Comparison of direct RNA sequencing of Orthoavulavirus javaense using two different chemistries on the MinION platform DOI Creative Commons
Megan C. Mears, Quentin D. Read, Abhijeet Bakre

и другие.

Journal of Virological Methods, Год журнала: 2024, Номер unknown, С. 115103 - 115103

Опубликована: Дек. 1, 2024

Rapidly identifying and sequencing viral pathogens in poultry flocks can substantially reduce economic loss especially during disease outbreaks. Current next generation technologies require multi-step laboratory-intensive workflows to generate sequence data which precludes field adaptation. In this study, we hypothesized that direct RNA (DRS) using an Oxford Nanopore Technology (ONT) MinION device would enable of the full-length genome Orthoavulavirus javaense (OAVJ), causative Newcastle disease, a major challenge. The demonstrate custom OAVJ-specific adapter paired with ONT DRS kits enables capture OAVJ RNAs. Further, new SQK-RNA004 chemistry flow cells, associated super accurate base calling workflow improves on read quality length compared previous SQK-RNA002 chemistry. This is first report method near member Paramyxoviridae family. While additional improvements are needed before widespread adaptation for rapid sequencing, has potential further studies into epitranscriptome its role infection pathogenesis.

Язык: Английский

The Dynamic Landscape of Capsid Proteins and Viral RNA Interactions in Flavivirus Genome Packaging and Virus Assembly DOI Creative Commons

Anastazia Jablunovsky,

Joyce Jose

Pathogens, Год журнала: 2024, Номер 13(2), С. 120 - 120

Опубликована: Янв. 28, 2024

The Flavivirus genus of the Flaviviridae family enveloped single-stranded RNA viruses encompasses more than 70 members, many which cause significant disease in humans and livestock. Packaging assembly flavivirus genome is essential for formation virions, requires intricate coordination genomic RNA, viral structural, nonstructural proteins association with virus-induced, modified endoplasmic reticulum (ER) membrane structures. capsid (C) protein, a small but versatile RNA-binding positive are at heart elusive process. nucleocapsid core, consisting encapsidated by C proteins, buds through ER membrane, contains glycoproteins prM E organized as trimeric spikes into lumen, forming an immature virus. During maturation process, involves low pH-mediated structural rearrangement furin cleavage secretory pathway, spiky virus partially ordered core becomes smooth, mature no discernible nucleocapsid. This review focuses on mechanisms packaging examining functional aspects protein RNA. We current lexicon critical features evaluate interactions between context throughout life cycle.

Язык: Английский

Процитировано

11
Comparison of direct RNA sequencing of Orthoavulavirus javaense using two different chemistries on the MinION platform DOI Creative Commons
Megan C. Mears, Quentin D. Read, Abhijeet Bakre

и другие.

Journal of Virological Methods, Год журнала: 2024, Номер unknown, С. 115103 - 115103

Опубликована: Дек. 1, 2024

Rapidly identifying and sequencing viral pathogens in poultry flocks can substantially reduce economic loss especially during disease outbreaks. Current next generation technologies require multi-step laboratory-intensive workflows to generate sequence data which precludes field adaptation. In this study, we hypothesized that direct RNA (DRS) using an Oxford Nanopore Technology (ONT) MinION device would enable of the full-length genome Orthoavulavirus javaense (OAVJ), causative Newcastle disease, a major challenge. The demonstrate custom OAVJ-specific adapter paired with ONT DRS kits enables capture OAVJ RNAs. Further, new SQK-RNA004 chemistry flow cells, associated super accurate base calling workflow improves on read quality length compared previous SQK-RNA002 chemistry. This is first report method near member Paramyxoviridae family. While additional improvements are needed before widespread adaptation for rapid sequencing, has potential further studies into epitranscriptome its role infection pathogenesis.

Язык: Английский

Процитировано

0