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Pipeline publication

[…] dditionally, both JEECV and MEPyV have adenovirus-like virions (, ). Here, we report the complete genome sequence of MEPyV., MEPyV (AMV-6) was proliferated in EK-1 cells, and the DNA was isolated and purified by a modification of the Hirt method () and delivered to Welgene Biotech (Taipei, Taiwan) for next-generation sequencing. The DNA was further extracted using a WelPrep DNA kit by Welgene and sonicated using a Misonix 3000 sonicator for sizes ranging from 400 to 500 bp, which were performed with a bioanalyzer DNA 1000 chip (Agilent Technologies). One microgram of sonicated DNA was end repaired, A-tailed, and adaptor ligated, according to the Illumina TruSeq DNA preparation protocol, and ConDeTri was implemented for trimming (). Cleaned and filtered nuclear reads were assembled de novo using ABySS (). All obtained sequences were aligned and manually reassembled., The circular genomic DNA comprised 16,930 bp and displayed very low similarity to known viruses, including JEECV. A BLASTN search showing the sequence fragment at positions 14627 to 14713 and at 3223 to 3295 was respective homologous to some polyomavirus large T-antigen (LT) genes and certain phycodnaviruses, baculoviruses, and herpesviruses. The genome was suggested to encode 10 proteins, including an LTL, a DNA polymerase, an adenain-like protein, five capsid proteins, and two unknown proteins. Alignment revealed that the LTL amino acid sequence was closer to the LT of giant guitarfish polyomavirus () than the LTL of JEECV. Despite the LTL and DNA polymerase, all the MEPyV protein sequences displayed highest homology to JEECV than other known viruses. These data will be helpful to clarify the identity o […]

Pipeline specifications

Software tools ConDeTri, ABySS, BLASTN
Organisms Anguilla marmorata, Anguilla japonica