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Table 1 L. monocytogenes genomes analyzed in this study

From: Probing the pan-genome of Listeria monocytogenes: new insights into intraspecific niche expansion and genomic diversification

Strain Lineage Serotype Size (bp) Contigs1 Genes2 % Identity3 Genbank Accession Sequencing institution Note4
EGD-e II 1/2a 2,944,528 Closed 2931 100 AL591824 European consortium [43] DSA
R2-561 II 1/2c 2,945,851 37 2993 99.78 AARS00000000 Broad Institute DS
LO28 II 1/2c 2,675,580 1150 3030 99.6 AARY00000000 Broad Institute/Institut Pasteur D
Finland 1988 II 3a 2,834,040 49 2740 98.49 AART00000000 Broad Institute S
10403S II 1/2a 2,873,541 21 2905 98.48 AARZ00000000 Broad Institute DS
F2-515 II 1/2a 1,815,995 1728 2710 98.47 AARI00000000 Broad Institute D
N3-165 II 1/2a 2,884,080 39 2885 98.39 AARQ00000000 Broad Institute DS
J2-003 II 1/2a 2,741,640 795 2972 98.32 AARM00000000 Broad Institute D
F6900 II 1/2a 2,968,620 23 3007 98.28 AARU00000000 Broad Institute DS
F6854 II 1/2a 2,950,285 133 2967 98.26 AADQ00000000 TIGR DS
J2818 II 1/2a 2,973,040 24 3020 98.24 AARX00000000 Broad Institute DS
J0161 II 1/2a 3,062,582 25 3114 98.23 AARW00000000 Broad Institute DS
J1-175 I 1/2b 2,866,484 457 3178 94.39 AARK00000000 Broad Institute D
J2-064 I 1/2b 2,828,700 545 2968 94.37 AARO00000000 Broad Institute D
R2-503 I 1/2b 2,991,493 55 2968 94.28 AARR00000000 Broad Institute S
J1-194 I 1/2b 2,989,818 30 3040 94.27 AARJ00000000 Broad Institute DS
N1-017 I 4b 3,142,060 79 3253 94.2 AARP00000000 Broad Institute DS5
Clip 80459 I 4b 2,912,690 Closed 2972 94.17 FM242711 Institut Pasteur S
F2365 I 4b 2,905,187 Closed 2907 94.14 AE017262 TIGR [85] DS
H7858 I 4b 2,972,254 181 3195 94.08 AADR00000000 TIGR DS
HPB2262 I 4b 2,991,120 79 3067 93.98 AATL00000000 Broad Institute/Istituto Superiore di Sanita DS
HCC23 III 4a 2,976,212 Closed 3059 92.38 CP001175 Mississippi State University S
F2-524 IIIA 4a - - - - - - A
F2-501 IIIA 4b - - - - - - A
J2-071 IIIA 4c 2,851,800 53 2778 92.6 AARN00000000 Broad Institute DA5
J1-208 IIIB 4a 1,963,740 1660 2809 91.8 AARL00000000 Broad Institute DA
M1-002 IIIB 4b - - - - - - A
W1-111 IIIB 4c - - - - - - A
F2-208 IIIC 4a - - - - - Life Technologies Corporation/Cornell University A
F2-569 IIIC 4b - - - - - - A
W1-110 IIIC 4c - - - - - - A
  1. 1Number of contigs based on GenBank at the time of our study. Strains with > 200 contigs were sequenced only to low coverage and were excluded from analysis.
  2. 2Number of annotated protein coding genes and RNAs based on GenBank.
  3. 3Nucleotide sequence identity in reference to EGD-e.
  4. 4Strains used for array design (D); comparative sequence analysis (S), comparative genomic hybridizations (A).
  5. 5Strains N1-017 and J2-071 were found to be mislabeled in GenBank; this has since been fixed.
  6. - Information not available.