Genome Sequence of a Divergent Avian Metapneumovirus from a Monk Parakeet (Myiopsitta monachus).

Hanna Retallack,Joseph L Derisi,Susan Clubb,Simon Roux

doi:10.1128/mra.00284-19

Abstract

Here, we report the coding-complete genome sequence of an avian metapneumovirus from a monk parakeet (Myiopsitta monachus), identified by metagenomic next-generation sequencing during an investigation into a disease outbreak in a captive parrot breeding facility. Based on divergence from known strains, this sequence represents a new subgroup of avian metapneumovirus.

Highlights

We report the coding-complete genome sequence of an avian metapneumovirus from a monk parakeet (Myiopsitta monachus), identified by metagenomic next-generation sequencing during an investigation into a disease outbreak in a captive parrot breeding facility
The remaining 1,670,686 unique nonhost read pairs (4.8% of raw) were processed using the IDseq pathogen detection pipeline v3.2 (reference, National Center for Biotechnology Information (NCBI) nucleotide and nonredundant protein databases, as of 1 December 2018) (4), which identified metapneumovirus reads in the sample
No other viruses were detected as credible hits by the following criteria: Ն10 mapped read pairs per million nonhost read pairs at the nucleotide level, and Ն1 rpM at the amino acid level

Summary

Introduction

We report the coding-complete genome sequence of an avian metapneumovirus from a monk parakeet (Myiopsitta monachus), identified by metagenomic next-generation sequencing during an investigation into a disease outbreak in a captive parrot breeding facility. A representative host database was built using all genome assemblies and mitochondrial genomes under taxonomy identifier (TaxID) 9224 (Psittacidae, parrots) available in the National Center for Biotechnology Information (NCBI) database as of 7 December 2018. The remaining 1,670,686 unique nonhost read pairs (4.8% of raw) were processed using the IDseq pathogen detection pipeline v3.2 (reference, NCBI nucleotide and nonredundant protein (nt/nr) databases, as of 1 December 2018) (4), which identified metapneumovirus reads in the sample.

Results

Conclusion