Hepatitis C virus replication in mice with chimeric human livers.

Lack of a small animal model of the human hepatitis C virus (HCV) has impeded development of antiviral therapies against this epidemic infection. By transplanting normal human hepatocytes into SCID mice carrying a plasminogen activator transgene (Alb-uPA), we generated mice with chimeric human livers. Homozygosity of Alb-uPA was associated with significantly higher levels of human hepatocyte engraftment, and these mice developed prolonged HCV infections with high viral titers after inoculation with infected human serum. Initial increases in total viral load were up to 1950-fold, with replication confirmed by detection of negative-strand viral RNA in transplanted livers. HCV viral proteins were localized to human hepatocyte nodules, and infection was serially passaged through three generations of mice confirming both synthesis and release of infectious viral particles. These chimeric mice represent the first murine model suitable for studying the human hepatitis C virus in vivo.

A quantitative competitive PCR assay for the covalently closed circular form of the duck hepatitis B virus.

A crucial step in the establishment and maintenance of a hepadnavirus infection is the formation of a pool of covalently closed circular viral genomes in the nucleus. Changes in the size of this pool occur when an infection is established, when acute infections are resolved, and when chronic infections are treated with antiviral drugs. However, the lack of a quantitative assay for the cccDNA form of the virus has hampered study of the biology of this replication intermediate. In response to this need we have devised a sensitive and accurate competitive PCR assay that is highly selective for the cccDNA form of the duck hepatitis B virus. Since only small amounts of DNA are needed for the assay, cccDNA pool sizes can be monitored in live animals using DNA derived from needle biopsies of infected liver.

The induction by estrogen of rat alpha 2u-globulin gene expression in mouse L-cells.

Expression of the rat alpha 2u-globulin gene family is regulated in the adult male liver by a number of hormones, including growth hormone, thyroid hormone and several steroids. Upon injection into ovariectomized females, estrogens first induce alpha 2u-globulin expression and then suppress this gene after several days of hormone administration. To study this phenomenon, we developed a mouse L-cell line that expressed the human estrogen receptor. High levels of rat alpha 2u-globulin transcript were induced in stable transfectants of this line carrying a cloned alpha 2u-globulin gene, following exposure to 17 beta-estradiol. Since this induction was inhibited by cycloheximide, the response to estrogen, as to other steroids, appears to be secondary. Using genes with variously deleted 5'-upstream regions, sequences responsible for this induction were located between -730 bp and -223 bp relative to the start of transcription. Examination of the DNA in this region revealed that an estrogen receptor element was located at -590 bp in an area that is highly conserved in most known alpha 2u-globulin genes. Administration of both dexamethasone and estrogen produced a synergistic effect in this system. The induction of alpha 2u-globulin RNA by estrogen in L-cells may re-capitulate the initial response to estrogen in vivo, and therefore represents a good model system to seek the identity of the other factors required to effect full induction.

Analysis of an enhancer trap expressed in regenerating Drosophila imaginal discs.

In Drosophila, imaginal discs are the undifferentiated larval precursors of the pattern of epidermal and sensory neural cells in each adult segment. Although cell fates are already specified by late third instar, disc fragments can either regenerate or duplicate after growth in culture. The outcome depends on signaling between cells across the healed wound and involves a redeployment of the expression patterns of selector genes and other disc pattern genes. We recently used the enhancer-trap method to screen for such genes that are expressed ectopically at the wound-heal site in imaginal discs undergoing regeneration. Here we report the cloning by plasmid rescue of transcribed sequences adjacent to one such enhancer-trap insertion. Using Northern analysis and in situ hybridization we show that one transcript is expressed in the embryo and in imaginal discs in a pattern similar to that of the enhancer trap. We also, by imprecise excision of the enhancer-trap insertion, generated a series of flanking deletions that were mapped using Southern analysis and complementation.

Identification of nuclear proteins that bind to the glucocorticoid regulatory region of a rat alpha 2u-globulin gene.

The induction of rat alpha 2u-globulin by glucocorticoids is a secondary response to the hormone, that is protein synthesis is absolutely required for induction. Using the DNase I protection assay, we have identified three proteins present in rat liver nuclei that bind in or near the regulatory region of a cloned alpha 2u-globulin gene. One protein which we term alpha 2u-globulin nuclear factor 1 (alpha 2uNF1), binds to precisely the sequence we have previously shown to be required for hormonal induction. Genes containing linker-scanning mutations in this region show diminished binding to this nuclear factor and display greatly reduced or abolished glucocorticoid response. alpha 2uNF1 was detected in nuclei from several sources, and its level is apparently unaffected by glucocorticoids. Its recognition sequence is unlike those of previously reported transcription factors. We detect two other proteins, alpha 2uNF2 and alpha 2uNF3, that bind near the alpha 2u-globulin regulatory region. A mutant alpha 2u-globulin promoter which does not bind alpha 2uNF2 shows increased inducibility by glucocorticoids in transfected mouse L-cells. The binding of alpha 2uNF3 is not required for alpha 2u-globulin induction by the hormone.

Nucleotide sequences required for the regulation of a rat alpha 2u-globulin gene by glucocorticoids.

alpha 2u-Globulin is a rat protein of as yet unknown function whose synthesis can be induced by glucocorticoids and several other hormones. Induction by glucocorticoids is a secondary response to the hormone: protein synthesis is required before the hormone can exert its stimulatory effect on alpha 2u-globulin transcription. We have used the linker-scanning mutagenesis procedure, followed by transfer of the mutant genes into mouse L-cells for analysis of their phenotype, to determine sequences within a cloned alpha 2u-globulin promoter that are required for its regulation by glucocorticoids. Mutations between positions -115 and -160 abolish or greatly reduce the inducibility of alpha 2u-globulin by the hormone. Mutations just upstream from this region, between positions -177 and -220, have an opposite effect; they increase induction two- to fourfold.

The nucleotide sequence of tRNAVal3a and tRNAVal3b from Drosophila melanogaster.

The nucleotide sequences of two valine tRNA's of Drosophila melanogaster are the following: tRNAVal3a, (sequence in text) tRNAVal3b, (sequence in text) tRNAVal3a shows greater similarity to prokaryotic and eukaryotic organelle tRNAVal's than does tRNAVal3b.

Drosophila melanogaster tRNAVal3b genes and their allogenes.

Drosophila tRNAVal3b genes have been analyzed with respect to their nucleotide sequence and in vitro transcription efficiency. Plasmid pDt78R contains a single tRNA gene derived from the major tRNAVal3b gene cluster at chromosome band 84D. Its sequence corresponds to that of the tRNAVal3b. Two other plasmids, pDt41R and pDt48, each contain a tRNAVal3b-like gene from the minor tRNAVal3b gene cluster at chromosome bands 90BC. They contain the expected CAC anticodon, but their sequence differs from the tRNA at four positions. In homologous cell-free extracts, the tRNAVal3b variant genes in pDt41R and pDt48 are transcribed an order of magnitude more efficiently than the tRNAVal3b gene in pDt78R. However, the variant genes do not appear to contribute significantly to the in vivo tRNA pool [Larsen et al.: Mol. Gen. Genet. 185 (1982) 390-396]. We propose the term allogenes to describe families of related DNA sequences that may code for variant forms of a standard tRNA isoaccepting species.

The structures of genes hybridizing with tRNA4Val from Drosophila melanogaster.

Segments of cloned Drosophila DNA from four recombinant plasmids that hybridize with tRNA4Val have been sequenced. The segments from pDt92R and pDt120R that hybridize to 90C on the third polytene chromosome appear to be either repeats or alleles. They contain one structural gene each of identical sequence but differ at eight sites in 506 base pairs. The structural genes differ at four sites from the sequence expected from that of tRNA4Val. A third plasmid, pDt14, which hybridizes to 89BC on the third chromosome, also contains a structural gene with the same sequence as those in pDt92R and pDt120R. In addition, pDt14 has a gene for tRNA2Phe 214 base pairs upstream and with the same polarity as the tRNA4Val gene. The tRNA2Phe gene contains a 23-base pair segment identical with the corresponding segment in the tRNA4Val genes except for one base pair. The fourth plasmid investigated, pDt55, hybridizes to 70BC. It contains two tRNA4Val genes 525 base pairs apart with opposite polarity. These genes have identical sequences, which corresponds to that expected from the sequence of tRNA4Val. There is no evidence that the first three tRNA4Val genes are expressed at any stage during the development of Drosophila.

The nucleotide sequence of tRNA4Val of Drosophila melanogaster. Chloroacetaldehyde modification as an aid to RNA sequencing.

The nucleotide sequence of tRNA4Val from Drosophila melanogaster was determined to be pGUUUmCCGUm1GGUG psi AGCGGDU(acp3U)AUCACA psi CUGCCmUIACAm5CGCAGAAGm7GCCCCCGGT psi CGm1AUCCCGGGCGGAAACACCA. It is probable that residue C 49 is modified to m5C. The use of tRNA modified with chloroacetaldehyde to overcome secondary structure problems in sequencing is described.

Hybridization of tRNAs of Drosophila melanogaster to the region of the 5S RNA genes of the polytene chromosomes.

We have previously reported that four tRNAs of Drosophila melanogaster randomly labeled with iodine-125 hybridize in part to the 56EF region of polytene chromosomes where 5S RNA genes occur. In the presence of a 100-fold excess of unlabeled 5S RNA no hybridization of randomly labeled 125I-tRNA Asp2 gamma occurred at 56EF although hybridization elsewhere was not affected. In addition, tRNAAsp2 gamma labeled by introducing 125I-5-iodocytidylyl residues into the 3'-CCA end with tRNA nucleotidyl transferase did not hybridize to 56EF but did hybridize to other sites. The hybridization of tRNALys2, tRNA3Gly and tRNAMet3 at 56EF was not eliminated by a 25 to 100-fold excess of unlabeled 5S RNA. When these tRNAs were labeled at the -CCA terminus they hybridized to 56EF as well as to their other sites with the exception that terminally labeled tRNALys2 no longer hybridized to 62A. The hybridization of the latter three species of tRNA to the region of the 5S genes, amongst other sites, is confirmed. The previously observed hybridization of tRNAAsp2 gamma in this region appears to have been due to contamination of the tRNA sample with traces of material derived from 5S RNA.

The purification and properties of valine tRNAs of Drosophila melanogaster.

The valine transfer ribonucleic acids of Drosophila melanogaster have been purified by column chromatography on BD-cellulose, Sepharose 6B, and RPC-5. Three major species were analyzed for base composition and coding properties. Valyl-tRNAVal3a binds strongly to ribosomes in the presence of GUA and to a lesser extent with GUU and GUG. Valyl-tRNAVal3b binds strongly in the presence of GUG and very poorly if at all with the other three triplets whereas valvyl-tRNAVal4, which contains inosine, binds strongly in the presence of GUU, GUC, and GUA and weakly with GUG.