Genomic organization of the mouse T-cell receptor β-chain gene family

We have combined three different methods, deletion mapping of T-cell lines, field-inversion gel electrophoresis, and the restriction mapping of a cosmid clone, to construct a physical map of the murine T-cell receptor β-chain gene family. We have mapped 19 variable (Vβ) gene segments and the two clusters of diversity (Dβ) and joining (Jβ) gene segments and constant (Cβ) genes. These members of the β-chain gene family span ~450 kilobases of DNA, excluding one potential gap in the DNA fragment alignments

Fock spaces corresponding to positive definite linear transformations

Suppose $A$ is a positive real linear transformation on a finite dimensional complex inner product space $V$. The reproducing kernel for the Fock space of square integrable holomorphic functions on $V$ relative to the Gaussian measure $d\mu_A(z)=\frac {\sqrt {\det A}} {\pi^n}e^{-{\rm Re}} dz$ is described in terms of the holomorphic--antiholomorphic decomposition of the linear operator $A$. Moreover, if $A$ commutes with a conjugation on $V$, then a restriction mapping to the real vectors in $V$ is polarized to obtain a Segal--Bargmann transform, which we also study in the Gaussian-measure setting

Probabilistic Analysis of Random Clone Restriction Mapping

Several current DNA mapping projects are based on detection of overlaps between cloned DNA molecules. This thesis places the problem of overlap detection in a probabilistic framework by deriving, for each of the relevant overlap types, expressions for the probability that a postulated overlap is correct. In addition, computationally feasible approximations for the probability expressions are developed. These expressions have been implemented and, using the implementations, the validity of both the original and the approximated probability expressions is verified

DNA Restriction Mapping from Random-Clone Data

This report addresses the problem of constructing DNA restriction maps from random-close data produced by cutting the whole DNA structure with restriction enzyme and measuring possibly overlapping segments. Our approach to DNA mapping is based on the overlapping segments that occur between adjacent clones. The shortest common superstring problem (SCS) and the shortest common matching string problem (SCMS) are discussed as abstract computational models of DNA mapping. Since these string problems are NP-complete, we need efficient approximation algorithms to avoid excessive computational complexity. Some greedy algorithms to SCMS are presented along with performance data obtained through simulation

A Family of DNA Sequences is Reproducibly Rearranged in the Somatic Nucleus of \u3cem\u3eTetrahymena\u3c/em\u3e

A small family of DNA sequences Is rearranged during the development of the somatic nucleus in Tetrahymena. The family is defined by 266 bp of highly conserved sequence which restriction mapping, hybridization and sequence analysis have shown is shared by a cloned micronuclear fragment and three sequences which constitute the macronuclear family. Genomic Southern hybridization experiments indicate there are five members of the family in micronuclear DNA. All of the family members are present in whole genome homozygotes and are therefore nonallellic. The three macronuclear sequences are all present in clonal cell lines and are reproducibly generated in every developing macronucleus. The rearrangement event begins 14 hours after conjugation is initiated and is nearly completed by 16 hours

Restriction mapping and infectivity of cloned geminivirus DNA

Includes bibliographical references.The bipartite ‘geminivirus -Squash Leaf Curl Virus (SLCV) has been the subject of several recent studies. Occuring in several strains, the strain known as SLCV-C is the object of this study. Since the virus is familiar to the discipline of plant virology but has not been largely considered in an experimental capacity when present in this isolate, this study endeavored to determine to which of the previously-studied strains SLCV-C appears most similar. Major aspects of the study were concerned with the determination of the physical nature of the strain, including the construction of a restriction endonuclease map and a test of the spectrum of the species to which SLCV-C proves infectious. Plasmids containing the cloned DNA of SLCV-C were isolated and purified from long-term storage, and cleaved with eighteen available restriction endonucleases such that an accurate restriction map could be produced. After a dimeric clone of the virus was produced to facilitate infection of plant tissues by rolling-circle replication, infectivity assays were performed. The results of the restriction map and infectivity assays with subsequent southern analysis show that SLCV-C possesses similar restriction sites and infects tissues in a capacity and range most similar to SLCV-R, a narrow-host-range strain characterized in previous studies.B.S. (Bachelor of Science

Human Papillomaviruses in Buschke-Lowenstein Tumors: Physical State of the DNA and Identification of a Tandem Duplication in the Noncoding Region of a Human Papillomavirus 6 Subtype

Six Buschke-Löwenstein tumors, i.e., highly differentiated squamous cell tumors of the genital region, were shown to contain human papillomavirus 6 (HPV 6) or HPV 11 genomes. The viral DNA was found in an episomal state, including a very small fraction of circular oligomers. HPV 6a and HPV 6d genomes were cloned from two of the tumors. Comparison with HPV 6b, cloned from a benign genital wart (E. -M. de Villiers, L. Gissmann, and H. zur Hausen, J. Virol. 40:932-935, 1981) by restriction mapping and partial sequence analysis, revealed a very high degree of homology with the different HPV 6 subtypes. A tandem duplication of 459 base pairs within the noncoding region of the genome was found in the new subtype HPV 6d. This structural rearrangement in a region containing the putative control elements for early gene transcription might influence the biological potential of that virus. No evidence for rearrangement of this region was found in the HPV DNA from the five other tumors