Molecular characterisation of a novel cassava associated circular ssDNA virus

2012 ◽  
Vol 166 (1-2) ◽  
pp. 130-135 ◽  
Author(s):  
Anisha Dayaram ◽  
Allen Opong ◽  
Anja Jäschke ◽  
James Hadfield ◽  
Marianna Baschiera ◽  
...  
Keyword(s):  
Molecular Characterisation ◽  
Ssdna Virus ◽  
Circular Ssdna

scholarly journals Novel ssDNA virus recovered from estuarine Mollusc (Amphibola crenata) whose replication associated protein (Rep) shares similarities with Rep-like sequences of bacterial origin

2013 ◽  
Vol 94 (5) ◽  
pp. 1104-1110 ◽  
Author(s):  
Anisha Dayaram ◽  
Sharyn Goldstien ◽  
Peyman Zawar-Reza ◽  
Christopher Gomez ◽  
Jon S. Harding ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Ssdna Virus ◽  
Organic Detritus ◽  
Bacterial Origin ◽  
The Past ◽  
Circular Ssdna ◽  
Human Pollution ◽  
Micro Organisms ◽  
Ssdna Viruses

Over the past couple of years highly diverse novel ssDNA viruses have been discovered. Here, we present the first ssDNA virus, Gastropod-associated circular ssDNA virus (GaCSV), recovered from a mollusc Amphibola crenata Martyn 1784, which is a deposit feeder that grazes micro-organisms and organic detritus on the surface of tidal mudflats. The GaCSV (2351 nt) genome contains two large bidirectionally transcribed ORFs. The smaller ORF (874 nt) has similarities to viral replication-associated protein (Rep) sequences of some bacteria and circoviruses, whereas the larger ORF (955 nt) does not relate to any sequences in public databases and we presume it potentially encodes the capsid protein. Phylogenetic analysis shows that the GaCSV Rep clusters with Rep-like sequences of bacterial origin, highlighting the role of ssDNA viruses in horizontal gene transfer. The occurrence of previously unknown viruses in organisms associated with human pollution is a relatively unexplored field.

Diagnostic methods for the detection of faba bean necrotic yellows virus, a circular ssDNA virus

EPPO Bulletin ◽  
1995 ◽  
Vol 25 (1-2) ◽  
pp. 329-336 ◽  
Author(s):  
L. KATUL ◽  
H. J. VETTEN ◽  
D.-E. LESEMANN ◽  
E. MAISS ◽  
K. M. MAKKOUK
Keyword(s):  
Faba Bean ◽  
Diagnostic Methods ◽  
Ssdna Virus ◽  
Circular Ssdna

scholarly journals An experimental strategy for preparing circular ssDNA virus genomes for next-generation sequencing

2021 ◽  
pp. 114405
Author(s):  
Catherine D. Aimone ◽  
J. Steen Hoyer ◽  
Anna E. Dye ◽  
David O. Deppong ◽  
Siobain Duffy ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Ssdna Virus ◽  
Next Generation ◽  
Experimental Strategy ◽  
Circular Ssdna ◽  
Virus Genomes ◽  
Generation Sequencing

A novel circular ssDNA virus of the phylum Cressdnaviricota discovered in metagenomic data from otter clams (Lutraria rhynchaena)

2020 ◽  
Vol 165 (12) ◽  
pp. 2921-2926
Author(s):  
Oanh T. P. Kim ◽  
Yuki Kagaya ◽  
Hoang S. Tran ◽  
Ryuhei Minei ◽  
Trang T. H. Tran ◽  
...  
Keyword(s):  
Metagenomic Data ◽  
Ssdna Virus ◽  
Circular Ssdna

scholarly journals Dragonfly cyclovirus, a novel single-stranded DNA virus discovered in dragonflies (Odonata: Anisoptera)

2011 ◽  
Vol 92 (6) ◽  
pp. 1302-1308 ◽  
Author(s):  
Karyna Rosario ◽  
Milen Marinov ◽  
Daisy Stainton ◽  
Simona Kraberger ◽  
Elizabeth J. Wiltshire ◽  
...  
Keyword(s):  
Viral Metagenomics ◽  
Nucleotide Identity ◽  
Ssdna Virus ◽  
Single Strain ◽  
Genome Wide ◽  
Faecal Samples ◽  
The Family ◽  
Circular Ssdna ◽  
A New Species ◽  
Dragonfly Species

Dragonfly cyclovirus (DfCyV), a new species of ssDNA virus discovered using viral metagenomics in dragonflies (family Libellulidae) from the Kingdom of Tonga. Metagenomic sequences of DfCyV were similar to viruses of the recently proposed genus Cyclovirus within the family Circoviridae. Specific PCRs resulted in the recovery of 21 DfCyV genomes from three dragonfly species (Pantala flavescens, Tholymis tillarga and Diplacodes bipunctata). The 1741 nt DfCyV genomes share >95 % nucleotide identity and are classified into 11 subtypes representing a single strain. The DfCyV genomes share 48–63 % genome-wide nucleotide identity with cycloviruses identified in human faecal samples. Recombination analysis revealed three recombinant DfCyV genomes, suggesting that recombination plays an important role in cyclovirus evolution. To our knowledge, this is the first report of a circular ssDNA virus identified in insects, and the data may help elucidate evolutionary links among novel Circoviridae recently identified in animals and environmental samples.

Molecular Characterisation of ESBL producer E. coli

2018 ◽  
Vol 1 (2) ◽  
pp. 40-57
Author(s):  
Abdulghani Alsamarai ◽  
Shler Khorshed ◽  
Imad Weli
Keyword(s):  
Urinary Tract Infection ◽  
Urinary Tract ◽  
Tract Infection ◽  
Female Student ◽  
Clinical Problem ◽  
Clinical Isolates ◽  
Molecular Characterisation ◽  
M Gene ◽  
Esbl Producer ◽  
E Coli

Background: Antibiotic resistance emerged as clinical problem challenge the effective treatment of infections. Virulence factor may play an important role in the influence of antimicrobial resistance. Objective: To determine the frequency of resistance gene in E. coli clinical isolates from women with urinary tract infection. Materials and Methods: Fifteen E.coli clinical isolates were tested by PCR to determine their molecular characterization. Results: The bla CTX –M gene was not detected in 6.7% out of the tested 15 E. coli clinical isolates from women with urinary tract infection. However, bla OXA gene was detected in all E. coli tested clinical isolates from pregnant women, female student and diabetic women with urinary tract infection. While bla TEM gene and bla SHV gene were not detected in 33.3% and 40% out of the tested E. coli clinical isolates respectively. Conclusions: Four types of ESBL genes were detected, and shows new trend of distribution, which indicated the predominance of OXA and CTX-M genes.

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