The chicken alphaherpesvirus infectious laryngotracheitis virus (ILTV) exhibits several unique genetic features including an internal inversion of a conserved part of the unique long genome region. At one end, this inversion is preceded by a cluster of five open reading frames (ORFs) of 335-411 codons, designated ORF A to ORF E, that are not present in any other known herpesvirus genome. In thi...

Human herpesvirus 8 (HHV-8) is likely to be involved in the pathogenesis of Kaposi's sarcoma (KS) and body cavity-based lymphomas (BCBLs). The HHV-8 genome is primarily in a latent state in BCBL-derived cell lines like BCBL-1, but lytic replication can be induced by phorbol esters (R. Renne, W. Zhang, B. Herndier, M. McGrath, N. Abbey, D. Kedes, and D. E. Ganem, Nat. Med. 2:342-346, 1996). A 35...

Our long term goal is to determine the role that pMGA hemagglutinins play in Mycoplasma gallisepticum F-strain (termed as F-strain for brevity) persistence in poultry. To do this however, we first had to identify the pMGA genes expressed by an isolate of the F-strain. To identify F-strain pMGA genes, a genomic library was constructed in bacteriophage lambda and screened with polyclonal antisera...

We examined bovine papillomavirus type 1 (BPV-1) DNAs mutated in the E2 open reading frame (ORF) to determine their ability (i) to transform C127 cells and (ii) to remain extrachromosomal in transfected cells. Results obtained with deletion mutants and insertion mutants containing a linker with translational termination codons in all possible reading frames indicated that an E2 ORF gene product...

In a large scale EST (expressed sequence tag) or cDNA sequencing project, it is often desirable to know whether the ESTs identify genes of interest and whether the cloned cDNAs include intact coding regions (are of full-length). In this work, we present two Perl tools, TargetFinder and Annotator. TargetFinder automates the identification of full-length cDNAs from assembled EST sequences includi...

A subgenomic DNA has been isolated from wheat tissue infected with a Swedish isolate of wheat dwarf virus and cloned. Restriction endonuclease analysis and nucleotide sequence determination indicated that the subgenomic DNA (1472 nucleotides) was derived from the genomic DNA (2749 nucleotides) by two separate deletions. The subgenomic DNA had lost open reading frames (ORFs) encoding the virus c...

ABSTRACT The genome of Grapevine leafroll-associated virus-5 (GLRaV-5) was cloned, and the sequence of 4766 nt was determined. Degenerate oligonucleotide primers designed from the conserved closterovirus heat shock 70 protein (HSP 70) homologue were used to obtain viral-specific sequences to anchor the cloning of the viral RNA with a genomic walking approach. The partial nucleotide (nt) sequenc...

Eukaryotic cells rapidly reduce protein synthesis in response to various stress conditions. This can be achieved by the phosphorylation-mediated inactivation of a key translation initiation factor, eukaryotic initiation factor 2 (eIF2). However, the persistent translation of certain mRNAs is required for deployment of an adequate stress response. We carried out ribosome profiling of cultured hu...

Complete nucleotide sequences, precise endpoints and coding potential of several 3.0-kilobase mitochondrial DNA (mtDNA) repeating units derived from two isofemale lineages of the mermithid nematode Romanomermis culicivorax have been determined. Endpoint analysis has allowed us to infer deletion and inversion events that most likely generated the present day repeat configuration. Each amplified ...