Skip to main content
. 2018 Sep 19;9:2155. doi: 10.3389/fmicb.2018.02155

Table 3.

A selection of strain-specific DNA regions deduced from the comparative genome analysis of the P. damselae subsp. damselae strains DK2, DK3, DK20, and DK29, with special emphasis on sequences related to horizontally acquired DNA, potential mobile elements, phage-related and plasmid-related proteins.

Strain Contig n° GenBank Acc. n° Size in bp Total ORFs in contig Specific ORFs General features of the strain-specific proteins
DK2 Contig_000002 PVXF01000002.1 2,598 5 3 Phage DNA packaging proteins; hypothetical proteins
Contig_000003 PVXF01000003.1 2,221 3 3 Phage attachment proteins; VSK receptor, phage related protein; hypothetical protein
Contig_000006 PVXF01000006.1 3,616 6 6 Plasmid-related partitioning protein ParA; phage proteins; hypothetical proteins
Contig_000007 PVXF01000007.1 6,884 9 7 Phage proteins; phage terminase; hypothetical proteins
Contig_000028 PVXF01000028.1 2,091 1 1 Phage protein
Contig_000036 PVXF01000036.1 3,692 3 2 Phage proteins; hypothetical proteins
Contig_000047 PVXF01000047.1 29,856 22 22 Siderophore vibrioferrin synthesis and transport; phage integrase; mobile element-related proteins; hypothetical proteins
Contig_000051 PVXF01000051.1 1,767 1 1 Replication protein RepA
Contig_000070 PVXF01000070.1 3,201 6 5 Phage replication initiation protein; hypothetical proteins
Contig_000095 PVXF01000095.1 4,345 8 8 Phage anti-termination functions; exodeoxyribonuclease VIII; adenine-specific methyltransferase; hypothetical proteins
Contig_000104 PVXF01000104.1 142,459 128 7 Response regulator; putative transcriptional regulator; hypothetical protein
DK3 Contig_000023 PVXG01000023.1 2,772 3 2 Phage tail length tape-measure protein; hypothetical protein
Contig_000037 PVXG01000037.1 122,163 101 8 Fimbrial protein precursor; chaperone protein; outer membrane usher protein; hypothetical proteins
Contig_000038 PVXG01000038.1 133,769 125 3 Phage T7 exclusion protein; hypothetical proteins
Contig_000042 PVXG01000042.1 188,886 19 4 Phage integrase; hypothetical proteins
Contig_000043 PVXG01000043.1 47,455 47 4 Bacteriophage f237 ORF9; hypothetical protein
DK20 Contig_000020 PVXH01000020.1 4,907 3 2 Plasmid-related proteins
Contig_000039 PVXH01000039.1 120,633 103 9 Type I restriction-modification system; DNA replication helicase; hypothetical proteins
Contig_000070 PVXH01000070.1 16,594 14 4 Phage proteins; hypothetical proteins
DK29 Contig_000011 PVXI01000011.1 8,573 6 6 CRISPR-associated proteins (Cas), type I-F
Contig_000012 PVXI01000012.1 23,216 24 24 Recombinational DNA repair protein RecT (prophage associated) putative primase; hypothetical proteins
Contig_000046 PVXI01000046.1 3,771 1 1 Integrase
Contig_000055 PVXI01000055.1 32,765 22 18 IncF plasmid conjugative transfer pilus proteins TraN, TraU, TraW; hypothetical proteins
Contig_000071 PVXI01000071.1 114,282 110 49 Phage tail fiber proteins, phage replication and other phage-related proteins; hypothetical proteins
Contig_000106 PVXI01000106.1 36,123 34 25 Phage proteins; hypothetical proteins; replication initiation protein RepE
Contig_000116 PVXI01000116.1 39,314 38 32 Site-specific recombinase, phage integrase family; transposase; hypothetical proteins
Contig_000127 PVXI01000127.1 5,101 8 3 Cyanophage-encoded porphyrin biosynthetic protein; hypothetical proteins
Contig_000151 PVXI01000151.1 47,345 44 36 Plasmid conjugative transfer pilus assembly proteins TraB, TraC, TraD, TraE, TraF, TraH, TraK; hypothetical proteins