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Viruses. 2015 Jul 9;7(7):3798-815. doi: 10.3390/v7072798.

The Apis mellifera Filamentous Virus Genome.

Author information

1
Agroscope, Swiss Bee Research Centre, Schwarzenburgstrasse 161, CH-3003 Bern, Switzerland. laurent.gauthier@agroscope.admin.ch.
2
Bee Research Laboratory, Beltsville, MD 20705, USA. scott.cornman@gmail.com.
3
Agroscope, Swiss Bee Research Centre, Schwarzenburgstrasse 161, CH-3003 Bern, Switzerland. uli.hartmann@gmx.ch.
4
Agroscope, Swiss Bee Research Centre, Schwarzenburgstrasse 161, CH-3003 Bern, Switzerland. coussera@supagro.inra.fr.
5
Bee Research Laboratory, Beltsville, MD 20705, USA. jay.evans@ars.usda.gov.
6
Department of Ecology, Swedish University of Agricultural Sciences, Uppsala 750 07, Sweden. joachim.de.miranda@slu.se.
7
Agroscope, Swiss Bee Research Centre, Schwarzenburgstrasse 161, CH-3003 Bern, Switzerland. peter.neumann@vetsuisse.unibe.ch.
8
Institute of Bee Health, Vetsuisse Faculty, University of Bern, CH-3001 Bern, Switzerland. peter.neumann@vetsuisse.unibe.ch.

Abstract

A complete reference genome of the Apis mellifera Filamentous virus (AmFV) was determined using Illumina Hiseq sequencing. The AmFV genome is a double stranded DNA molecule of approximately 498,500 nucleotides with a GC content of 50.8%. It encompasses 247 non-overlapping open reading frames (ORFs), equally distributed on both strands, which cover 65% of the genome. While most of the ORFs lacked threshold sequence alignments to reference protein databases, twenty-eight were found to display significant homologies with proteins present in other large double stranded DNA viruses. Remarkably, 13 ORFs had strong similarity with typical baculovirus domains such as PIFs (per os infectivity factor genes: pif-1, pif-2, pif-3 and p74) and BRO (Baculovirus Repeated Open Reading Frame). The putative AmFV DNA polymerase is of type B, but is only distantly related to those of the baculoviruses. The ORFs encoding proteins involved in nucleotide metabolism had the highest percent identity to viral proteins in GenBank. Other notable features include the presence of several collagen-like, chitin-binding, kinesin and pacifastin domains. Due to the large size of the AmFV genome and the inconsistent affiliation with other large double stranded DNA virus families infecting invertebrates, AmFV may belong to a new virus family.

KEYWORDS:

Apis mellifera; filamentous virus; genome annotation

PMID:
26184284
PMCID:
PMC4517127
DOI:
10.3390/v7072798
[Indexed for MEDLINE]
Free PMC Article

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