Transfection with replicating DNA from the temperate Bacillus bacteriophage ϕ105 and with T4-ligase treated ϕ105 DNA: The importance in transfection of being longer than genome-length

1978 ◽  
Vol 163 (1) ◽  
pp. 7-15 ◽  
Author(s):  
Jan-Ingmar Flock
Keyword(s):  
Genome Length ◽  
Bacteriophage Φ105

scholarly journals Infectious Transcripts from Cloned Genome-Length cDNA of Porcine Reproductive and Respiratory Syndrome Virus

1998 ◽  
Vol 72 (1) ◽  
pp. 380-387 ◽  
Author(s):  
J. J. M. Meulenberg ◽  
J. N. A. Bos-de Ruijter ◽  
R. van de Graaf ◽  
G. Wensvoort ◽  
R. J. M. Moormann
Keyword(s):  
Cdna Clone ◽  
De Novo ◽  
Infectious Clone ◽  
Full Length ◽  
Respiratory Syndrome Virus ◽  
Cdna Clones ◽  
Genome Length ◽  
Full Length Cdna ◽  
Lung Macrophages ◽  
Growth Properties

ABSTRACT The 5′-terminal end of the genomic RNA of the Lelystad virus isolate (LV) of porcine reproductive and respiratory syndrome virus was determined. To construct full-length cDNA clones, the 5′-terminal sequence was ligated to cDNA clones covering the complete genome of LV. When RNA that was transcribed in vitro from these full-length cDNA clones was transfected into BHK-21 cells, infectious LV was produced and secreted. The virus was rescued by passage to porcine alveolar lung macrophages or CL2621 cells. When infectious transcripts were transfected to porcine alveolar lung macrophages or CL2621 cells, no infectious virus was produced due to the poor transfection efficiency of these cells. The growth properties of the viruses produced by BHK-21 cells transfected with infectious transcripts of LV cDNA resembled the growth properties of the parental virus from which the cDNA was derived. Two nucleotide changes leading to a unique PacI restriction site directly downstream of the ORF7 gene were introduced in the genome-length cDNA clone. The virus recovered from this mutated cDNA clone retained the PacI site, which confirmed the de novo generation of infectious LV from cloned cDNA. These results indicate that the infectious clone of LV enables us to mutagenize the viral genome at specific sites and that it will therefore be useful for detailed molecular characterization of the virus, as well as for the development of a safe and effective live vaccine for use in pigs.

scholarly journals Genome Sequences of 20 Bacteriophages Isolated on Gordonia terrae

2020 ◽  
Vol 9 (3) ◽  
Author(s):  
Welkin H. Pope ◽  
Kristen A. Butela ◽  
Rebecca A. Garlena ◽  
Deborah Jacobs-Sera ◽  
Daniel A. Russell ◽  
...  
Keyword(s):  
Sequence Diversity ◽  
Genome Length ◽  
Genome Sequences ◽  
Content Type

We report here the sequences of 20 bacteriophages isolated on Gordonia terrae 3612. These phages span considerable sequence diversity, represent 12 clusters and a singleton genome, and range in genome length from 16.2 kbp to 151.3 kbp. Phages Pupper and SCentae are the first reported Myoviridae phages of Gordonia spp.

scholarly journals Evolutionary Trends in the Mitochondrial Genome of Archaeplastida: How Does the GC Bias Affect the Transition from Water to Land?

Plants ◽  
2020 ◽  
Vol 9 (3) ◽  
pp. 358
Author(s):  
Joan Pedrola-Monfort ◽  
David Lázaro-Gimeno ◽  
Carlos G. Boluda ◽  
Laia Pedrola ◽  
Alfonso Garmendia ◽  
...  
Keyword(s):  
Mitochondrial Genome ◽  
Evolutionary Biology ◽  
Repetitive Sequences ◽  
Gc Content ◽  
Nuclear Genome ◽  
Nuclear Ribosomal Dna ◽  
Sequence Evolution ◽  
Evolutionary Trends ◽  
Genome Length ◽  
Evolutionary Patterns

Among the most intriguing mysteries in the evolutionary biology of photosynthetic organisms are the genesis and consequences of the dramatic increase in the mitochondrial and nuclear genome sizes, together with the concomitant evolution of the three genetic compartments, particularly during the transition from water to land. To clarify the evolutionary trends in the mitochondrial genome of Archaeplastida, we analyzed the sequences from 37 complete genomes. Therefore, we utilized mitochondrial, plastidial and nuclear ribosomal DNA molecular markers on 100 species of Streptophyta for each subunit. Hierarchical models of sequence evolution were fitted to test the heterogeneity in the base composition. The best resulting phylogenies were used for reconstructing the ancestral Guanine-Cytosine (GC) content and equilibrium GC frequency (GC*) using non-homogeneous and non-stationary models fitted with a maximum likelihood approach. The mitochondrial genome length was strongly related to repetitive sequences across Archaeplastida evolution; however, the length seemed not to be linked to the other studied variables, as different lineages showed diverse evolutionary patterns. In contrast, Streptophyta exhibited a powerful positive relationship between the GC content, non-coding DNA, and repetitive sequences, while the evolution of Chlorophyta reflected a strong positive linear relationship between the genome length and the number of genes.

Karyotypic Studies in Artificial Hybrids of Solanum Sections Anarrhichomenum and Basarthrum (Solanaceae)

1999 ◽  
Vol 47 (1) ◽  
pp. 147 ◽  
Author(s):  
Laura Stiefkens ◽  
Gabriel Bernardello ◽  
Gregory J. Anderson
Keyword(s):  
Wild Species ◽  
Parental Species ◽  
Statistical Analyses ◽  
The Other ◽  
Genome Length ◽  
Mitotic Chromosomes ◽  
Chromosome Change ◽  
Centromere Position ◽  
Taxonomic Methods

Mitotic chromosomes of seven artificial hybrids fromSolanum L. sect.AnarrichomenumBitter &Basarthrum (Bitter) Bitter were studied(S. caripense Humb. & Bonpl. ex Dunal ×S. basendopogon Bitter,S. caripense × S. muricatumAiton, S. muricatum ×S. basendopogon, S. muricatum× S. caripense,S. muricatum× S. cochoae G.J. Anderson & Bernardello, S. sodiroi Bitter ×S. brevifolium Humb. & Bonpl., andS. sodiroi ×S. caripense).All are wild species except S. muricatum, which is knownonly as a domesticate (‘pepino dulce’). All hybrids were diploidwith 2n = 24. We compare the karyotypes ofparental species and their hybrids to understand chromosome change as acomponent of the evolution of these sections. Statistical analyses ofchromosomes, genome length and centromere position yielded estimates ofkaryotype composition and asymmetry. Comparisons were made by means of ANOVAsand numerical taxonomic methods. Statistical comparisons among the hybridspooled showed much karyotypic similarity among them. Karyotypes of theparental species revealed sharper differences among them. The karyotypes ofthe hybrids except for one combination were not intermediate. In general, thekaryotypes of the hybrids showed relatedness to the karyotype of one parentalspecies. The hybrids involving S. muricatum havechromosomal features closer to it than to the other parental species. Previousstudies showed S. caripense among the wild species to bemost similar to S. muricatum and, as expected, therewere the fewest differences between these species and the hybrids betweenthem. The karyotype of S. sodiroi×S. brevifolium is the most different from the karyotypeof either of its parental species.

scholarly journals The Missing Tailed Phages: Prediction of Small Capsid Candidates

2020 ◽  
Vol 8 (12) ◽  
pp. 1944
Author(s):  
Antoni Luque ◽  
Sean Benler ◽  
Diana Y. Lee ◽  
Colin Brown ◽  
Simon White
Keyword(s):  
Phage Therapy ◽  
Viral Evolution ◽  
Diverse Group ◽  
Genome Length ◽  
Geometrical Features ◽  
Phage Capsid ◽  
The Common ◽  
Icosahedral Capsid ◽  
Gut Metagenome ◽  
Physical Principles

Tailed phages are the most abundant and diverse group of viruses on the planet. Yet, the smallest tailed phages display relatively complex capsids and large genomes compared to other viruses. The lack of tailed phages forming the common icosahedral capsid architectures T = 1 and T = 3 is puzzling. Here, we extracted geometrical features from high-resolution tailed phage capsid reconstructions and built a statistical model based on physical principles to predict the capsid diameter and genome length of the missing small-tailed phage capsids. We applied the model to 3348 isolated tailed phage genomes and 1496 gut metagenome-assembled tailed phage genomes. Four isolated tailed phages were predicted to form T = 3 icosahedral capsids, and twenty-one metagenome-assembled tailed phages were predicted to form T < 3 capsids. The smallest capsid predicted was a T = 4/3 ≈ 1.33 architecture. No tailed phages were predicted to form the smallest icosahedral architecture, T = 1. We discuss the feasibility of the missing T = 1 tailed phage capsids and the implications of isolating and characterizing small-tailed phages for viral evolution and phage therapy.

SEARCHING FOR SCALING IN THE PENNA BIT-STRING MODEL OF BIOLOGICAL AGING

2000 ◽  
Vol 11 (02) ◽  
pp. 309-315 ◽  
Author(s):  
K. MALARZ
Keyword(s):  
Computer Simulation ◽  
String Model ◽  
The Other ◽  
Biological Aging ◽  
Control Parameters ◽  
Genome Length ◽  
Model Control

In this paper the Penna bit-string model of biological aging with different lengths of bit-strings genome is considered. We show from computer simulation that changes in genome length may be crucial for determining population characterization and seem to be irreversible by scaling the other model control parameters.

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