CRISPR/Cas9 Screens Reveal Multiple Layers of B cell CD40 Regulation. 2019

Chang Jiang, and Stephen J Trudeau, and Taek-Chin Cheong, and Rui Guo, and Mingxiang Teng, and Liang Wei Wang, and Zhonghao Wang, and Chiara Pighi, and Carole Gautier-Courteille, and Yijie Ma, and Sizun Jiang, and Chong Wang, and Bo Zhao, and Luc Paillard, and John G Doench, and Roberto Chiarle, and Benjamin E Gewurz
Division of Infectious Diseases, Department of Medicine, Brigham and Women's Hospital, 181 Longwood Avenue, Boston, MA 02115, USA; Department of Microbiology, Harvard Medical School, Boston, MA 02115, USA.

CD40 has major roles in B cell development, activation, and germinal center responses. CD40 hypoactivity causes immunodeficiency whereas its overexpression causes autoimmunity and lymphomagenesis. To systematically identify B cell autonomous CD40 regulators, we use CRISPR/Cas9 genome-scale screens in Daudi B cells stimulated by multimeric CD40 ligand. These highlight known CD40 pathway components and reveal multiple additional mechanisms regulating CD40. The nuclear ubiquitin ligase FBXO11 supports CD40 expression by targeting repressors CTBP1 and BCL6. FBXO11 knockout decreases primary B cell CD40 abundance and impairs class-switch recombination, suggesting that frequent lymphoma monoallelic FBXO11 mutations may balance BCL6 increase with CD40 loss. At the mRNA level, CELF1 controls exon splicing critical for CD40 activity, while the N6-adenosine methyltransferase WTAP negatively regulates CD40 mRNA abundance. At the protein level, ESCRT negatively regulates activated CD40 levels while the negative feedback phosphatase DUSP10 limits downstream MAPK responses. These results serve as a resource for future studies and highlight potential therapeutic targets.

UI MeSH Term Description Entries
D011484 Protein-Arginine N-Methyltransferases Enzymes that catalyze the methylation of arginine residues of proteins to yield N-mono- and N,N-dimethylarginine. This enzyme is found in many organs, primarily brain and spleen. Protein Arginine Methyltransferase,Protein Methylase I,Protein Methyltransferase I,Protein-Arginine N-Methyltransferase,(Myelin Basic Protein)-Arginine N-Methyltransferase,Arginine Methylase,Myelin Basic Protein (Arginine) Methyltransferase,Type I Protein Arginine Methyltransferase,Type I Protein Arginine N-Methyltransferase,Type II Protein Arginine Methyltransferase,Arginine Methyltransferase, Protein,Methyltransferase, Protein Arginine,Protein Arginine N Methyltransferase,Protein Arginine N Methyltransferases,Type I Protein Arginine N Methyltransferase
D004268 DNA-Binding Proteins Proteins which bind to DNA. The family includes proteins which bind to both double- and single-stranded DNA and also includes specific DNA binding proteins in serum which can be used as markers for malignant diseases. DNA Helix Destabilizing Proteins,DNA-Binding Protein,Single-Stranded DNA Binding Proteins,DNA Binding Protein,DNA Single-Stranded Binding Protein,SS DNA BP,Single-Stranded DNA-Binding Protein,Binding Protein, DNA,DNA Binding Proteins,DNA Single Stranded Binding Protein,DNA-Binding Protein, Single-Stranded,Protein, DNA-Binding,Single Stranded DNA Binding Protein,Single Stranded DNA Binding Proteins
D006801 Humans Members of the species Homo sapiens. Homo sapiens,Man (Taxonomy),Human,Man, Modern,Modern Man
D000067879 CELF1 Protein A member of the CELF PROTEINS family which binds GU rich elements (GREs) and CUG-triplet repeats in the 3'UTR of mammalian mRNA transcripts that undergo rapid turnover. It also binds AU-rich elements (AREs or EDEN-like) in the 3'UTR of JUN and FOS mRNAs. Mutations in the human CELF1 gene are associated with MYOTONIC DYSTROPHY type 1. BRUNOL2 Protein,Bruno-Like 2 Protein,CUG Triplet Repeat, RNA-Binding Protein 1,CUGBP, Elav-Like Family Member 1 Protein,CUGBP1 Protein,2 Protein, Bruno-Like,Bruno Like 2 Protein,CUG Triplet Repeat, RNA Binding Protein 1,CUGBP, Elav Like Family Member 1 Protein,Protein, BRUNOL2,Protein, Bruno-Like 2,Protein, CELF1,Protein, CUGBP1
D000429 Alcohol Oxidoreductases A subclass of enzymes which includes all dehydrogenases acting on primary and secondary alcohols as well as hemiacetals. They are further classified according to the acceptor which can be NAD+ or NADP+ (subclass 1.1.1), cytochrome (1.1.2), oxygen (1.1.3), quinone (1.1.5), or another acceptor (1.1.99). Carbonyl Reductase,Ketone Reductase,Carbonyl Reductases,Ketone Reductases,Oxidoreductases, Alcohol,Reductase, Carbonyl,Reductase, Ketone,Reductases, Carbonyl,Reductases, Ketone
D001402 B-Lymphocytes Lymphoid cells concerned with humoral immunity. They are short-lived cells resembling bursa-derived lymphocytes of birds in their production of immunoglobulin upon appropriate stimulation. B-Cells, Lymphocyte,B-Lymphocyte,Bursa-Dependent Lymphocytes,B Cells, Lymphocyte,B Lymphocyte,B Lymphocytes,B-Cell, Lymphocyte,Bursa Dependent Lymphocytes,Bursa-Dependent Lymphocyte,Lymphocyte B-Cell,Lymphocyte B-Cells,Lymphocyte, Bursa-Dependent,Lymphocytes, Bursa-Dependent
D044783 F-Box Proteins A family of proteins that share the F-BOX MOTIF and are involved in protein-protein interactions. They play an important role in the process of protein ubiquition by associating with a variety of substrates and then associating into SCF UBIQUITIN LIGASE complexes. They are held in the ubiquitin-ligase complex via binding to SKP DOMAIN PROTEINS. F-Box Protein,F-Box Domain Protein,F-Box Protein Family,Domain Protein, F-Box,F Box Domain Protein,F Box Protein,F Box Protein Family,F Box Proteins,Protein Family, F-Box,Protein, F-Box,Protein, F-Box Domain
D045744 Cell Line, Tumor A cell line derived from cultured tumor cells. Tumor Cell Line,Cell Lines, Tumor,Line, Tumor Cell,Lines, Tumor Cell,Tumor Cell Lines
D051560 Proto-Oncogene Proteins c-bcl-6 A DNA-binding protein that contains an N-terminal BTB (POZ) DOMAIN and C-terminal CYS2-HIS2 ZINC FINGERS. It represses GENETIC TRANSCRIPTION of target genes by recruiting HISTONE DEACETYLASES. Aberrant Blc-6 expression is associated with certain types of human B-CELL LYMPHOMA. bcl-6 Proto-Oncogene Proteins,c-bcl-6 Protein,c-bcl-6 Proto-Oncogene Proteins,B-Cell Lymphoma 6 Protein,Proto-Oncogene Protein bcl-6,Proto-Oncogene Protein c-bcl-6,Zinc Finger Protein 51,B Cell Lymphoma 6 Protein,Proto Oncogene Protein bcl 6,Proto Oncogene Protein c bcl 6,Proto Oncogene Proteins c bcl 6,Proto-Oncogene Proteins, bcl-6,Proto-Oncogene Proteins, c-bcl-6,bcl 6 Proto Oncogene Proteins,bcl-6, Proto-Oncogene Protein,c bcl 6 Protein,c bcl 6 Proto Oncogene Proteins,c-bcl-6, Proto-Oncogene Proteins
D054637 Dual-Specificity Phosphatases A sub-class of protein tyrosine phosphatases that contain an additional phosphatase activity which cleaves phosphate ester bonds on SERINE or THREONINE residues that are located on the same protein. DUSP Phosphatases,Dual-Specificity Phosphatase,Dual Specificity Phosphatase,Dual Specificity Phosphatases,Phosphatase, Dual-Specificity,Phosphatases, DUSP,Phosphatases, Dual-Specificity

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