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

Lv, Long-Xian; Li, Yu-Dong; Hu, Xin-Jun; Shi, Hai-Yan; Li, Lan-Juan

doi:10.1186/s13099-014-0036-y

Gut Pathogens

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) (%)
Characterization	Locus_tag	Size (bp)	Product description	ATCC 25745 (%)	SL4 (%)	IE-3 (%)	Max. identity to proteins of other species (BLASTp) (%)
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
Folate	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
Thiamine	BB06_RS0107185	942	Thiamine biosynthesis protein ApbE	98.09	98.93	99.79	63.96

Note: “-”, no detection.

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ISSN: 1757-4749

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