Amplification of sense-stranded prokaryotic RNA

DNA and Cell Biology

Volumn 25, Issue 11, 2006, Pages 627-634

  Lawson, Jonathan N ^a   Johnston, Stephen Albert ^b  

^a UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER   (United States)

^b ARIZONA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL RNA; COMPLEMENTARY DNA; MESSENGER RNA; TRANSCRIPTOME;

AMPLICON; ARTICLE; BACTERIAL GENOME; CONTROLLED STUDY; CORRELATION COEFFICIENT; ENZYME ACTIVITY; GENE AMPLIFICATION; GENOME ANALYSIS; IN VIVO STUDY; LINEAR AMPLIFICATION OF PROKARYOTIC TRANSCRIPTS; MICROARRAY ANALYSIS; MICROBIAL GENETICS; MOLONEY LEUKEMIA ONCOVIRUS; NONHUMAN; PRIORITY JOURNAL; PROKARYOTE; PROMOTER REGION; PROTEIN EXPRESSION; REVERSE TRANSCRIPTION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA ANALYSIS; TRANSCRIPTOMICS;

ANIMALS; BACTERIOPHAGE T7; DNA PRIMERS; MICE; MOLONEY MURINE LEUKEMIA VIRUS; NUCLEIC ACID AMPLIFICATION TECHNIQUES; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROKARYOTIC CELLS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, BACTERIAL; RNA, MESSENGER; RNA-DIRECTED DNA POLYMERASE; SENSITIVITY AND SPECIFICITY; YERSINIA PESTIS; YERSINIA PSEUDOTUBERCULOSIS;

BACTERIA (MICROORGANISMS); EUKARYOTA; MAMMALIA; MOLONEY MURINE LEUKEMIA VIRUS; PROKARYOTA;

EID: 33845297982     PISSN: 10445498     EISSN: None     Source Type: Journal    
DOI: 10.1089/dna.2006.25.627     Document Type: Article

References (26)

1. ALLAND, D., KRAMNIK, I., et al. (1998). Identification of differentially expressed mRNA in prokaryotic organisms by customized amplification libraries (DECAL): The effect of isoniazid on gene expression in Mycobacterium tuberculosis. Proc. Natl. Acad. Sci. USA 95, 13227-13232.
2. BAUGH, L.R., HILL, A.A., et al. (2001). Quantitative analysis of mRNA amplification by in vitro transcription. Nucleic Acids Res. 29, E29.
3. BOYCE, J.D., WILKIE, I., et al. (2002). Genomic scale analysis of Pasteurella multocida gene expression during growth within the natural chicken host. Infect. Immun. 70, 6871-6879.
4. BOYCE, J.D., WILKIE, I., et al. (2004). Genomic-scale analysis of Pasteurella multocida gene expression during growth within liver tissue of chickens with fowl cholera. Microbes Infect. 6, 290-298.
5. CHENCHIK, A., ZHU, Y.Y., et al. (1998). Generation and use of high-quality cDNA from small amounts of total RNA by SMART PCR. Gene Cloning and Analysis by RT-PCR. P.D. Siebert and J. Larrick, eds. (Biotechnique Books, Natick, MD), pp. 305-319.
6. EISEN, M.B., and BROWN, P.O. (1999). DNA arrays for analysis of gene expression. Methods Enzymol. 303, 179-205.
7. EISEN, M.B., SPELLMAN, P.T., et al. (1998). Cluster analysis and display of genome-wide expression patterns. Proc. Natl. Acad. Sci. USA 95, 14863-14868.
8. HENSEL, M., SHEA, I.E., et al. (1995). Simultaneous identification of bacterial virulence genes by negative selection. Science 269, 400-403.
9. HINCHLIFFE, S.J., ISHERWOOD, K.E., et al. (2003). Application of DNA microarrays to study the evolutionary genomics of Yersinia pestis and Yersinia pseudotuberculosis. Genome Res. 13, 2018-2029.
10. LI, F., and STORMO, G.D. (2001). Selection of optimal DNA oligos for gene expression arrays. Bioinformatics 17, 1067-1076.
11. MAHAN, M.J., SLAUCH, J.M., et al. (1993). Selection of bacterial virulence genes that are specifically induced in host tissues. Science 259, 686-688.
12. MATZ, M.V., ALIEVA, N.O., et al. (2003). Amplification of cDNA ends using PCR suppression effect and step-out PCR. Methods Mol. Biol. 221, 41-49.
13. MOTLEY, S.T., MORROW, B.J., et al. (2004). Simultaneous analysis of host and pathogen interactions during an in vivo infection reveals local induction of host acute phase response proteins, a novel bacterial stress response, and evidence of a host-imposed metal ion limited environment. Cell Microbiol. 6, 849-865.
14. OHYAMA, H., ZHANG, X., et al. (2000). Laser capture microdissection- generated target sample for high-density oligonucleotide array hybridization. Biotechniques 29, 530-536.
15. PARKHILL, J., WREN, B.W., et al. (2001). Genome sequence of Yersinia pestis, the causative agent of plague. Nature 413, 523-527.
16. RAKIN, A., URBITSCH, P., et al. (1995). Evidence for two evolutionary lineages of highly pathogenic Yersinia species. J. Bacteriol. 177, 2292-2298.
17. REVEL, A.T., TALAAT, A.M., et al. (2002). DNA microarray analysis of differential gene expression in Borrelia burgdorferi, the Lyme disease spirochete. Proc. Natl. Acad. Sci. USA 99, 1562-1567.
18. SCHRAMM, G., BRUCHHAUS, I., et al. (2000). A simple and reliable 5′-RACE approach. Nucleic Acids Res. 28, E96.
19. TALAAT, A.M., HUNTER, P., et al. (2000). Genome-directed primers for selective labeling of bacterial transcripts for DNA microarray analysis. Nat. Biotechnol. 18, 679-682.
20. TALAAT, A.M., HOWARD, ST., et al. (2002). Genomic DNA standards for gene expression profiling in Mycobacterium tuberculosis. Nucleic Acids Res. 30, e104.
21. TALAAT, A.M., LYONS, R., et al. (2004). The temporal expression profile of Mycobacterium tuberculosis infection in mice. Proc. Natl. Acad. Sci. USA 101, 4602-4607.
22. THOMAS, J.G., OLSON, J.M., et al. (2001). An efficient and robust statistical modeling approach to discover differentially expressed genes using genomic expression profiles. Genome Res. 11, 1227-1236.
23. VALDIVIA, R.H., and FALKOW, S. (1997). Fluorescence-based isolation of bacterial genes expressed within host cells. Science 277, 2007-2011.
24. VAN GELDER, R.N., VON ZASTROW, M.E., et al. (1990). Amplified RNA synthesized from limited quantities of heterogeneous cDNA. Proc. Natl. Acad. Sci. USA 87, 1663-1667.
25. WANG, E., MILLER, L.D., et al. (2000). High-fidelity mRNA amplification for gene profiling. Nat. Biotechnol. 18, 457-459.
26. ZHUMABAYEVA, B., DIATCHENKO, L., et al. (2001). Use of SMART-generated cDNA for gene expression studies in multiple human tumors. Biotechniques 30, 158-163.