A5006850722- Bacteriophages and microbial interactions
- Microbial Community Ecology and Physiology
- Genomics and Phylogenetic Studies
- Cytomegalovirus and herpesvirus research
- Carbohydrate Chemistry and Synthesis
- Protist diversity and phylogeny
- Glycosylation and Glycoproteins Research
- Viral gastroenteritis research and epidemiology
- RNA and protein synthesis mechanisms
- CRISPR and Genetic Engineering
- Insect symbiosis and bacterial influences
- Virology and Viral Diseases
- Environmental DNA in Biodiversity Studies
- Ethnobotanical and Medicinal Plants Studies
- Rabies epidemiology and control
- Poxvirus research and outbreaks
- RNA regulation and disease
- Plant Virus Research Studies
- Transport Systems and Technology
- Freshwater macroinvertebrate diversity and ecology
- RNA modifications and cancer
- Infrastructure Maintenance and Monitoring
- Botanical Research and Applications
- Canadian Policy and Governance
- Asphalt Pavement Performance Evaluation
University of Nebraska–Lincoln
2020-2021
Nebraska Wesleyan University
2010-2020
Abstract Chlorella variabilis NC64A, a unicellular photosynthetic green alga (Trebouxiophyceae), is an intracellular photobiont of Paramecium bursaria and model system for studying virus/algal interactions. We sequenced its 46-Mb nuclear genome, revealing expansion protein families that could have participated in adaptation to symbiosis. NC64A exhibits variations GC content across genome correlate with global expression level, average intron size, codon usage bias. Although species been...
Abstract Background Giant viruses in the genus Chlorovirus (family Phycodnaviridae ) infect eukaryotic green microalgae. The prototype member of genus, Paramecium bursaria chlorella virus 1, was sequenced more than 15 years ago, and to date there are only 6 fully chloroviruses public databases. Presented here draft genome sequences 35 additional (287 – 348 Kb/319 381 predicted protein encoding genes) collected across globe; they one three different algal species. These new data allowed us...
The 331-kbp chlorovirus Paramecium bursaria chlorella virus 1 (PBCV-1) genome was resequenced and annotated to correct errors in the original 15-year-old sequence; 40 codons considered minimum protein size of an open reading frame. PBCV-1 has 416 predicted protein-encoding sequences 11 tRNAs. A proteome analysis also conducted on highly purified virions using two mass spectrometry-based protocols. spectrometry-derived data were compared its host Chlorella variabilis NC64A proteomes....
Nucleocytoplasmic large DNA viruses (NCLDVs) are characterized by genomes that often encode proteins not commonly found in viruses. Two species this group Acanthocystis turfacea chlorella virus 1 (ATCV-1) (family Phycodnaviridae, genus Chlorovirus) and Acanthamoeba polyphaga mimivirus Mimiviridae), known as mimivirus. ATCV-1 other chlorovirus members enzymes involved the synthesis glycosylation of their structural proteins. In study, we identified three responsible for sugar L-rhamnose: two...
ABSTRACT Paramecium bursaria chlorella virus 1 (PBCV-1), a member of the family Phycodnaviridae , is large double-stranded DNA, plaque-forming that infects unicellular green alga Chlorella sp. strain NC64A. The 330-kb PBCV-1 genome predicted to encode 365 proteins and 11 tRNAs. To monitor global transcription during replication, microarray containing 50-mer probes protein-encoding genes (CDSs) was constructed. Competitive hybridization experiments were conducted by using cDNAs from...
Abstract N‐glycosylation is a fundamental modification of proteins and exists in the three domains life some viruses, including chloroviruses, for which new type core N‐glycan herein described. This structure, common to all pentasaccharide with β‐glucose linked an asparagine residue not located typical sequon N‐X‐T/S. The glucose terminal xylose unit hyperbranched fucose, turn substituted galactose second residue. third position fucose always rhamnose, semiconserved element because its...
GDP-d-mannose 4,6-dehydratase (GMD) is a key enzyme involved in the synthesis of 6-deoxyhexoses prokaryotes and eukaryotes. Paramecium bursaria chlorella virus-1 (PBCV-1) encodes functional GMD, which unique among characterized GMDs because it also has strong stereospecific NADPH-dependent reductase activity leading to GDP-d-rhamnose formation (Tonetti, M., Zanardi, D., Gurnon, J., Fruscione, F., Armirotti, A., Damonte, G., Sturla, L., De Flora, Van Etten, J.L. (2003) J. Biol. Chem. 278,...
ABSTRACT Superoxide dismutases (SODs) are metalloproteins that protect organisms from toxic reactive oxygen species by catalyzing the conversion of superoxide anion to hydrogen peroxide and molecular oxygen. Chlorovirus PBCV-1 encodes a 187-amino-acid protein resembles Cu-Zn SOD with all conserved amino acid residues for binding copper zinc (named cvSOD). cvSOD has an internal Met results in 165-amino-acid tcvSOD). Both tcvSOD recombinant proteins inhibited nitroblue tetrazolium reduction...
Significance Reproduction and growth of viruses depend on successful encounters with appropriate hosts. However, some hosts are difficult to encounter. In particular, chloroviruses cannot reach their target zoochlorellae hosts, because endosymbionts, living inside the cell a protist that protects from chlorovirus. The host is subject predation, we show copepods foraging zoochlorellae-bearing protists can disrupt mutualism pass endosymbiontic through guts, exposing them chloroviruses. this...
Significance The chloroviruses are unusual because they predicted to encode most, if not all, of the machinery synthesize glycans attached their major capsid proteins. Here we show that two virus-encoded proteins A064R and A061L functionally active. has three domains: first GTs third domain is a methyltransferase. methyltransferase activity. action these enzymes produce fragment 2,3-di-O-methyl-α- l -Rha-(1→2)-β- -Rha, which part complex N-linked glycan virus protein. 2 member new GT family....
Chloroviruses are unusual among viruses infecting eukaryotic organisms in that they must, like bacteriophages, penetrate a rigid cell wall to initiate infection. Chlorovirus PBCV-1 infects its host, Chlorella variabilis NC64A by specifically binding and degrading the of host at point contact virus-packaged enzyme(s). However, does not use any five previously characterized virus-encoded polysaccharide enzymes digest during virus entry because none packaged virion. A search for another...
Segregation of hot-mix asphalt (HMA) has been associated with poor pavement performance. As a result, nondestructive test method that could quickly identify segregation and be easily included in field testing would useful to agencies. A study was conducted four HMA mixtures five levels segregation. All for each mix were characterized by gradation, content, density, air voids. The segregated mixes tested an permeameter nuclear moisture/density gauge. In addition, thermal imaging equipment...
ABSTRACT The chlorovirus PBCV-1, like many large double-stranded DNA-containing viruses, contains several genes that encode putative proteins involved in nucleotide biosynthesis. This report describes the characterization of PBCV-1 dCMP deaminase, which produces dUMP, a key intermediate synthesis dTTP. As predicted, recombinant protein has deaminase activity is activated by dCTP and inhibited Unexpectedly, however, viral enzyme also activity, producing dUTP. Typically, these two reactions...
Molecular analysis of biological specimens usually requires extraction high-molecular weight DNA free foreign contaminants. was extracted from black flies at different life stages that had been preserved by 4 methods: larvae and adults in ethanol, Carnoy's solution, on card-points, hand-swatted sun-dried. Using specific primers for the mitochondrial ND4 gene, a 257-bp amplicon obtained card-point mounting, sun-drying. Successful amplification often required dilutions > or = 1:20 (< 1-10 ng)....
The structures of the four N-linked glycans from prototype chlorovirus PBCV-1 major capsid protein do not resemble any other in three domains life. All known chloroviruses and antigenic variants (or mutants) share a unique conserved central glycan core consisting five sugars, except for mutant virus P1L6, which has sugars. A combination genetic structural analyses indicates that coded by gene a111/114r, all chloroviruses, is glycosyltransferase with putative approximately 300 amino acids...
Larvae of the black fly morphospecies Simulium vittatum from Colorado, Montana, Nebraska, and New Hampshire were cytologically identified as either IS-7 or IIIL-1 cytospecies. DNA was PCR amplified cytotyped larvae using eight 10-mer primers, labeled with 33 P, run on polyacrylamide gels. The entire data set 96 amplicons produced incomplete separation two cytospecies when subjected to neighbor-joining maximum parsimony analyses. However, analyzed within geographical regions, separate species...
Abstract N‐glycosylation is a fundamental modification of proteins and exists in the three domains life some viruses, including chloroviruses, for which new type core N‐glycan herein described. This structure, common to all pentasaccharide with β‐glucose linked an asparagine residue not located typical sequon N‐X‐T/S. The glucose terminal xylose unit hyperbranched fucose, turn substituted galactose second residue. third position fucose always rhamnose, semiconserved element because its...
Abstract The lack of an instructional definition bioinformatics delays its effective integration into biology coursework. Using iterative process, our team biologists, a mathematician/computer scientist, and bioinformatician together with educational evaluation assessment specialist, developed the discipline: Bioinformatics is “an interdisciplinary field that concerned development application algorithms analyze biological data to investigate structure function polymers their relationships...
Viruses rely on their host's translation machinery for the synthesis of own proteins. Problems belie viral when host has a codon usage bias (CUB) that is different from an infecting virus due to differences in GC content between and genomes. Here, we examine hypothesis chloroviruses adapted CUB by acquisition selection tRNAs at least partially favor CUB. The genomes 41 comprising three clades, each algal host, have been sequenced, assembled annotated. All viruses not only encode tRNAs, but...