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E-GEOD-53789 - RNA-sequencing reveals oligodendrocyte and neuronal transcripts in microglia relevant to central nervous system disease

Status
Released on 30 January 2015, last updated on 8 February 2015
Organism
Mus musculus
Samples (10)
Protocols (3)
Description
Expression profiling of distinct central nervous system (CNS) cell populations has been employed to facilitate disease classification and to provide insights into the molecular basis of brain pathology. One important cell type implicated in a wide variety of CNS disease states is the resident brain macrophage (microglia). In these studies, microglia are often isolated from dissociated brain tissue by flow sorting procedures [fluorescence-activated cell sorting (FACS)] or from postnatal glial cultures by mechanic isolation. Given the highly dynamic and state-dependent functions of these cells, the use of FACS or short-term culture methods may not accurately capture the biology of brain microglia. In the current study, we performed RNA-sequencing using Cx3cr1+/GFP labeled microglia isolated from the brainstem of 6-week-old mice to compare the transcriptomes of FACS-sorted versus laser capture microdissection (LCM). While both isolation techniques resulted in a large number of shared (common) transcripts, we identified transcripts unique to FACS-isolated and LCM-captured microglia. In particular, ∼50% of these LCM-isolated microglial transcripts represented genes typically associated with neurons and glia. While these transcripts clearly localized to microglia using complementary methods, they were not translated into protein. Following the induction of murine experimental autoimmune encephalomyelitis, increased oligodendrocyte and neuronal transcripts were detected in microglia, while only the myelin basic protein oligodendrocyte transcript was increased in microglia after traumatic brain injury. Collectively, these findings have implications for the design and interpretation of microglia transcriptome-based investigations. Wildtype and GFP expressing microglia from mouse brainstems were flow sorted or captured by laser microdissection. Differences between the two isolation methods were verified and further examined in neurodegenerative disease models.
Experiment type
RNA-seq of coding RNA 
Contacts
Winnie W Pong <geo@ncbi.nlm.nih.gov>, Anne C Solga, Anthony J Apicelli, David H Gutmann, David L Brody, Elaine R Mardis, Gregory F Wu, Jason Walker, Malachi Griffith, Obi L Griffith, Shinichi F Kohsaka, Todd Wylie, Vincent Magrini
Citation
RNA-sequencing reveals oligodendrocyte and neuronal transcripts in microglia relevant to central nervous system disease. Solga AC, Pong WW, Walker J, Wylie T, Magrini V, Apicelli AJ, Griffith M, Griffith OL, Kohsaka S, Wu GF, Brody DL, Mardis ER, Gutmann DH. , PMID:25258010
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-53789.idf.txt
Sample and data relationshipE-GEOD-53789.sdrf.txt
Additional data (1)E-GEOD-53789.additional.1.zip
Links