Table 2 Overview of the putative genes and their putative functions

pLd1

repB

Replication initiator protein

orf2*

Replication-associated protein

hsdS

Type I restriction-modification system specificity subunit S

orf4

Hypothetical protein

orf5

Hypothetical protein

orf6

Hypothetical protein

tra

Transposase IS982 family

citQ

Leader peptide CitQ

citR

Translational regulator

citP

Citrate transporter

orf11

Hypothetical protein

pLd2

repB

Replication initiator protein

orf2*

Replication-associated protein

hsdS

Type I restriction-modification system specificity subunit S

cadA

Cadmium-transporting ATPase

cadC

Cadmium efflux system accessory protein

cspC

Cold shock protein

orf7

Serine/threonine protein phosphatase

tra

Transposase IS6 family

mobC

Mobilisation protein

mobA

Mobilisation protein

mobB

Mobilisation protein

mobD

Mobilisation protein

orf13

HXXEE domain-containing protein

Streptococcus thermophilus

orf14*

XRE family transcriptional regulator

Streptococcus thermophilus

repC*

Replication initiator protein

Lactobacillus farciminis

orf16

Hypothetical protein

Enterococcus faecium

pLd3

repC

Replication initiator protein

orf2

Hypothetical protein

Lactobacillus reuteri

pLd4

repB

Replication initiator protein

orf2

Hypothetical protein

Enterococcus faecalis

orf3

Hypothetical protein

Enterococcus faecalis

orf4

Hypothetical protein

orf5

Hypothetical protein

orf6

Hypothetical protein

fmtB

Peptidoglycan-binding protein

Streptococcus thermophilus

tra

Transposase IS982 family

orf9*

DNA-directed DNA polymerase

orf10

Hypothetical protein

tnpR

Resolvase

pLd5

repB

Replication initiator protein

orf2

Replication-associated protein

hsdS

Type I restriction-modification system specificity subunit S

tra

Transposase IS982 family

orf5

Hypothetical protein

orf6

Site-specific integrase

pLd6

repB

Replication initiator protein

orf2*

Hypothetical protein

hsdS

Type I restriction-modification system specificity subunit S

pLd7

repB

Replication initiator protein

orf2

Replication-associated protein

hsdR

Type I restriction-modification system specificity subunit R

hsdM

Type I restriction-modification system specificity subunit M

hsdS

Type I restriction-modification system specificity subunit S

corA

Magnesium transporter

tra

Transposase IS982 family

orf8

Hypothetical protein

orf9

Hypothetical protein

orf10

Hypothetical protein

tnpR

Resolvase

tra

Transposase IS6 family

orf13

MFS transporter

orf14

Acetyltransferase

orf15

Polysaccharide biosynthesis protein

orf16

Hypothetical protein

tra

Transposase IS6 family

dld

D-Lactate dehydrogenase

orf19

Hypothetical protein

orf20

Hypothetical protein

orf21

Hypothetical protein

tra*

Transposase IS6 family

uspA

Universal stress protein

mntH

Manganese transporter

tra*

Transposase IS3 family

orf26*

integrase/recombinase

orf27

Hypothetical protein

mobC

Mobilisation protein

mobA

Mobilisation protein

mobB

Mobilisation protein

mobD

Mobilisation protein

pLd8

repB1

Replication initiator protein

parA

Chromosome partitioning protein

orf3

Hypothetical protein

orf4

Serine protease

repB2

Replication initiator protein

orf6

Hypothetical protein

orf7

Hypothetical protein

orf8

Hypothetical protein

orf9

Hypothetical protein

orf10

Nickase

tra

Transposase IS6 family

mntH

Manganese transporter

uspA

Universal stress protein

tra

Transposase IS6 family

tra*

Transposase IS6 family

orf16

AAC(3) family N-acetyltransferase

tra

Transposase IS982 family

orf18

C4-dicarboxylate ABC transporter

tra

Transposase IS982 family

orf20

Hypothetical protein

orf21

Hypothetical protein

orf22

Large-conductance mechanosensitive channel

lacX

Hypothetical protein

lacG

6-phospho-beta-galactosidase

lacE

PTS lactose transporter subunit IIBC

lacF

PTS lactose transporter subunit IIA

lacD

Tagatose 1,6-diphosphate aldolase

lacC

Tagatose-6-phosphate kinase

lacB

Galactose-6-phosphate isomerase subunit LacB

lacA

Galactose-6-phosphate isomerase subunit LacA

lacR*

Lactose repressor

tra*

Transposase IS3 family

orf33

Type II restriction modification system

Leuconostoc mesenteroides

orf34

Type II restriction modification system

Leuconostoc mesenteroides

orf35

Hypothetical protein

tnpR

Resolvase

orf37

Hypothetical protein

orf38

Hypothetical protein

pepO

Neutral endopeptidase

oppA

Peptide-binding protein

oppC

Peptide ABC transporter permease

oppB

Peptide ABC transporter permease

oppF

Oligopeptide transport ATP-binding protein

oppD

Oligopeptide transport ATP-binding protein

tra

Transposase IS982 family

pLd9

repB

Replication initiator protein

orf2

Hypothetical protein

hsdS

Type I restriction-modification system specificity subunit S

abi*

Abortive phage resistance protein

tra

Transposase IS6 family

dld

D-lactate dehydrogenase

tra

Transposase IS6 family

orf8

Hypothetical protein

orf9

MFS transporter

tra

Transposase IS6 family

tra*

Transposase IS982 family

orf12

Amidohydrolase of peptidase M20 family

orf13

Hypothetical protein

orf14

Site-specific integrase

orf15

Integrase-associated protein

pLd10

repB1

Replication initiator protein

orf2

Replication-associated protein

tra

Transposase IS982 family

epsR

XRE family transcriptional regulator

epsX

Polysaccharide biosynthesis protein

epsA

Tyrosine protein kinase transmembrane modulator

epsB

Tyrosine protein kinase

epsC

Tyrosine protein phosphatase

epsD

Undecaprenyl-phosphate galactosephosphotransferase

epsE

Group 1 glycosyltransferase

epsL

Exopolysaccharide biosynthesis protein

orfY

LytR family transcriptional regulator

tra*

Transposase IS6 family

tra

Transposase IS3 family

tra

Transposase IS3 family

tra

Transposase IS256 family

orf17

XRE family transcriptional regulator

orf18

Replication-associated protein

repB2

Replication initiator protein

mobD

Mobilisation protein

mobB

Mobilisation protein

mobA

Mobilisation protein

mobC

Mobilisation protein

orf24

Hypothetical protein

orf25

Integrase

orf26

Hypothetical protein

tra*

Transposase IS6 family

orf28

Hypothetical protein

epsG

Glycosyltransferase family 2 protein

epsH

Glycosyltransferase family 2 protein

tra

Transposase IS6 family

epsI*

Glycosyltransferase

wzxA

Flippase

tra

Transposase IS6 family

tra*

Transposase

Lactobacillus/Oenococcus/Enterococcus

tra*

Transposase

Lactobacillus

tra

Transposase IS30 family

Lactobacillus

wzxB

Flippase

Lactobacillus

wzy

Polymerase

Lactobacillus

orf40

Hypothetical protein

epsM

Glycosyltransferase family 2 protein

Lactobacillus

epsN

Glycosyltransferase

Lactobacillus

epsO

Glycosyltransferase family 1 protein

Lactobacillus

orf44

DUF4411 domain-containing protein

Lactobacillus plantarum

tra

Transposase ISL3 family

Lactobacillus

orf46

Hypothetical protein

Lactobacillus

orf47

Hypothetical protein

orf48

Hypothetical protein

orf49

Resolvase

pLd11

repB

Replication initiator protein

orf2

Replication-associated protein

orf3

Relaxase/mobilisation nuclease domain protein

pepE

Peptidase E

tra

Transposase IS6 family

tra*

Transposase IS6 family

orf7

DUF1919 domain-containing protein

orf8

DUF3883 domain-containing protein

orf9

Relaxase

orf10

Hypothetical protein

orf11

Hypothetical protein

mobC

Mobilisation relaxosome protein

pLd12

repB

Replication initiator protein

hsdS

Type I restriction-modification system specificity subunit S