Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Microarray studies on effect of Pneumocystis carinii infection on global gene expression in alveolar macrophages

ABSTRACT: With a filter of false-discovery rate less than 0.1 and fold change greater than 1.5, 115 genes were found to be up- and 137 were down-regulated in alveolar macrophages during Pneumocystis carinii infection. Total RNA samples from 4 each of normal, dexamethasone-treated, and Pneumocystis carinii-infected Sprague-Dawley rats were analyzed by the Affymetrix GeneChip RG-U34A

ORGANISM(S): Rattus norvegicus

SUBMITTER: Chao-Hung Lee

PROVIDER: E-GEOD-20149 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Publications

Microarray studies on effects of Pneumocystis carinii infection on global gene expression in alveolar macrophages.

Cheng Bi-Hua BH Liu Yunlong Y Xuei Xiaoling X Liao Chung-Ping CP Lu Debao D Lasbury Mark E ME Durant Pamela J PJ Lee Chao-Hung CH

BMC microbiology 20100408

<h4>Background</h4>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 a ...[more]

PMID: 20377877

Similar Datasets

Project description:Pneumocystis pneumonia is the most common serious opportunistic infection in patients with HIV/AIDS. Furthermore, Pneumocystis pneumonia is a feared complication of the immunosuppressive drug regimens used to treat autoimmunity, malignancy, and post-transplantation rejection. With an increasing at-risk population, there is a strong need for novel approaches to discover diagnostic and vaccine targets. There are multiple challenges to finding these targets, however. First, Pneumocystis has a largely unannotated genome. To address this, we evaluated each protein encoded within the Pneumocystis genome to that of other fungi using NCBI Blast. Second, Pneumocystis relies on a multiphasic life cycle, as both the transmissible form, the ascus, and the replicative form, the troph, reside within the alveolar space of the host. Towards that end, we purified asci and trophs from Pneumocystis murina and utilized transcriptomics to identify differentially regulated genes. Two such genes, Arp9 and Sp, are differentially regulated in the ascus and the troph, respectively, and can be utilized to characterize the state of the Pneumocystis life cycle in vivo. Gsc1, a β-1,3-glucan synthase with a large extracellular domain previously identified using surface proteomics, was more highly expressed on the ascus form of Pneumocystis. GSC-1 ectodomain immunization generated a strong antibody response capable of recognizing the surface of the Pneumocystis asci. GSC-1 ectodomain immunization was also capable of reducing ascus burden following primary challenge with Pneumocystis murina. Finally, mice immunized with the GSC-1 ectodomain had limited burden following natural transmission of Pneumocystis using a co-housing model. Pneumocystis asci and trophs were separated via flow cytometry and the transcriptome was sequenced, allowing to further understand the differential expression of various RNA transcripts. These data can be mined for life-form specific diagnostics and therapeutic targets.

Dataset Information

Microarray studies on effect of Pneumocystis carinii infection on global gene expression in alveolar macrophages

Publications

Microarray studies on effects of Pneumocystis carinii infection on global gene expression in alveolar macrophages.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets