Table 2 GenBank accession numbers and reference sequence numbers of strains used in this study

artificial antibiotic resistance genome

various

gene sequences of published antibiotic resistance genes

none

[37]

Lactococcus lactis subsp. cremoris

MG1363

international prototype for LAB genetics; plasmid-free descendant of NCDO712, a cheese starter

[GenBank:NC_009004]

[38]

S. agalactiae

2603 V/R

human clinical specimen

[GenBank:NC_004116]

[34]

S. agalactiae

NEM316

human clinical specimen

[GenBank:NC_004368]

[39]

S. anginosus

1_2_62CV

human clinical specimen

[GenBank:NZ_ADME00000000]

HMP ^a)

S. bovis

ATCC 700338

human clinical specimen, synovial fluid from knee

[GenBank:NZ_AEEL00000000]

HMP ^a)

S. dysgalactiae subsp. equisimilis

GGS_124

human clinical specimen

[GenBank:AP010935]

[40]

S. equi subsp. equi

4047

horse clinical specimen

[GenBank:FM204883]

[41]

S. equi subsp. zooepidemicus

MGCS10565

human clinical specimen

[GenBank:CP001129]

[42]

S. equinus

ATCC 9812

human clinical specimen, gut

[GenBank: AEVB00000000]

HMP^a)

S. gallolyticus subsp. gallolyticus

ATCC 43143

human clinical specimen, blood

[GenBank:AP012053]

[32]

S. gallolyticus subsp. gallolyticus

ATCC BAA-2069

human clinical specimen, blood

[GenBank:FR824043]

[33]

S. gallolyticus subsp. gallolyticus

UCN34

human clinical specimen, blood

[GenBank:FN597254]

[13]

S. gallolyticus subsp. gallolyticus

TX20005

human clinical specimen, heart

[GenBank:NZ_AEEM00000000]

HMP ^a)

S. gallolyticus subsp. macedonicus (=S. macedonicus)

ACA-DC 198

Greek kasseri cheese, dairy isolate

[GenBank:HE613569] (genome) and [GenBank:HE613570] (plasmid pSMA198)

[30, 43, 44]

S. gallolyticus subsp. pasteurianus

ATCC 43144

human clinical specimen, blood

[GenBank:AP012054]

[32]

S. infantarius subsp. infantarius

ATCC BAA-102^T (isogenetic strain of CCUG 43820^T)

human infant, feces

[GenBank: ABJK00000000]

HMP ^a)

S. infantarius subsp. infantarius

CJ18

fermented camel milk suusac

[GenBank:CP003295] (genome) and [GenBank:CP003296] (plasmid pSICJ18-1)

this study and [2, 7, 31]

S. infantarius subsp. infantarius

LP90

dairy origin

[GenBank:HM008642]

none

S. mitis

B6

hospital isolate Germany

[GenBank:NC_013853]

[45]

S. pneumoniae

D39 (=NCTC 7466)

virulent human clinical isolate

[GenBank:NC_008533]

[36]

S. pneumoniae

R6 (=ATCC BAA-255)

unencapsulated, parent strain R36A derived from D39

[GenBank:NC_003098]

[46]

S. pneumoniae

TIGR4

human clinical isolate

[GenBank:NC_003028]

[47]

S. pyogenes

M1 GAS (=SF370)

human clinical isolate

[GenBank:NC_002737]

[35]

S. salivarius

ATCC 25975

human saliva

[GenBank:AF389474]

[48]

S. sanguinis

SK36

human dental plaque

[GenBank:NC_009009]

[49]

S. thermophilus

CNRZ1066

yogurt

[GenBank:NC_006449]

[26]

S. thermophilus

LMG18311

yogurt

[GenBank:NC_006448]

[26]

S. thermophilus

LMD-9 (=ATCC BAA-491)

yogurt

[GenBank:NC_008532]

[27]