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Table 1 Strains used for comparative genomic analysis

From: Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss

Strain designationa

Source, geographic origin, lineageb

Genome size (Mbp)C

Hemolytic activity

Pathogend

Genbank acc. number or Genome project IDe

L. monocytogenes

     

   F2365†

food, listeriosis outbreak, CA, USA, 1985, lineage I

2.91

+

+

AE017262

   EGD-e†

lab strain derived from isolate of rabbit, England, 1924, lineage II

2.94

+

+

AL591824

   FSL F2-208*

blood, human listeriosis case, USA, 1999, lineage IIIC

3.20

+

+

ADXE00000000*

   HCC23†

naturally avirulent serotype 4a strain from catfish, USA, lineage IIIA

2.98

+

-

CP001175

   CLIP80459†

human epidemic, France, 1999, lineage I

2.91

+

+

FM242711

L. marthii

     

   FSL S4-120*

soil, forest, NY, USA, 2001

2.87

-

-

ADXF00000000*

L. innocua

     

   CLIP11262†

food, Morocco

3.01

-

-

AL592102

   FSL S4-378*

puddle of water, NY, USA, 2002

3.09

-

-

ADXG00000000*

   FSL J1-023*

obtained from Qualicon, exact origin unknown

2.91

+

-

ADXH00000000*

L welshimeri

     

   SLCC5334†

decaying vegetation, USA

2.81

-

-

AM263198

L. ivanovii

     

   FSL F6-596*

food, France

3.10

+

+

ADXI00000000*

L. seeligeri

     

   FSL N1-067*

food processing plant, NY, USA

3.09

+

-

ADXJ00000000*

   FSL S4-171*

urban environment, NY, USA, 2001

2.89

-

-

ADXK00000000*

  1. a A † indicates strains for which the complete genome sequence is publicly available, an * indicates strains that were sequenced as part of the study reported here. The L. ivanovii strain sequenced here is the type strain of L. ivanovii subsp londoniensis (ATCC 49954). L. monocytogenes FSL R2-574, a duplicate of L. monocytogenes F2365, was sequenced to assess the performance of the sequence and genome assembly methods.
  2. b For L. monocytogenes the intraspecific phylogenetic lineage to which the isolates belong is indicated.
  3. c Sizes of newly sequenced genomes were derived from the sum of the length of all contigs from the de novo assembly.
  4. d All L. monocytogenes strains were classified as pathogens based on their involvement in clinical cases and/or their virulence in mouse studies (i.e., EGD-e [86], F2365 [87]) except for L. monocytogenes HCC23, which has been shown to be non-pathogenic [78]. The hemolytic L. innocua FSL J1-023 was considered non-pathogenic based on its avirulence in a mouse infection experiment [22]. All non-hemolytic strains were considered avirulent as they lack the prfA virulence cluster. Avirulence for some strains was also supported by animal experiments (i.e., L. welshimeri [77]; L. innocua CLIP11262 [21]) or tissue culture data (i.e., L. marthii [1]). The hemolytic L. seeligeri strain was considered avirulent as it shows low invasion efficiencies for Caco-2 cells (comparable to avirulent L. innocua; see Figure 5) and as other hemolytic L. seeligeri strains have been shown to be avirulent in mouse infection experiments [77].
  5. e Accession numbers marked with an asterisk have been deposited as Whole Genome Shotgun projects at DDBJ/EMBL/GenBank under the accession xxxx00000000. The version described in this paper is the first version, xxxx01000000.
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BMC Genomics

ISSN: 1471-2164

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