TABLE 3.

Regions of high variability between strains as mapped on the chromosome of L. plantarum strain WCFS1 and main functions of the genes they containa

Range on chromosome (Mb)Size (kb)Range of genesMain function(s)
0.142-0.15614.6lp_0164-lp_0179Sugar catabolism, sugar ABC transporter
0.220-0.2299.1lp_0244-lp_0254Possibly sugar catabolism
0.344-0.38137.8lp_0373-lp_0426Plantaricin production and immunity
0.432-0.44715.2lp_0483-lp_0499Various
0.533-0.55218.5lp_0576-lp_0584Mannose PTS and non-ribosomal peptide biosynthesis cluster
0.591-0.62837.4lp_0625-lp_0683Prophage
0.833-0.8374.2lp_0904-lp_0906β-Glucoside PTS and hydrolysis
0.869-0.8789.0lp_0.939-lp_0946Restriction modification system
1.060-1.0688.4lp_1162-lp_1171Various
1.072-1.08714.9lp_1176-lp_1189Exopolysaccharide biosynthesis
1.089-1.12637.0lp_1193-lp_1238Exopolysaccharide biosynthesis
1.235-1.24712.1lp_1343-lp_1358Putative pheromone production, extracellular protein production
1.275-1.2837.8lp_1393-lp_1400β-glucosides PTS
1.350-1.37625.3lp_1473-lp_1503Nitrate reductase and molybdopterin biosynthesis cluster
1.738-1.75315.3lp_1920-lp_1933Various
1.767-1.7736.3lp_1953-lp_1958ABC transporter
1.804-1.81612.2lp_1994-lp_2015Transposon fragments
1.869-1.8767.1lp_2074-lp_2078Nitrate transporter
2.061-2.0697.9lp_2282-lp_2290Various
2.116-2.1204.2lp_2340-lp_2344Various
2.160-2.20241.9lp_2396-lp_2454Prophage
2.205-2.21711.8lp_2461-lp_2479Prophage
2.284-2.2884.2lp_2564-lp_2568Putative Mg2+ and Co2+ transport cluster
2.310-2.32312.8lp_2593-lp_2603Sugar metabolism
2.563-2.57714.3lp_2880-lp_2900Various
2.658-2.6634.9lp_2987-lp_2992Various
2.691-2.6987.3lp_3024-lp_3034Various
2.70-2.85150lp_3040-lp_3196Various; among others, extracellular proteins and sugar metabolism
2.876-2.8836.5lp_3228-lp_3234PTS system
2.998-3.0078.6lp_3377-lp_3390Prophage
3.023-3.0329.0lp_3411-lp_3416Extracellular protein biosynthesis
3.10-3.29190lp_3488-lp_3669Various, but mainly sugar metabolism
  • a Regions with a size of at least 4 kb that were absent in at least 30% of the strains.