ArticleScientific reports2016
Illumina MiSeq sequencing disfavours a sequence motif in the GFP reporter gene.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Synthetic spike-in metabarcoding for plant pathogen diagnostics results in precise quantification of copy number within the genusISME communications · 2025Article
- Genome investigations show host adaptation and transmission of LA-MRSA CC398 from pigs into Danish healthcare institutions.Scientific reports · 2019Article
- Mycobiome Sequencing and Analysis Applied to Fungal Community Profiling of the Lower Respiratory Tract During Fungal Pathogenesis.Frontiers in microbiology · 2019Article
- Impact of index hopping and bias towards the reference allele on accuracy of genotype calls from low-coverage sequencing.Genetics, selection, evolution : GSE · 2018Article
- Characterization of H5N1 Influenza Virus Quasispecies with Adaptive Hemagglutinin Mutations from Single-Virus Infections of Human Airway Cells.Journal of virology · 2018Article
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Authors and funding
3 authors.
Funding
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Abstract
Green fluorescent protein (GFP) is one of the most used reporter genes. We have used next-generation sequencing (NGS) to analyse the genetic diversity of a recombinant influenza A virus that expresses GFP and found a remarkable coverage dip in the GFP coding sequence. This coverage dip was present when virus-derived RT-PCR product or the parental plasmid DNA was used as starting material for NGS and regardless of whether Nextera XT transposase or Covaris shearing was used for DNA fragmentation. Therefore, the sequence coverage dip in the GFP coding sequence was not the result of emerging GFP mutant viruses or a bias introduced by Nextera XT fragmentation. Instead, we found that the Illumina MiSeq sequencing method disfavours the 'CCCGCC' motif in the GFP coding sequence.
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