The influence of transcriptional orientation on endogenous switch region function (original) (raw)
References
Manis, J.P., Tian, M. & Alt, F.W. Mechanism and control of class-switch recombination. Trends Immunol.23, 31–39 (2002). ArticleCASPubMed Google Scholar
Honjo, T., Kinoshita, K. & Muramatsu, M. Molecular mechanism of class switch recombination: linkage with somatic hypermutation. Annu. Rev. Immunol.20, 165–196 (2002). ArticleCASPubMed Google Scholar
Dunnick, W., Hertz, G.Z., Scappino, L. & Gritzmacher, C. DNA sequences at immunoglobulin switch region recombination sites. Nucleic Acids Res.21, 365–372 (1993). ArticleCASPubMedPubMed Central Google Scholar
Lee, C.G., Kondo, S. & Honjo, T. Frequent but biased class switch recombination in the Sμ flanking regions. Curr. Biol.8, 227–230 (1998). ArticleCASPubMed Google Scholar
Shanmugam, A., Shi, M.J., Yauch, L., Stavnezer, J. & Kenter, A.L. Evidence for class-specific factors in immunoglobulin isotype switching. J. Exp. Med.191, 1365–1380 (2000). ArticleCASPubMedPubMed Central Google Scholar
Ma, L., Wortis, H.H. & Kenter, A.L. Two new isotype-specific switching activities detected for Ig class switching. J. Immunol.168, 2835–2846 (2002). ArticleCASPubMed Google Scholar
Reaban, M.E. & Griffin, J.A. Induction of RNA-stabilized DNA conformers by transcription of an immunoglobulin switch region. Nature348, 342–344 (1990). ArticleCASPubMed Google Scholar
Reaban, M.E., Lebowitz, J. & Griffin, J.A. Transcription induces the formation of a stable RNA-DNA hybrid in the immunoglobulin α switch region. J. Biol. Chem.269, 21850–21857 (1994). CASPubMed Google Scholar
Daniels, G.A. & Lieber, M.R. RNA:DNA complex formation upon transcription of immunoglobulin switch regions: implications for the mechanism and regulation of class switch recombination. Nucleic Acids Res.23, 5006–5011 (1995). ArticleCASPubMedPubMed Central Google Scholar
Dempsey, L.A., Sun, H., Hanakahi, L.A. & Maizels, N. G4 DNA binding by LR1 and its subunits, nucleolin and hnRNP D, A role for G-G pairing in immunoglobulin switch recombination. J. Biol. Chem.274, 1066–1071 (1999). ArticleCASPubMed Google Scholar
Tian, M. & Alt, F.W. Transcription-induced cleavage of immunoglobulin switch regions by nucleotide excision repair nucleases in vitro. J. Biol. Chem.275, 24163–24172 (2000). ArticleCASPubMed Google Scholar
Mizuta, R. et al. Molecular visualization of immunoglobulin switch region RNA/DNA complex by atomic force microscope. J. Biol. Chem.278, 4431–4434 (2003). ArticleCASPubMed Google Scholar
Mussmann, R., Courtet, M., Schwager, J. & Du Pasquier, L. Microsites for immunoglobulin switch recombination breakpoints from Xenopus to mammals. Eur. J. Immunol.27, 2610–2619 (1997). ArticleCASPubMed Google Scholar
Tashiro, J., Kinoshita, K. & Honjo, T. Palindromic but not G-rich sequences are targets of class switch recombination. Int. Immunol.13, 495–505 (2001). ArticleCASPubMed Google Scholar
Luby, T.M., Schrader, C.E., Stavnezer, J. & Selsing, E. The μ switch region tandem repeats are important, but not required, for antibody class switch recombination. J. Exp. Med.193, 159–168 (2001). ArticleCASPubMedPubMed Central Google Scholar
Lutzker, S., Rothman, P., Pollock, R., Coffman, R. & Alt, F.W. Mitogen- and IL-4-regulated expression of germ-line Igγ2b transcripts: evidence for directed heavy chain class switching. Cell53, 177–184 (1988). ArticleCASPubMed Google Scholar
Berton, M.T., Uhr, J.W. & Vitetta, E.S. Synthesis of germ-line γ1 immunoglobulin heavy-chain transcripts in resting B cells: induction by interleukin 4 and inhibition by interferon γ. Proc. Natl. Acad. Sci. USA86, 2829–2833 (1989). ArticleCASPubMedPubMed Central Google Scholar
Xu, M. & Stavnezer, J. Structure of germline immunoglobulin heavy-chain γ1 transcripts in interleukin 4 treated mouse spleen cells. Dev. Immunol.1, 11–17 (1990). ArticleCASPubMedPubMed Central Google Scholar
Rothman, P. et al. Structure and expression of germline immunoglobulin γ3 heavy chain gene transcripts: implications for mitogen and lymphokine directed class-switching. Int. Immunol.2, 621–627 (1990). ArticleCASPubMed Google Scholar
Rothman, P. et al. Structure and expression of germ line immunoglobulin heavy-chain ε transcripts: interleukin-4 plus lipopolysaccharide-directed switching to Cε . Mol. Cell. Biol.10, 1672–1679 (1990). ArticleCASPubMedPubMed Central Google Scholar
Collins, J.T. & Dunnick, W.A. Germline transcripts of the murine immunoglobulin γ2a gene: structure and induction by IFN-γ. Int. Immunol.5, 885–891 (1993). ArticleCASPubMed Google Scholar
Jung, S., Rajewsky, K. & Radbruch, A. Shutdown of class switch recombination by deletion of a switch region control element. Science259, 984–987 (1993). ArticleCASPubMed Google Scholar
Zhang, J., Bottaro, A., Li, S., Stewart, V. & Alt, F.W. A selective defect in IgG2b switching as a result of targeted mutation of the Iγ2b promoter and exon. EMBO J.12, 3529–3537 (1993). ArticleCASPubMedPubMed Central Google Scholar
Bottaro, A. et al. S region transcription per se promotes basal IgE class switch recombination but additional factors regulate the efficiency of the process. EMBO J.13, 665–674 (1994). ArticleCASPubMedPubMed Central Google Scholar
Lorenz, M., Jung, S. & Radbruch, A. Switch transcripts in immunoglobulin class switching. Science267, 1825–1828 (1995). ArticleCASPubMed Google Scholar
Harriman, G.R., Bradley, A., Das, S., Rogers-Fani, P. & Davis, A.C. IgA class switch in Iα exon-deficient mice. Role of germline transcription in class switch recombination. J. Clin. Invest.97, 477–485 (1996). ArticleCASPubMedPubMed Central Google Scholar
Seidl, K.J. et al. An expressed _neo_r cassette provides required functions of the Iγ2b exon for class switching. Int. Immunol.10, 1683–1692 (1998). ArticleCASPubMed Google Scholar
Daniels, G.A. & Lieber, M.R. Strand specificity in the transcriptional targeting of recombination at immunoglobulin switch sequences. Proc. Natl. Acad. Sci. USA.92, 5625–5629 (1995). ArticleCASPubMedPubMed Central Google Scholar
Kinoshita, K., Tashiro, J., Tomita, S., Lee, C.G. & Honjo, T. Target specificity of immunoglobulin class switch recombination is not determined by nucleotide sequences of S regions. Immunity9, 849–858 (1998). ArticleCASPubMed Google Scholar
von Schwedler, U., Jack, H.M. & Wabl, M. Beswitched. The looping out model for immunoglobulin class switching. New Biol.8, 657–662 (1990). Google Scholar
Muramatsu, M. et al. Specific expression of activation-induced cytidine deaminase (AID), a novel member of the RNA-editing deaminase family in germinal center B cells. J. Biol. Chem.274, 18470–18476 (1999). ArticleCASPubMed Google Scholar
Muramatsu, M. et al. Class switch recombination and hypermutation require activation-induced cytidine deaminase (AID), a potential RNA editing enzyme. Cell102, 553–563 (2000). ArticleCASPubMed Google Scholar
Revy, P. et al. Activation-induced cytidine deaminase (AID) deficiency causes the autosomal recessive form of the Hyper-IgM syndrome (HIGM2). Cell102, 565–575 (2000). ArticleCASPubMed Google Scholar
Petersen-Mahrt, S.K., Harris, R.S. & Neuberger, M.S. AID mutates E. coli suggesting a DNA deamination mechanism for antibody diversification. Nature418, 99–103 (2002). ArticleCASPubMed Google Scholar
Weill, J.C. et al. Ig gene hypermutation: a mechanism is due. Adv. Immunol.80, 183–202 (2002). ArticleCASPubMed Google Scholar
Papavasiliou, F.N. & Schatz, D.G. Somatic hypermutation of immunoglobulin genes: merging mechanisms for genetic diversity. Cell109 (Suppl.), S35–S44 (2002). ArticleCASPubMed Google Scholar
Chester, A., Scott, J., Anant, S. & Navaratnam, N. RNA editing: cytidine to uridine conversion in apolipoprotein B mRNA. Biochim. Biophys. Acta.1494, 1–13 (2000). ArticleCASPubMed Google Scholar
Di Noia, J. & Neuberger, M.S. Altering the pathway of immunoglobulin hypermutation by inhibiting uracil-DNA glycosylase. Nature419, 43–48 (2002). ArticleCASPubMed Google Scholar
Rada, C. et al. Immunoglobulin isotype switching is inhibited and somatic hypermutation perturbed in UNG-deficient mice. Curr. Biol.12, 1748–1755 (2002). ArticleCASPubMed Google Scholar
Stavnezer, J. & Bradley, S.P. Does activation-induced deaminase initiate antibody diversification by DNA deamination? Trends Genet.18, 541–543 (2002). ArticleCASPubMed Google Scholar
Storb, U. & Stavnezer, J. Immunoglobulin genes: generating diversity with AID and UNG. Curr Biol.12, R725–R727 (2002). ArticleCASPubMed Google Scholar
Dudley, D.D. et al. Internal IgH class switch region deletions are position-independent and enhanced by AID expression. Proc. Natl. Acad. Sci. USA99, 9984–9989 (2002). ArticleCASPubMedPubMed Central Google Scholar
Nagaoka, H., Muramatsu, M., Yamamura, N., Kinoshita, K. & Honjo, T. Activation-induced deaminase (AID)-directed hypermutation in the immunoglobulin Sμ region: implication of AID involvement in a common step of class switch recombination and somatic hypermutation. J. Exp. Med.195, 529–534 (2002). ArticleCASPubMedPubMed Central Google Scholar
Yancopoulos, G.D. et al. Secondary genomic rearrangement events in pre-B cells: VHDJH replacement by a LINE-1 sequence and directed class switching. EMBO J.5, 3259–3266 (1986). ArticleCASPubMedPubMed Central Google Scholar
Stavnezer, J. et al. Immunoglobulin heavy-chain switching may be directed by prior induction of transcripts from constant-region genes. Proc. Natl. Acad. Sci. USA85, 7704–7708 (1988). ArticleCASPubMedPubMed Central Google Scholar
Sakai, E., Bottaro, A., Davidson, L., Sleckman, B.P. & Alt, F.W. Recombination and transcription of the endogenous Ig heavy chain locus is effected by the Ig heavy chain intronic enhancer core region in the absence of the matrix attachment regions. Proc. Natl. Acad. Sci. USA96, 1526–1531 (1999). ArticleCASPubMedPubMed Central Google Scholar
Sleckman, B.P., Khor, B., Monroe, R. & Alt, F.W. Assembly of productive T cell receptor δ variable region genes exhibits allelic inclusion. J. Exp. Med.188, 1465–1471 (1998). ArticleCASPubMedPubMed Central Google Scholar
Chen, J., Lansford, R., Stewart, V., Young, F. & Alt, F.W. RAG-2-deficient blastocyst complementation: an assay of gene function in lymphocyte development. Proc. Natl. Acad. Sci. USA90, 4528–4532 (1993). ArticleCASPubMedPubMed Central Google Scholar
Hein, K. et al. Processing of switch transcripts is required for targeting of antibody class switch recombination. J. Exp. Med.188, 2369–2374 (1998). ArticleCASPubMedPubMed Central Google Scholar
Radbruch, A., Muller, W. & Rajewsky, K. Class switch recombination is IgG1 specific on active and inactive IgH loci of IgG1-secreting B-cell blasts. Proc. Natl. Acad. Sci. USA83, 3954–3957 (1986). ArticleCASPubMedPubMed Central Google Scholar
Hummel, M., Berry, J.K. & Dunnick, W. Switch region content of hybridomas: the two spleen cell Igh loci tend to rearrange to the same isotype. J. Immunol.138, 3539–3548 (1987). CASPubMed Google Scholar
Winter, E., Krawinkel, U. & Radbruch, A. Directed Ig class switch recombination in activated murine B cells. EMBO J.6, 1663–1671 (1987). ArticleCASPubMedPubMed Central Google Scholar
Schultz, C. et al. Patterns and extent of isotype-specificity in the murine H chain switch DNA rearrangement. J. Immunol.144, 363–370 (1990). CASPubMed Google Scholar
Jung, S., Siebenkotten, G. & Radbruch, A. Frequency of immunoglobulin E class switching is autonomously determined and independent of prior switching to other classes. J. Exp. Med.179, 2023–2026 (1994). ArticleCASPubMed Google Scholar
Ratmeyer, L., Vinayak, R., Zhong, Y.Y., Zon, G. & Wilson, W.D. Sequence specific thermodynamic and structural properties for DNA-RNA duplexes. Biochemistry33, 5298–5304 (1994). ArticleCASPubMed Google Scholar
Yu, K., Chedin, F., Hsieh, C.-L., Wilson, T.E. & Lieber, M.R. R-loops at immunoglobulin class switch regions within the chromosomes of stimulated B cells. Nature Immunology, advance online publication, 7 april 2003 (doi:10.1038/ni919).
Chaudhuri, J., Tian, M., Khuong, C., Chua, K., Pinaud, E. & Alt, F.W. Transcription targeted DNA deamination by the AID antibody diversification enzyme. Nature, in press.