title: An experimentally validated panel of subfamily-specific oligonucleotide primers (V alpha 1-w29/V beta 1-w24) for the study of human T cell receptor variable V gene segment usage by polymerase chain reaction.
abstract: We report here the characterization of a series of T cell receptor (TcR) V alpha or V beta subfamily-specific oligonucleotide primers. Criteria that have guided the design of each oligonucleotide include appropriate thermodynamic parameters as well as differential base-pairing scores with related and unrelated target sequences. The specificity of the oligonucleotides for each V alpha or V beta subfamily was tested by polymerase chain reaction (PCR) on both a series of TcR encoding plasmid DNA and clonal T cell populations. Unexpected cross-reactivities were observed with plasmid cDNA sequences corresponding to unrelated subfamily gene segments. This led to the synthesis of additional series of oligonucleotides to obtain a relevant panel. A series of V alpha 1-w29/V beta 1-w24 TcR subfamily-specific oligonucleotides was eventually selected which generates little, if any, cross-reactivity. The use of C alpha or C beta primers for the amplification of internal positive control templates (i.e. C beta for the V alpha series and C alpha for the V beta series) has been tested in PCR performed with cDNA derived from peripheral blood lymphocytes; it was shown not to alter the amplification of the V subfamily-specific DNA fragments. This panel of oligonucleotides will be helpful in the study of TcRV gene segment usage and, thus, may lead to a better characterization of T cell responses in physiological and pathological situations.
authors.affiliation: Laboratoire d'Hémato-Immunologie, INSERM U333, Institut Gustave-Roussy, Villejuif, France.
authors.forename: C
authors.initials: C
authors.lastname: Genevée
authors.forename: A
authors.initials: A
authors.lastname: Diu
authors.forename: J
authors.initials: J
authors.lastname: Nierat
authors.forename: A
authors.initials: A
authors.lastname: Caignard
authors.forename: P Y
authors.initials: PY
authors.lastname: Dietrich
authors.forename: L
authors.initials: L
authors.lastname: Ferradini
authors.forename: S
authors.initials: S
authors.lastname: Roman-Roman
authors.forename: F
authors.initials: F
authors.lastname: Triebel
authors.forename: T
authors.initials: T
authors.lastname: Hercend
mesh_terms: D001483:Base Sequence; D003429:Cross Reactions; D006801:Humans; D008969:Molecular Sequence Data; D015345:Oligonucleotide Probes; D016133:Polymerase Chain Reaction; D016693:Receptors, Antigen, T-Cell, alpha-beta / Q000235:genetics*; D013601:T-Lymphocytes / Q000276:immunology
chemical_list: D015345:Oligonucleotide Probes; D016693:Receptors, Antigen, T-Cell, alpha-beta