Comparison of Illumina de novo assembled and Sanger sequenced viral genomes: A case study for RNA viruses recovered from the plant pathogenic fungus Sclerotinia sclerotiorum

2016 ◽  
Vol 219 ◽  
pp. 51-57 ◽  
Author(s):  
Mahmoud E. Khalifa ◽  
Arvind Varsani ◽  
Austen R.D. Ganley ◽  
Michael N. Pearson
1995 ◽  
Vol 4 (1) ◽  
pp. 69-77 ◽  
Author(s):  
Y. Kohli ◽  
L. J. Brunner ◽  
H. YOELL ◽  
M. G. Milgroom ◽  
J. B. Anderson ◽  
...  

Weed Science ◽  
1991 ◽  
Vol 39 (1) ◽  
pp. 109-118 ◽  
Author(s):  
Gordon E. Riddle ◽  
Lee L. Burpee ◽  
Gregory J. Boland

Sixty isolates of the plant pathogenic fungus Sclerotinia sclerotiorum (Lib.) de Bary and six isolates of Sclerotinia minor Jagger were evaluated in a controlled environment for virulence on leaves excised from 8-week-old dandelion plants. Significant negative correlations were obtained between the relative virulence of the isolates and the dry weights of dandelion plants inoculated in a controlled environment; and positive correlations were detected between the relative virulence of isolates and reduction in number of dandelion plants in turfgrass swards infested with inoculum of the isolates. In August 1988, an 80.7% reduction in the number of dandelion plants was detected in a turfgrass sward treated in 1987 with four applications of heat-killed seed of perennial ryegrass (100 g m−2 application–1) infested with isolate R30 of S. sclerotiorum, followed by six applications at the same rate in 1988. Populations of dandelions in untreated swards increased by 22.2% during the same period. Heat-killed seed of perennial ryegrass (100 g m−2) infested with isolate R30 applied simultaneously with dandelion seed (25 g m−2) onto a sward of Kentucky bluegrass reduced the establishment of dandelion seedlings by 85.5%. Necrosis or discoloration did not develop on Kentucky bluegrass, creeping bentgrass, annual bluegrass, or quackgrass treated with inoculum of Sclerotinia. Sclerotia of Sclerotinia spp. were found, on occasion, in crowns but not on the foliage of diseased dandelions.


PLoS ONE ◽  
2019 ◽  
Vol 14 (3) ◽  
pp. e0214201 ◽  
Author(s):  
Mark Charles Derbyshire ◽  
Matthew Denton-Giles ◽  
James K. Hane ◽  
Steven Chang ◽  
Mahsa Mousavi-Derazmahalleh ◽  
...  

2011 ◽  
Vol 10 (2) ◽  
pp. 868-877 ◽  
Author(s):  
C.G. Litholdo Júnior ◽  
E.V. Gomes ◽  
M. Lobo Júnior ◽  
L.C.B. Nasser ◽  
S. Petrofeza

2018 ◽  
Author(s):  
Enrique González-Tortuero ◽  
Thomas David Sean Sutton ◽  
Vimalkumar Velayudhan ◽  
Andrey Nikolaevich Shkoporov ◽  
Lorraine Anne Draper ◽  
...  

AbstractViral (meta)genomics is a rapidly growing field of study that is hampered by an inability to annotate the majority of viral sequences; therefore, the development of new bioinformatic approaches is very important. Here, we present a new automatic de novo genome annotation pipeline, called VIGA, to annotate prokaryotic and eukaryotic viral sequences from (meta)genomic studies. VIGA was benchmarked on a database of known viral genomes and a viral metagenomics case study. VIGA generated the most accurate outputs according to the number of coding sequences and their coordinates, outputs also had a lower number of non-informative annotations compared to other programs.


Virology ◽  
2011 ◽  
Vol 418 (1) ◽  
pp. 49-56 ◽  
Author(s):  
Jiatao Xie ◽  
Xueqiong Xiao ◽  
Yanping Fu ◽  
Huiquan Liu ◽  
Jiasen Cheng ◽  
...  

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