scholarly journals Discovery of Novel dsRNA Viral Sequences by In Silico Cloning and Implications for Viral Diversity, Host Range and Evolution

PLoS ONE ◽  
2012 ◽  
Vol 7 (7) ◽  
pp. e42147 ◽  
Author(s):  
Huiquan Liu ◽  
Yanping Fu ◽  
Jiatao Xie ◽  
Jiasen Cheng ◽  
Said A. Ghabrial ◽  
...  
2020 ◽  
Vol 20 ◽  
pp. 100394 ◽  
Author(s):  
Manojit Bhattacharya ◽  
Ashish Ranjan Sharma ◽  
Prasanta Patra ◽  
Pratik Ghosh ◽  
Garima Sharma ◽  
...  

2009 ◽  
Vol 75 (8) ◽  
pp. 2259-2265 ◽  
Author(s):  
Rebekah R. Helton ◽  
K. Eric Wommack

ABSTRACT Direct enumeration and genetic analyses indicate that aquatic sediments harbor abundant and diverse viral communities. Thus far, synecological analysis of estuarine sediment viral diversity over an annual cycle has not been reported. This oversight is due in large part to a lack of molecular genetic approaches for assessing viral diversity within a large collection of environmental samples. Here, randomly amplified polymorphic DNA PCR (RAPD-PCR) was used to examine viral genotypic diversity within Chesapeake Bay sediments. Using a single 10-mer oligonucleotide primer for all samples, RAPD-PCR analysis of sediment viral assemblages yielded unique banding patterns across spatial and temporal scales, with the occurrence of specific bands varying among the sample set. Cluster analysis of RAPD-PCR amplicon banding patterns indicated that sediment viral assemblages changed with season and to a lesser extent with geographic location. Sequence analysis of RAPD-PCR amplicons revealed that 76% of sediment viral sequences were not homologous to any sequence in the GenBank nonredundant protein database. Of the GenBank sequence homologs, the majority belonged to viruses within the Podoviridae (24%) and Myoviridae (22%) viral families, which agrees with the previously observed frequencies of these morphological families in Chesapeake Bay sediments. Furthermore, the majority of the sediment viral sequences homologous to GenBank nonredundant protein sequences were phages or prophages (57%). Hence, RAPD-PCR proved to be a reliable and useful approach for characterization of viral assemblages and the genetic diversity of viruses within aquatic sediments.


2019 ◽  
Author(s):  
Emily B. Graham ◽  
David Paez-Espino ◽  
Colin Brislawn ◽  
Kirsten S. Hofmockel ◽  
Ruonan Wu ◽  
...  

AbstractViruses outnumber every other biological entity on Earth, and soil viruses are particularly diverse compared to other habitats. However, we have limited understanding of soil viruses because of the tremendous variation in soil ecosystems and because of the lack of appropriate screening tools. Here, we determined the global distribution of more than 24,000 soil viral sequences and their potential hosts, including >1,600 sequences associated with giant viruses. The viral sequences, derived from 668 terrestrial metagenomes, greatly extend existing knowledge of soil viral diversity and viral biogeographical distribution. We screened these sequences to identify a suite of cosmopolitan auxiliary metabolic genes (AMGs) encoding enzymes involved in soil organic carbon decomposition across soil biomes. Additionally, we provide evidence for viral facilitation of multi-domain linkages in soils by locating a fungal chitosanase in bacteriophages, generating a new paradigm of how viruses can serve as exchange vectors of carbon metabolism across domains of life.


3 Biotech ◽  
2020 ◽  
Vol 10 (11) ◽  
Author(s):  
El Mehdi Bouricha ◽  
Mohammed Hakmi ◽  
Jihane Akachar ◽  
Lahcen Belyamani ◽  
Azeddine Ibrahimi

2012 ◽  
Vol 54 ◽  
pp. 113-122 ◽  
Author(s):  
Fabio Marcelo Idrovo Espín ◽  
Santy Peraza-Echeverria ◽  
Gabriela Fuentes ◽  
Jorge M. Santamaría

2001 ◽  
Vol 5 ◽  
pp. 29-31 ◽  
Author(s):  
Julie D. Sharp ◽  
Ruth B. Wheeler ◽  
Roger A. Schultz ◽  
John M. Joslin ◽  
Sara E. Mole ◽  
...  

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