title: Comparison of immunological characteristics of peripheral, splenic and tonsilar naïve B cells by differential gene expression meta-analyses.
abstract: BACKGROUND
  Naïve B cells isolated from peripheral blood, spleen and tonsil are commonly used in human B cell studies. However, little has been written about their possible variations in immunological properties. This study compared differential gene expression in human naive B subsets by meta-analysis using expression data available in Gene Expression Onimbus (GEO).
  
  
  METHODS
  Gene expression files of the Affymetrix Human Genome U133A Array (Affymetrix) were downloaded to collect 21 total array data samples of peripheral naïve B cells (n=10), splenic naïve B cells (n=2), tonsilar naïve B cells (n=3), peripheral memory B cells (n=4) and splenic memory B cells (n=2). Prior to differential gene expression analyses, data were normalized in order to reduce non-biological variation among the datasets.
  
  
  RESULTS
  Comparisons of peripheral naive B cells with their splenic and tonsilar counterparts showed remarkable differences in terms of gene expression (29 and 202 genes, respectively). However, only minor differences were detected between splenic and tonsilar naive B cells (10 genes), consistent with the clustering results classifying both of them as lymphoid naive B cells. Differential gene expression results also implied higher stimulating states of lymphoid naive B cells when compared with peripheral blood naive B cells. These included enhanced expressions of CD27, CR2, EGR1, GADD45B, ICAM1, ICOSLG, IGHA, IL6, MMP9, SAMSN1, SMAD7, TNFAIP3, but reduced HLA-DOB expression.
  
  
  CONCLUSIONS
  Our findings suggest that results generated from peripheral naive B cells may not always be applicable to the biological activities of other lymphoid naïve B cells. Nonetheless, further biological study is warranted.
authors: Division of Allergy and Clinical Immunology, Department of Medicine, Faculty Medicine, Chulalongkorn University, Bangkok, Thailand.
authors: Kaj
authors: K
authors: Chokeshai-u-saha
authors: Cyrille
authors: C
authors: Lepoivre
authors: Luca
authors: L
authors: Grieco
authors: Catherine
authors: C
authors: Nguyen
authors: Kiat
authors: K
authors: Ruxrungtham
mesh_terms: D016175:B-Lymphocyte Subsets / Q000166:cytology / Q000276:immunology / Q000378:metabolism*; D005260:Female; D005786:Gene Expression Regulation / Q000502:physiology*; D015894:Genome, Human / Q000502:physiology; D006801:Humans; D008297:Male; D009928:Organ Specificity / Q000502:physiology; D014066:Palatine Tonsil / Q000166:cytology / Q000276:immunology / Q000378:metabolism*; D013154:Spleen / Q000166:cytology / Q000276:immunology* / Q000378:metabolism*; D059467:Transcriptome