title: Continued discovery of transcriptional units expressed in cells of the mouse mononuclear phagocyte lineage.
abstract: The current RIKEN transcript set represents a significant proportion of the mouse transcriptome but transcripts expressed in the innate and acquired immune systems are poorly represented. In the present study we have assessed the complexity of the transcriptome expressed in mouse macrophages before and after treatment with lipopolysaccharide, a global regulator of macrophage gene expression, using existing RIKEN 19K arrays. By comparison to array profiles of other cells and tissues, we identify a large set of macrophage-enriched genes, many of which have obvious functions in endocytosis and phagocytosis. In addition, a significant number of LPS-inducible genes were identified. The data suggest that macrophages are a complex source of mRNA for transcriptome studies. To assess complexity and identify additional macrophage expressed genes, cDNA libraries were created from purified populations of macrophage and dendritic cells, a functionally related cell type. Sequence analysis revealed a high incidence of novel mRNAs within these cDNA libraries. These studies provide insights into the depths of transcriptional complexity still untapped amongst products of inducible genes, and identify macrophage and dendritic cell populations as a starting point for sampling the inducible mammalian transcriptome.
authors.affiliation: Institute for Molecular Bioscience and ARC Special Research Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland 4072, Australia.
authors.forename: Christine A
authors.initials: CA
authors.lastname: Wells
authors.forename: Timothy
authors.initials: T
authors.lastname: Ravasi
authors.forename: Razvan
authors.initials: R
authors.lastname: Sultana
authors.forename: Ken
authors.initials: K
authors.lastname: Yagi
authors.forename: Piero
authors.initials: P
authors.lastname: Carninci
authors.forename: Hidemasa
authors.initials: H
authors.lastname: Bono
authors.forename: Geoffrey
authors.initials: G
authors.lastname: Faulkner
authors.forename: Yasushi
authors.initials: Y
authors.lastname: Okazaki
authors.forename: John
authors.initials: J
authors.lastname: Quackenbush
authors.forename: David A
authors.initials: DA
authors.lastname: Hume
authors.forename: Paul A
authors.initials: PA
authors.lastname: Lyons
mesh_terms: D000818:Animals; D001854:Bone Marrow Cells / Q000737:chemistry / Q000378:metabolism; D002454:Cell Differentiation; D002478:Cells, Cultured; D030541:Databases, Genetic; D003713:Dendritic Cells / Q000737:chemistry / Q000378:metabolism; D020869:Gene Expression Profiling / Q000379:methods; D008264:Macrophages / Q000737:chemistry / Q000378:metabolism*; D051379:Mice; D008807:Mice, Inbred BALB C; D008809:Mice, Inbred C3H; D008815:Mice, Inbred Strains; D008969:Molecular Sequence Data; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods; D020543:Proteome / Q000235:genetics / Q000502:physiology; D012333:RNA, Messenger / Q000235:genetics / Q000502:physiology; D014158:Transcription, Genetic / Q000235:genetics* / Q000502:physiology
chemical_list: D020543:Proteome; D012333:RNA, Messenger