2003, Number 1-2
<< Back Next >>
Microbiología 2003; 45 (1-2)
The use of microarrays for studying the pathogenesis of Helicobacter pylori
Morales EMR, Delgado SG, Cravioto A
Language: English
References: 45
Page: 24-29
PDF size: 74.12 Kb.
ABSTRACT
At present, the genomes of various microorganisms have been completely sequenced, and many others are in progress. The availability of this level of information and the computational analysis of the described sequences have led to the development of new genomic areas such as: analysis in silico, comparative genomics, functional genomics, transcriptomics, proteomics, and pharmacogenomics.
Microarray technology is a powerful tool for analyzing the expression profile of thousands of genes in a global way and can be applied to the study of various biological systems. Using the complete sequences for both the
H. pylori and human genome that are available in the data bases, a number of researchers have revealed important information. Some of these data offer a glimpse into the great genetic diversity of
H. pylori, the differential genetic expression between the strains that shows the complexity of the response of microorganisms to different conditions of development, and into the association of gene cluster expression with clinical outcome. Other groups have examined the global transcriptional response of gastric epithelial cells to
H. pylori. The majority of these studies report an alteration in gene expression related to transcription functions, transduction signals, cell cycle regulation and differentiation, development factors, proliferation/apoptosis balance, expression of membrane proteins, and inflammatory response.
REFERENCES
Alm, R.A., L.-S. Ling, D.T. Moir, B.L. King, E.D. Brown, P.C. Doig, D.R. Smith, B. Noonan, B.C. Guild, B.L. deJonge, G. Carmel, P.J. Tummino, A. Caruso, M. Uria.Nickelsen, D.M. Mills, C. Ives, R. Gibson, D. Merberg, S.D. Mills, Q. Jiang, D.E. Taylor, G.F. Vovis & T.J. Trust. 1999. Genomic-sequence comparison of two unrelated isolates of human gastric pathogen Helicobacter pylori. Nature 397:176-180.
Allan, E., C.L. Clayton, A. McLaren, D.M. Wallace & B.W. Wren. 2001. Characterization of the low-pH responses of Helicobacter pylori using genomic DNA arrays. Microbiology 147:2285-2292.
Ang, S., C. Lee, K. Peck, M. Sindici, U. Matrubutham, M.A. Gleeson & J.T. Wang. 2001. Acid-induces gene expression in Helicobacter pylori: study in genomic scale by microarray. Infect. Immun. 69:1679-1686.
Aspinall, G.O. & M.A. Monteiro. 1996. Lipopolysaccharides of Helicobacter pylori strains P466 and MO19: structures of the O antigen and core oligosaccharide strains. Biochemistry 35:2498-2504.
Aspinall, G.O., M.A. Monteiro, H. Pang, E.J. Walsh & A.P. Moran. 1994. O antigen chains in the lipopolysaccharide of Helicobacter pylori NCTC 11637. Carbohydr. Lett. 1:151-156.
Atherton, J., P. Cao, R. Peek, M. Tummuru, M. Blaser & T. Cover. 1995. Mosaicism in vacuolating cytotoxin alleles of Helicobacter pylori. J. Biol. Chem. 270:17771-17777.
Atherton, J.C. 1997. The clinical relevance of strains types of Helicobacter pylori. Gut 40:701-703.
Björkholm, B.M., J.L. Guruge, J.D. Oh, A.J. Syder, N. Salama, K. Guilemin, S, Falkow, C. Nilsson, P.G. Falk, L. Engstrand & J.I. Gordon. 2002. Colonization of germ-transgenic mice with genotyped Helicobacter pylori strains from a case-control study of gastric cancer reveals a correlation between host responses and HsdS components of type I restriction-modification systems. J. Biol. Chem. 277:34191-34197.
Blaser, M., G. Perez-Perez, H. Kleanthous, T. Cover, R. Peek, P. Chyou, G. Stemmermann & A. Nomura. 1995. Infection with Helicobacter pylori strains possessing cagA is associated with an increased risk of developing adenocarcinoma of the stomach. Cancer Res. 55:2111-2115.
Cecini, S., C. Lange, Z. Xiang, J.E. Cabtree, P. Giara, M. Borodovsky, R. Rappuoli & A. Covacci. 1996. cag, a pathogenicity island of Helicobacter pylori, encodes type I-specific and disease-associated virulence factors. Proc. Natl. Acad. Sci. USA. 93: 14648-14653.
Covacci, A., S. Censini, M. Bugnoli,. R. Petraca, D. Burroni, G. Macchia, A. Masone, E. Papini, Z. Xiang, N. Figura & R. Rappuoli. 1993. Molecular characterization of the 128-kDa immunodominant antigen of Helicobacter pylori associated with cytotoxicity and duodenal ulcer. Proc. Natl. Acad. Sci. USA. 90:5791-5795.
Cover, T., M. Tummuru, P. Cao, A. Stuart & M. Blaser. 1994. Divergence of genetic sequences for the vacuolating cytotoxin among Helicobacter pylori strains. J. Biol. Chem. 269:10566-10573.
Cover, T.L., W. Puryear, G.I.Perez-Perez & M.J. Blaser. 1991. Effect of urease on HeLa cell vacuolation induced by Helicobacter pylori cytotoxin. Infec. Immun. 59:1264-1270.
Cox, J.M., C.L. Clayton, T. Tomita, D.M. Wallace, P.A. Robinson & J.E. Crabtree. 2001. cDNA array analysis of cag pathogenicity island-associated Helicobacter pylori epithelial cell response genes. Infec. Immun. 69:6970-6980.
Chiou, C.-C., C.-C. Chan, D.-L. Sheu, K.-T. Chen, Y.-S. Li & E.-C. Chan. 2001. Helicobacter pylori infection induced alteration of gene expression in human gastric cells. Gut 48:598-604.
DeRisi, J.L., V.R. Iyer & P.O. Brown. 1997. Exploring the metabolic and genetic control of gene expression on a genomic scale. Science 278:680-686.
Dunn, B., G. Campbell, G. Perez-Perez & M. Blaser. 1990. Purification and characterization of urease from Helicobacter pylori. J. Biol. Chem. 265:9464-9468.
Evans, D., D. Queiroz, E. Mendes & D. Evans Jr. 1998. Helicobacter pylori CagA status and s and m alleles of vacA in isolates from individuals with a variety of H. pylori associated gastric diseases. J. Clin. Microbiol. 36:3435-3437.
Guillemin, K., N.R. Salama, L.S. Tompkins & S. Falkow. 2002. Cag pathogenicity island-specific responses of gastric epithelial cells to Helicobacter pylori infection. Proc. Natl. Acad. Sci. USA. 99:15136-15141.
Han, S.R., H.J. Schreiber, S. Bhakdi, M. Loos & M. Maeurer. 1998. vacA genotypes and genetic diversity in clinical isolates of Helicobacter pylori. Clin. Diagnos. Lab. Immun. 5:139-145.
Harrington, C.A., C. Rosenow & J. Retief. 2000. Monitoring gene expression using DNA microarrays. Curr. Opin. Microbiol. 3:285-291.
Harris, P.R., T.L. Cover, D.R. Crowe, J.M. Orenstein, M.F. Graham, M.J. Blaser & P.D. Smith. 1996. Helicobacter pylori cytotoxin induces vacuolation of primary human mucosal epithelial cell. Infec. Immun. 64:4867-4871.
Hippo, Y., H. Taniguchi, S. Tsutsumi, N. Machida, J.M. Chong, M. Fukayama, T. Kodama & H. Aburatani. 2002. Global gene expression analysis of gastric cancer by oligonucleotide microarrays. Cancer Research. 62:233-240.
Hirata, Y., S. Maeda, Y. Mitsuno M. Akanuma, Y. Yamaji, K. Ogura, H. Yoshida, Y. Shiratori & M. Omata. 2001. Helicobacter pylori activates the cyclin D1 gene through mitogen-activated protein kinase pathway in gastric cancer cells. Infect. Immun. 69:3965-3971.
http://www.nhgri.nih.gov/DIR/LCG/15K/HTML/aboutmicro.html.
Israel, D.A., N. Salama, C.N. Arnold, S.F. Moss, T. Ando, H.-P. Wirth, K.T. Tham, M. Camorlinga, M. Blaser, S. Falkow & R.M. Peek Jr. 2001. Helicobacter pylori strain-specific differences in genetic content, identified by microarray, influence host inflammatory responses. J. Clin. Invest. 107:611-620.
Israel, D.A., N. Salama, U. Krishna, U.M. Rieger, J.C. Atherton, S. Falkow & R.M. Peek Jr. 2001. Helicobacter pylori genetic diversity within the gastric niche of a single human host. Proc. Natl. Acad. Sci. USA. 98:14625-14630.
Jungblut, P.R., D. Bumann, G. Haas, U. Zimny-Arndt, P. Holland, S. Lamer, F. Siejak, A. Aebischer & T.F. Meyer. 2000. Comparative proteome analysis of Helicobacter pylori. Mol. Microbiol. 36:710-725.
Kirikoshi, H., H. Sekihara & M. Katoh. 2001. Up-regulation of WNT10A by tumor necrosis factor-alpha and Helicobacter pylori in gastric cancer. Int. J. Oncol. 19:533-536.
Lucchini, S., A. Thompson & J.C.D. Hinton. 2001. Microarrays for microbiologists. Microbiology 147:1403-1414.
Maeda, S., M. Otsuka, Y. Hirata, Y. Mitsuno, H. Yoshida, Y. Shiratori, Y. Masuho, A. Muramatsu, N. Seki & M. Omata. 2001. cDNA microarray analysis of Helicobacter pylori-mediated alteration of gene expression in gastric cancer cells. Biochem. Biophys. Res. Commun. 284:443-449.
Mai, U.E.H., G.I. Perez-Perez, J.B. Allen, S.M. Eahl, M.J. Blaser & P.D. Smith. 1992. Surface proteins from Helicobacter pylori exhibit chemotactic activity for human leukocytes and are present in gastric mucosa. J. Exp. Med. 175:517-525.
Mitsuno, Y., H. Yoshida, S. Maeda K. Ogura, Y. Hirata, T. Kawabe, Y. Shiratori & M. Omata. 2001. Helicobacter pylori induced transactivation of SRE and AP-1 through the ERK signaling pathway in gastric cancer cells. Gut 49:18-22.
Odenbreit, S., J. Püls, B. Sedlmaier, E. Gerland, W. Fischer & R. Haas. 2000. Translocation of Helicobacter pylori CagA into gastric epithelial cells by type IV secretion. Science 287:1497-1500.
Peek Jr., R., G. Miller, K. Tham, G. Perez-Perez, T. Cover, J. Atherton, G. Dunn & M. Blaser. 1995. Detection of Helicobacter pylori gene expression in human gastric mucosa. J. Clin. Microbiol. 33:28-32.
Perez-Perez G, A. Olivares, T. Cover, M. Blaser. 1992. Characteristic of Helicobacter pylori variants selected for urease defficiency. Infect. Immun. 60:3658-3663.
Rudi, J., C. Kolb, M. Maiwald, D. Kuck, A. Sieg, P. Galle & W. Stremmel. 1998. Diversity of Helicobacter pylori vacA and cagA genes and relationship to VacA and protein expression, cytotoxin production, and associated diseases. J. Clin. Microbiol. 36:944-948.
Salama, N., K. Guillemin, T.K. McDaniel, G. Sherlock, L. Tompkins & S. Falkow. 2000. A whole-genome microarray reveals genetic diversity among Helicobacter pylori strains. Proc. Natl. Acad. Sci. USA. 97:14668-14673.
Schena, M., D. Salon, R.W. Davis & P.O. Brown. 1995. Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 270:467-470.
Sepulveda, A.R., H. Tao, E. Carloni, J. Sepulveda, D.Y. Graham & L.E. Peterson. 2002. Screening of gene expression profiles in gastric epithelial cells induced by Helicobacter pylori using microarrays analysis. Aliment. Pharmacol. Ther. 16:(suppl. 2)145-157.
Suganuma, M., M. Kurusu, S. Okabe, N. Sueoka, M. Yoshida, Y. Wakatsuki & H. Fujiki. 2001. Helicobacter pylori membrane protein 1: a new carcinogenetic factor of Helicobacter pylori. Cancer Res. 61:6356-6359.
Tomb, J.F., O. White, A.R. Kerlavage, R.A. Clayton, G.G. Sutton, R.D. Fleischmann, K.A. Ketchum, H.P. Klenk, S. Gill, B.A. Dougherty, K. Nelson, J. Quackenbush, L. Zhou, E.F. Kirkness, S. Peterson, B. Loftus, D. Richardson, R. Dodson, H.G. Khalak, A. Glodek, K. McKenney, L.M. Fitzegerald, N. Lee, M.D. Adams, E.K. Hickey, D.E. Berg, J.D. Gocayne, T.R. Utterback, J.D. Peterson, J.M. Kelley, M.D. Cotton, J.M. Weidman, C. Fujii, C. Bowman, L. Watthey, E. Wallin, W.S. Hayes, M. Borodovsky, P.D. Karp, H.O. Smith, C.M. Fraser & J.C. Venter. 1997. The complete genome sequence of the gastric pathogen Helicobacter pylori. Nature 388:539-547.
Velculescu, V.E., L. Zhang, B. Vogelstein & K.W. Kinzler. 1995. Serial analysis of gene expression. Science 270:484-487.
Wanbura, C., N. Aoyama, D. Shirasaka, T. Sakai, T. Ikemura, M. Sakashita, S. Maekawa, K. Kuroda, T. Inoue, S. Ebara, M. Miyamoto & M. Kasuga. 2002. Effect of Helicobacter pylori-induced cyclooxygenase-2 on gastric epithelial cell kinetics: implication for gastric carcinogenesis. Helicobacter 7:129-138.
Whitfield, M.L., G. Sherlock, A.J. Saldanha, J.I. Murray, C.A. Ball, K.E. Alexander, J.C. Matese, C.M. Perou, M.M. Hurt, P.O. Brown & D. Botstein. 2002. Identification of genes periodically expressed in the human cell cycle and their expression in tumors. Mol. Biol. Cell. 13:1977-2000.