Abstract
Autographa californica multiple nucleopolyhedrovirus (AcMNPV) is a prototypic baculovirus infecting specific insects. AcMNPV contains a large double-stranded DNA genome encoding a complex transcriptome. This virus has a widespread application as a vector for the expression of heterologous proteins. Here, we present a dataset, derived from Oxford Nanopore Technologies (ONT) long-read sequencing platform. We used both cDNA and direct RNA sequencing techniques. The dataset contains 520,310 AcMNPV and 1,309,481 host cell reads using the regular cDNA-sequencing method of ONT technique, whereas altogether 6,456 reads were produced by using direct RNA-sequencing. We also used a Cap-selection protocol for certain ONT samples, and obtained 2,568,669 reads by using this method. The raw reads were aligned to the AcMNPV reference genome (KM667940.1). Here, we openly released the ‘static’ and the dynamic transcript catalogue of AcMNPV. This dataset can be used for deep analyses of the transcriptomic and epitranscriptomic patterns of the AcMNPV and the host cell. The data can be also useful for the validation of different bioinformatics software packages and analysis tools.
Highlights
Background & SummaryBaculoviruses are a diverse group of viruses infecting insect larvae of the orders Diptera, Hymenoptera, and Lepidoptera[1]
Autographa californica multiple nucleopolyhedrovirus (AcMNPV) has been used as a model in studies of the molecular pathogenesis of baculoviruses[3]
The previously published short-read Illumina RNA sequencing provides high-quality data[5], the long-read sequencing (LRS) dataset is more beneficial; the LRS methods are more applicable for global RNA profiling, as they can greatly improve and expand the reference set of transcripts[6,7,8,9,10,11,12,13,14], even if they have a relatively high error-rate and a low throughput
Summary
Baculoviruses are a diverse group of viruses infecting insect larvae of the orders Diptera, Hymenoptera, and Lepidoptera[1]. The Oxford Nanopore Technologies (ONT) MinION long-read sequencing device was used to characterize the static and dynamic (including nine different post-infection time points) AcMNPV and host cell (Spodoptera frugiperda isolate Sf9) transcriptomes following various library preparation approaches, such as full-length cDNA-sequencing, direct RNA-sequencing (dRNA-seq) to avoid the potential false products from reverse-transcription or PCR, and cDNA-sequencing on 5′ Capselected samples (Cap-seq) for the more precise detection of the transcription start sites. The barcoded samples derived from different time points can be used for the kinetic characterization of AcMNPV transcripts, as well as for the analysis of gene expression of the host cells during viral infection[15]. These data allow the comparison of different library preparation methods. Our dataset can be used for the identification of modified nucleotides and for obtaining epitranscriptomic data
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