Table 3

Evidence for a novel virus related to the Baculoviridae in the sequenced sample of Varroa destructor

ORF

Pfam domain description

Expectation

Reported in Baculoviridae?


VDK00007920-4466_1

Ribonucleotide reductase, barrel domain

5.50E-231

Yes


VDK00121146-847_1

Ribonucleotide reductase, small chain

1.30E-125

Yes


VDK00001240-6963_1

Thymidylate synthase

3.60E-114

Yes


VDK00008686-4345_1

Kinesin motor domain

3.90E-060

No*


VDK00103915-1040_1

Reverse transcriptase

7.80E-035

Yes


VDK00064516-1660_1

BRO family, N-terminal domain

1.60E-017

Yes


VDK00001041-7192_1

Chitin binding domain

1.50E-010

Yes


VDK00192648-381_1

Pacifastin inhibitor (LCMII)

3.60E-008

No


VDK00158309-530_2

Baculovirus hypothetical protein

1.10E-006

Yes


VDK00025611-2890_1

Matrixin (matrix metalloprotease)

3.80E-006

Yes


VDK00139482-672_1

Protein of unknown function (DUF666)

3.90E-006

Yes


VDK00179897-428_1

Phosphatidylinositol-specific phospolipase

5.60E-006

No*


VDK00008449-4382_2

Protein of unknown function (DUF686)

9.90E-006

Yes


VDK00099267-1099_1

Zinc knuckle (retroviral gag protein)

1.20E-004

Yes


VDK00107278-999_1

Baculovirus BRO family, N-terminal domain

1.80E-004

Yes


VDK00158309-530_3

Gamma-glutamyltranspeptidase

2.60E-004

No*


VDK00071395-1528_1

Collagen triple helix repeat

8.20E-004

No*


VDK00038309-2357_1

Collagen triple helix repeat

9.20E-004

No*


VDK00202991-345_3

Amelogenin (cell adhesion protein)

2.20E-003

No


VDK00042225-2226_1

Alpha/beta hydrolase fold

2.40E-003

No*


VDK00021332-3129_1

Phage integrase family

3.00E-003

No*


VDK00104983-1027_1

Collagen triple helix repeat

4.20E-003

No*


VDK00202991-345_2

Collagen triple helix repeat

4.20E-003

No*


VDK00043167-2196_3

Protein of unknown function (DUF686)

9.10E-003

Yes


VDK00073176-1494_3

Gamma-glutamyltranspeptidase

9.20E-003

No*


VDK00048355-2046_1

Matrixin (matrix metalloprotease)

0.01

Yes


Pfam matches are shown for methionine-initiated ORFs of 90 amino acids or more that were encoded by contigs at least 1 kb in length and with 30×-60× coverage. Collectively the matches are consistent with a viral origin and include several domains characteristic of Baculoviridae. Only matches with an expectation of 0.01 or less are shown. *Domain reported from at least one virus in Pfam [36] and Interpro [66] databases. **Present in one baculovirus accession (Q65353 of UniProt [67]) due to a retrotransposon insertion.

Cornman et al. BMC Genomics 2010 11:602   doi:10.1186/1471-2164-11-602

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