vohradsky, J.2    Berndt, P.3    Gramajo, H.4
  • 15
    • 0035030167 scopus 로고    scopus 로고
    • Roles of aconitase in growth, metabolism, and morphological differentiation of Streptomyces coelicolor
    • Viollier, P. H., Nguyen, K. T., Minas, W., Folcher, M. et al., .Roles of aconitase in growth, metabolism, and morphological differentiation of Streptomyces coelicolor. J. Bacteriol. 2001, 183, 3193-3203.
    • (2001) J. Bacteriol , vol.183 , pp. 3193-3203
    • Viollier, P.H.1    Nguyen, K.T.2    Minas, W.3    Folcher, M.4
  • 16
    • 0042861585 scopus 로고    scopus 로고
    • Towards a phosphoproteome map of Corynebacterium glutamicum
    • Bendt, A. K., Burkovski, A., Schaffer, S., Bott, M. et al., Towards a phosphoproteome map of Corynebacterium glutamicum. Proteomics 2003, 3, 1637-1646.
    • (2003) Proteomics , vol.3 , pp. 1637-1646
    • Bendt, A.K.1    Burkovski, A.2    Schaffer, S.3    Bott, M.4
  • 17
    • 33645688327 scopus 로고    scopus 로고
    • Analysis of the dynamic Bacillus subtilis Ser/Thr/Tyr phosphoproteome implicated in a wide variety of cellular processes
    • Levine, A., Vannier, F., Absalon, C., Kuhn, L. et al., Analysis of the dynamic Bacillus subtilis Ser/Thr/Tyr phosphoproteome implicated in a wide variety of cellular processes. Proteomics 2006, 6, 2157-2173.
    • (2006) Proteomics , vol.6 , pp. 2157-2173
    • Levine, A.1    Vannier, F.2    Absalon, C.3    Kuhn, L.4
  • 18
    • 0035461434 scopus 로고    scopus 로고
    • Genome resource utilization during prokaryotic development
    • Vohradsky, J., Ramsden, J. J., Genome resource utilization during prokaryotic development. FASEB J. 2001, 15, 2054-2056.
    • (2001) FASEB J , vol.15 , pp. 2054-2056
    • Vohradsky, J.1    Ramsden, J.J.2
  • 19
    • 0025824741 scopus 로고
    • Identification and cloning of the glnR locus, which is required for transcription of the glnA gene in Streptomyces coelicolor A3(2)
    • Wray, L. V., Jr., Atkinson, M. R., Fisher, S. H., Identification and cloning of the glnR locus, which is required for transcription of the glnA gene in Streptomyces coelicolor A3(2). J. Bacteriol. 1991, 173, 7351-7360.
    • (1991) J. Bacteriol , vol.173 , pp. 7351-7360
    • Wray Jr., L.V.1    Atkinson, M.R.2    Fisher, S.H.3
  • 20
    • 0026554412 scopus 로고
    • The Streptomyces coelicolor whiB gene encodes a small transcription factor-like protein dispensable for growth but essential for sporulation
    • Davis, N. K., Chater, K. F., The Streptomyces coelicolor whiB gene encodes a small transcription factor-like protein dispensable for growth but essential for sporulation. Mol. Gen. Genet. 1992, 232, 351-358.
    • (1992) Mol. Gen. Genet , vol.232 , pp. 351-358
    • Davis, N.K.1    Chater, K.F.2
  • 21
    • 0026784257 scopus 로고
    • Two promoters for the whiB sporulation gene of Streptomyces coelicolor A3(2) and their activities in relation to development
    • Soliveri, J., Brown, K. L., Buttner, M. J., Chater, K. F., Two promoters for the whiB sporulation gene of Streptomyces coelicolor A3(2) and their activities in relation to development. J. Bacteriol. 1992, 174, 6215-6220.
    • (1992) J. Bacteriol , vol.174 , pp. 6215-6220
    • Soliveri, J.1    Brown, K.L.2    Buttner, M.J.3    Chater, K.F.4
  • 22
    • 0029762312 scopus 로고    scopus 로고
    • afsR is a pleiotropic but conditionally required regulatory gene for antibiotic production in Streptomyces coelicolor A3(2)
    • Floriano, B., Bibb, M., afsR is a pleiotropic but conditionally required regulatory gene for antibiotic production in Streptomyces coelicolor A3(2). Mol. Microbiol. 1996, 21, 385-396.
    • (1996) Mol. Microbiol , vol.21 , pp. 385-396
    • Floriano, B.1    Bibb, M.2
  • 23
    • 0031747318 scopus 로고    scopus 로고
    • Taking a genetic scalpel to the Streptomyces colony
    • Chater, K. F., Taking a genetic scalpel to the Streptomyces colony. Microbiology 1998, 144, 1465-1478.
    • (1998) Microbiology , vol.144 , pp. 1465-1478
    • Chater, K.F.1
  • 24
    • 0024721944 scopus 로고
    • Sporulation of several species of Streptomyces in submerged cultures after nutritional downshift
    • Daza, A., Martin, J. F., Dominguez, A., Gil, J. A., Sporulation of several species of Streptomyces in submerged cultures after nutritional downshift. J. Gen. Microbiol. 1989, 135, 2483-2491.
    • (1989) J. Gen. Microbiol , vol.135 , pp. 2483-2491
    • Daza, A.1    Martin, J.F.2    Dominguez, A.3    Gil, J.A.4
  • 25
    • 0020522125 scopus 로고
    • Sporulation of Streptomyces griseus in submerged culture
    • Kendrick, K. E., Ensign, J. C., Sporulation of Streptomyces griseus in submerged culture. J. Bacteriol. 1983, 155, 357-366.
    • (1983) J. Bacteriol , vol.155 , pp. 357-366
    • Kendrick, K.E.1    Ensign, J.C.2
  • 26
    • 0026761221 scopus 로고
    • Sporulation of Streptomyces antibioticus ETHZ 7451 in submerged culture
    • Novella, I. S., Barbes, C., Sanchez, J., Sporulation of Streptomyces antibioticus ETHZ 7451 in submerged culture. Can. J. Microbiol. 1992, 38, 769-773.
    • (1992) Can. J. Microbiol , vol.38 , pp. 769-773
    • Novella, I.S.1    Barbes, C.2    Sanchez, J.3
  • 27
    • 0031719202 scopus 로고    scopus 로고
    • Pleiotropic effects of cAMP on germination, antibiotic biosynthesis and morphological development in Streptomyces coelicolor
    • Susstrunk, U., Pidoux, J., Taubert, S., Ulimann, A., Thompson, C. J., Pleiotropic effects of cAMP on germination, antibiotic biosynthesis and morphological development in Streptomyces coelicolor. Mol. Microbiol. 1998, 30, 33-46.
    • (1998) Mol. Microbiol , vol.30 , pp. 33-46
    • Susstrunk, U.1    Pidoux, J.2    Taubert, S.3    Ulimann, A.4    Thompson, C.J.5
  • 28
    • 1542288938 scopus 로고    scopus 로고
    • Global organization of metabolic fluxes in the bacterium Escherichia coli
    • Almaas, E., Kovacs, B., Vicsek, T., Oltvai, Z. N., Barabasi, A. L., Global organization of metabolic fluxes in the bacterium Escherichia coli. Nature 2004, 427, 839-843.
    • (2004) Nature , vol.427 , pp. 839-843
    • Almaas, E.1    Kovacs, B.2    Vicsek, T.3    Oltvai, Z.N.4    Barabasi, A.L.5
  • 29
    • 0025239708 scopus 로고
    • A breakdown in macromolecular synthesis preceding defferentiation in Streptomyces coelicolor
    • Granozzi, C., Billetta, R., Passantino, R., Sollazo, M., Puglia, A. M., A breakdown in macromolecular synthesis preceding defferentiation in Streptomyces coelicolor. J. Gen. Microbiol. 1990, 136, 713-716.
    • (1990) J. Gen. Microbiol , vol.136 , pp. 713-716
    • Granozzi, C.1    Billetta, R.2    Passantino, R.3    Sollazo, M.4    Puglia, A.M.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.