title: Microarray studies on effects of Pneumocystis carinii infection on global gene expression in alveolar macrophages.
abstract: BACKGROUND
  Pneumocystis pneumonia is a common opportunistic disease in AIDS patients. The alveolar macrophage is an important effector cell in the clearance of Pneumocystis organisms by phagocytosis. However, both the number and phagocytic activity of alveolar macrophages are decreased in Pneumocystis infected hosts. To understand how Pneumocystis inactivates alveolar macrophages, Affymetrix GeneChip RG-U34A DNA microarrays were used to study the difference in global gene expression in alveolar macrophages from uninfected and Pneumocystis carinii-infected Sprague-Dawley rats.
  
  
  RESULTS
  Analyses of genes that were affected by Pneumocystis infection showed that many functions in the cells were affected. Antigen presentation, cell-mediated immune response, humoral immune response, and inflammatory response were most severely affected, followed by cellular movement, immune cell trafficking, immunological disease, cell-to-cell signaling and interaction, cell death, organ injury and abnormality, cell signaling, infectious disease, small molecular biochemistry, antimicrobial response, and free radical scavenging. Since rats must be immunosuppressed in order to develop Pneumocystis infection, alveolar macrophages from four rats of the same sex and age that were treated with dexamethasone for the entire eight weeks of the study period were also examined. With a filter of false-discovery rate less than 0.1 and fold change greater than 1.5, 200 genes were found to be up-regulated, and 144 genes were down-regulated by dexamethasone treatment. During Pneumocystis pneumonia, 115 genes were found to be up- and 137 were down-regulated with the same filtering criteria. The top ten genes up-regulated by Pneumocystis infection were Cxcl10, Spp1, S100A9, Rsad2, S100A8, Nos2, RT1-Bb, Lcn2, RT1-Db1, and Srgn with fold changes ranging between 12.33 and 5.34; and the top ten down-regulated ones were Lgals1, Psat1, Tbc1d23, Gsta1, Car5b, Xrcc5, Pdlim1, Alcam, Cidea, and Pkib with fold changes ranging between -4.24 and -2.25.
  
  
  CONCLUSIONS
  In order to survive in the host, Pneumocystis organisms change the expression profile of alveolar macrophages. Results of this study revealed that Pneumocystis infection affects many cellular functions leading to reduced number and activity of alveolar macrophages during Pneumocystis pneumonia.
authors.affiliation: Department of Obstetrics and Gynecology, Chang Gung Memorial Hospital, Chang Gung University College of Medicine, Kaohsiung, Taiwan.
authors.forename: Bi-Hua
authors.initials: BH
authors.lastname: Cheng
authors.forename: Yunlong
authors.initials: Y
authors.lastname: Liu
authors.forename: Xiaoling
authors.initials: X
authors.lastname: Xuei
authors.forename: Chung-Ping
authors.initials: CP
authors.lastname: Liao
authors.forename: Debao
authors.initials: D
authors.lastname: Lu
authors.forename: Mark E
authors.initials: ME
authors.lastname: Lasbury
authors.forename: Pamela J
authors.initials: PJ
authors.lastname: Durant
authors.forename: Chao-Hung
authors.initials: CH
authors.lastname: Lee
mesh_terms: D000818:Animals; D016923:Cell Death / Q000235:genetics; D003907:Dexamethasone / Q000494:pharmacology; D004195:Disease Models, Animal; D005260:Female; D020869:Gene Expression Profiling / Q000379:methods; D005786:Gene Expression Regulation; D007109:Immunity / Q000235:genetics; D007249:Inflammation / Q000235:genetics; D016676:Macrophages, Alveolar / Q000187:drug effects / Q000276:immunology / Q000502:physiology*; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods; D010587:Phagocytosis / Q000235:genetics; D016720:Pneumocystis Infections / Q000235:genetics* / Q000276:immunology / Q000378:metabolism; D045363:Pneumocystis carinii / Q000502:physiology*; D025341:Principal Component Analysis; D051381:Rats; D017207:Rats, Sprague-Dawley; D015203:Reproducibility of Results; D020133:Reverse Transcriptase Polymerase Chain Reaction; D015398:Signal Transduction / Q000235:genetics
chemical_list: D003907:Dexamethasone