Next Article in Journal
Seroprevalence of Infection with Feline Morbilliviruses Is Associated with FLUTD and Increased Blood Creatinine Concentrations in Domestic Cats
Next Article in Special Issue
Thoughts on African Swine Fever Vaccines
Previous Article in Journal
Increasing Capacity to Detect Clusters of Rapid HIV Transmission in Varied Populations—United States
Previous Article in Special Issue
African Swine Fever Virus Structural Protein p17 Inhibits Cell Proliferation through ER Stress—ROS Mediated Cell Cycle Arrest
Article

Combined Short and Long-Read Sequencing Reveals a Complex Transcriptomic Architecture of African Swine Fever Virus

1
Department of Medical Biology, Faculty of Medicine, University of Szeged, Somogyi B. u. 4., 6720 Szeged, Hungary
2
Institute for Veterinary Medical Research, Centre for Agricultural Research, Hungária krt. 21, H-1143 Budapest, Hungary
*
Author to whom correspondence should be addressed.
These authors contributed equally to this work.
Academic Editor: Manuel Borca
Viruses 2021, 13(4), 579; https://doi.org/10.3390/v13040579
Received: 15 February 2021 / Revised: 17 March 2021 / Accepted: 28 March 2021 / Published: 30 March 2021
(This article belongs to the Special Issue African Swine Fever Virus 2021)
African swine fever virus (ASFV) is a large DNA virus belonging to the Asfarviridae family. Despite its agricultural importance, little is known about the fundamental molecular mechanisms of this pathogen. Short-read sequencing (SRS) can produce a huge amount of high-precision sequencing reads for transcriptomic profiling, but it is inefficient for comprehensively annotating transcriptomes. Long-read sequencing (LRS) can overcome some of SRS’s limitations, but it also has drawbacks, such as low-coverage and high error rate. The limitations of the two approaches can be surmounted by the combined use of these techniques. In this study, we used Illumina SRS and Oxford Nanopore Technologies LRS platforms with multiple library preparation methods (amplified and direct cDNA sequencings and native RNA sequencing) for constructing the ASFV transcriptomic atlas. This work identified many novel transcripts and transcript isoforms and annotated the precise termini of previously described RNAs. This study identified a novel species of ASFV transcripts, the replication origin-associated RNAs. Additionally, we discovered several nested genes embedded into larger canonical genes. In contrast to the current view that the ASFV transcripts are monocistronic, we detected a significant extent of polycistronism, although a large proportion of these transcripts are expressed in low abundance. A multifaceted meshwork of transcriptional overlaps was also discovered. View Full-Text
Keywords: African swine fever virus; ASFV; transcriptome; long-read sequencing; direct RNA sequencing African swine fever virus; ASFV; transcriptome; long-read sequencing; direct RNA sequencing
Show Figures

Figure 1

MDPI and ACS Style

Torma, G.; Tombácz, D.; Csabai, Z.; Moldován, N.; Mészáros, I.; Zádori, Z.; Boldogkői, Z. Combined Short and Long-Read Sequencing Reveals a Complex Transcriptomic Architecture of African Swine Fever Virus. Viruses 2021, 13, 579. https://doi.org/10.3390/v13040579

AMA Style

Torma G, Tombácz D, Csabai Z, Moldován N, Mészáros I, Zádori Z, Boldogkői Z. Combined Short and Long-Read Sequencing Reveals a Complex Transcriptomic Architecture of African Swine Fever Virus. Viruses. 2021; 13(4):579. https://doi.org/10.3390/v13040579

Chicago/Turabian Style

Torma, Gábor, Dóra Tombácz, Zsolt Csabai, Norbert Moldován, István Mészáros, Zoltán Zádori, and Zsolt Boldogkői. 2021. "Combined Short and Long-Read Sequencing Reveals a Complex Transcriptomic Architecture of African Swine Fever Virus" Viruses 13, no. 4: 579. https://doi.org/10.3390/v13040579

Find Other Styles
Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Article Access Map by Country/Region

1
Back to TopTop