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Table 3 Comparison of important genes encoding beneficial proteins in P. pentosaceus LI05, P. pentosaceus ATCC 25745, P. pentosaceus SL4 and P. pentosaceus IE-3

From: Whole-genome sequence assembly of Pediococcus pentosaceus LI05 (CGMCC 7049) from the human gastrointestinal tract and comparative analysis with representative sequences from three food-borne strains

Characterization Locus_tag Size (bp) Product description Identity (BLASTx) Max. identity to proteins of other species (BLASTp) (%)
ATCC 25745 (%) SL4 (%) IE-3 (%)
Adhesion BB06_RS0106620 306 Competence protein ComGC 99.67 99.67 100 76.47
BB06_RS0106150 1,188 Elongation factor Tu 99.92 99.92 100 95.69
BB06_RS0102755 1,323 Enolase 99.92 99.85 100 91.82
BB06_RS0107170 330 Pilus biosynthesis protein HicB 100 100 100 60.91
BB06_RS0108295 660 Sortase 99.70 99.24 99.85 76.71
BB06_RS0102750 756 Triosephosphate isomerase 100 99.47 100 93.23
Antimicrobial BB06_RS0101015 182 Prebacteriocin 100 - - 96.30
BB06_RS0105320   Lysin 92.84 91.02 - 86.70
BB06_RS0100880 528 Colicin V production family protein 99.24 99.24 99.81 61.64
Biosynthesis of peptidoglycans BB06_RS0102815 903 UDP-N-acetylenolpyruvoylglucosamine reductase 100 98.9 100 84.62
BB06_RS0106375 1,368 UDP-N-acetylmuramoylalanine-D-glutamate ligase 99.05 98.90 100 74.23
BB06_RS0107220 687 Peptidoglycan-binding protein LysM 99.85 99.71 99.85 67.54
BB06_RS0100815 1,338 Peptidoglycan-binding protein 88.20 89.95 99.85 55.53
Riboflavin synthesis BB06_RS0100520 471 Riboflavin synthase, beta subunit 98.09 97.74 60.30 61.43
BB06_RS0100530 606 Riboflavin synthase, alpha subunit 98.84 97.85 100 61.14
BB06_RS0100535 1,083 Riboflavin biosynthesis protein RibD 99.26 99.26 100 57.61
BB06_RS0104850 945 Riboflavin biosynthesis protein RibF 97.46 99.26 100 74.84
BB06_RS0105860 360 Riboflavin biosynthesis acetyltransferase (GNAT) family 100 99.72 100 84.14
Folate BB06_RS0106895 1,275 Folylpolyglutamate synthase 99.45 99.53 - 59.52
BB06_RS0105770 486 Dihydrofolate reductase 98.56 98.56 55.76 53.13
Gamma-aminobutyrate BB06_RS0107660 1,452 Gamma-aminobutyrate permease 99.38 99.66 100 85.45
Biotin BB06_RS0108625 560 Biotin biosynthesis protein BioY 99.47 99.47 100 55.19
Thiamine BB06_RS0106910 1,188 Thiamine biosynthesis protein ThiI 99.67 99.67 100 88.64
BB06_RS0107185 942 Thiamine biosynthesis protein ApbE 98.09 98.93 99.79 63.96
  1. Note: “-”, no detection.