Table 3

Overview of selected genome characteristics of Listeria genomes used for comparative analysis

Strain

No. of strain specific ORFsa

No. of internalin genes

% ORFs introduced by HGTb

No. of prophagesc

No. of monocinsd

R-M systeme

CRISPRf presence

Plasmid presence

No. of Transposonsg


L. monocytogenes

F2365

8

26

3.4

0

1

II

no

no

0

EGD-e

36

25

3.4

1*

1

-

yes

no

1

CLIP81459

9

28

3.2

0

1

I

no

no

0

HCC23

44

18

4.8

3

0

II

yes

no

0

FSL F2-208

101

23

4.6

1*

1

I

yes

no

1

L. marthii

FSL S4-120

74

19

6.4

0

1

I

yes

no

0

L. innocua

CLIP11262

159

20

4.0

5*

1

I

yes

yes

0

FSL S4-378

108

19

5.9

2

1

I

yes

no

0

FSL J1-023

47

17

4.5

0

1

II (2)

no

no

0

L. welshimeri

SLCC5334

113

9

3.6

1

0

I

no

no

1

L. ivanovii

FSL F6-596

230

20

2.0

1

2

-

yes

no

0

L. seeligeri

FSL S4-171

91

17

3.0

1*

2

I

no

no

0

FSL N1-067

234

15

4.3

2*

1

I & III

yes

yes

0


a ORFs were designated as 'strain specific' if they were only present in one strain (based on comparisons with the other genomes included in our study here

b These ORFs were detected as derived from horizontal gene transfer by the SIGI-HMM program [47].

c An asterisk indicates that one of the prophages is inserted in comK.

d The number of regions encoding monocins, defective prophage or satellite prophages.

e I = Type I Restriction-Modification (R-M) system, II = Type II R-M system, III = Type III R-M system, - = no R-M system.

f CRISPR stands for Clustered, regularly interspaced, short palindromic repeat loci.

g The integrative and conjugative element found in the genome of L. welshimeri (Genbank accession AM 263198: lwe0767-lwe0796) was not reported in the original publication of this genome.

den Bakker et al. BMC Genomics 2010 11:688   doi:10.1186/1471-2164-11-688

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