2013
DOI: 10.1016/j.jviromet.2013.05.007
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An alternative method to determine the 5′ extremities of non-segmented, negative sense RNA viral genomes using positive replication intermediate 3′ tailing: Application to two members of the Paramyxoviridae family

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Cited by 11 publications
(10 citation statements)
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“…In combination with sequences described previously [20], [24], [34], [35], this study completes the sequences of European AMPV-C (French duck isolate, Fr-AMPV-C) and D (French Turkey isolate, Fr-AMPV-D). Comparisons were made to full length sequences of European AMPV-A, B and US-C and of all HMPV-A and B sublineages.…”
Section: Introductionsupporting
confidence: 56%
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“…In combination with sequences described previously [20], [24], [34], [35], this study completes the sequences of European AMPV-C (French duck isolate, Fr-AMPV-C) and D (French Turkey isolate, Fr-AMPV-D). Comparisons were made to full length sequences of European AMPV-A, B and US-C and of all HMPV-A and B sublineages.…”
Section: Introductionsupporting
confidence: 56%
“…We have previously described the 3′ and 5′ sequence extremities of Fr-AMPV-C [34] discussing. Here complete leader and trailer sequences showed varying levels of conservation amongst all MPV’s (67–97.5%).…”
Section: Resultsmentioning
confidence: 99%
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“…Nearly all of the short missing regions occurred at either the termini (a common issue in viral NGS sequencing) [46] or at one specific intergenic location in the genome between genes N and P which displayed extremely low coverage in all analyzed samples (possibly as a result of high GC content – 76%). For the purpose of submitting full-length NDV sequences to GenBank, we sequenced the termini using a previously described protocol [47] and primers designed for the current study (see Additional file 4: Table S3). The internal gaps, where necessary, were sequenced using PCR and Sanger sequencing (for primers sequences see Additional file 4: Table S3).…”
Section: Resultsmentioning
confidence: 99%
“…Sequence data were assembled using MIRA version 3.4.1 (6) within a customized workflow on the Galaxy platform (7), as described previously (8). Missing positions at the 5′ and 3′ ends of the genomes were sequenced using Sanger technology, as described previously (9). …”
Section: Genome Announcementmentioning
confidence: 99%