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Jones et al. Microbiome Res Rep 2024;3:24 https://dx.doi.org/10.20517/mrr.2023.78 Page 5 of 12

Table 1. Abridged version of urobiome strains of interest which encode putative bacteriocin gene cluster(s) with surrounding
accessory genes present
Query % Alignment Accession
BAGEL4 AOIs Genome name BLASTP result
cover identity EMBOSS Number
ACIDOCIN_LF22IB Lactobacillus gasseri Blp family class II 100% 100% 100% WP_003649213.1
(GASSERICINK7B) str. UMB0099 bacteriocin
[Lactobacillus]
BACTERIOCIN_LS2CHAINB* Lactobacillus gasseri Blp family class II 97% 47.76% 43.8% WP_032495430.1
str. UMB0099 bacteriocin
[Ligilactobacillus salivarius]
BOVICIN_225_PEPTIDE* Streptococcus Bacteriocin class II with 100% 93.5% 95.9% MCO4620482.1
macedonicus str. double glycine leader
UMB0733 peptide
[Streptococcus infantarius
subsp. Infantarius]
COLICIN* Proteus mirabilis str. Colicin-E2 99% 99% 99.1% AWF41001.1
UMB0315 [Proteus mirabilis]
COMC; L_BIOTIC_TYPEA; Streptococcus Bacteriocin 100% 78% 78% WP_114317773.1
BACTERIOCIN_IIC* macedonicus str. [Streptococcus gallolyticus]
UMB0733
GASSERICIN_T Lactobacillus gasseri Blp family class II 100% 100% 100% WP_049159833.1
str. UMB0099 bacteriocin
[Lactobacillus paragasseri]
GGMOTIF; BACTERIOCIN_IIC; Lactobacillus gasseri Blp family class II 100% 100% 100% WP_101890487.1
str. UMB0099 bacteriocin
[Lactobacillus]
L_BIOTIC_TYPEA; Lactobacillus gasseri Lactacin F inducer peptide 100% 84% 92% WP_260307981.1
BACTERIOCIN_IIC* str. UMB0099 precursor
[Lactobacillus johnsonii]
MICROCIN_M* Lactobacillus gasseri Bacteriocin 100% 100% 100% WP_101890486.1
str. UMB0099 [Lactobacillus]
NISIN_U* Streptococcus Gallidermin/nisin family 100% 100% 75% WP_228478826.1
macedonicus str. lantibiotic
UMB0733 [Streptococcus suis]
PEDIOCIN* Lactobacillus gasseri Bacteriocin immunity 100% 100% 100% WP_101890489.1
str. UMB0099 protein
[Lactobacillus]
UBERICIN_A* Streptococcus Blp family class II 93% 100% 93.5% WP_003066580.1
macedonicus str. bacteriocin
UMB0733 [Streptococcus]
UNIDENTIFIED BACTERIOCIN* Lactobacillus gasseri Bacteriocin 100% 100% 100% WP_049160225.1
str. UMB0099 [Lactobacillus]

A full summary of all 53 novel urobiome strains which encode putative bacteriocin gene cluster(s) is available in Supplementary Table 2. Putative
bacteriocin hits are presented with their closest homologues as identified through BLASTP analysis and alignment using EBI EMBOSS Needle, with
an asterisk (*) representing the bacteriocins that are potentially novel by either differing by two or more amino acids or matching to a reported
but previously uncharacterised bacteriocin. AOIs: Areas of interests.

antibiotics and food preservatives . Additionally, many lactic acid bacteria (LAB) and their products are
[37]
generally recognised as safe (GRAS status) by the FDA [37,38] .

[30]
Lactobacillus gasseri UMB0099 was isolated by Miller-Ensminger et al. (2018) from a urine sample
collected by catheter from a patient suffering from an overactive bladder (OAB). BAGEL4 analysis revealed
that this strain encoded nine putative bacteriocin peptides in total. One was removed as it lacked the
associated production proteins. The remaining eight included three “generic” bacteriocins (dark green
peptides; bacteriocin 1-3), gassericin T, acidocin_LF221B, microcin M, pediocin, and a bacteriocin LS2
chain b peptide [Figure 2A]. The gassericin T, acidocin_ LF221B (gassericin K7B), and bacteriocin-2
putative core peptides [Figure 2A] all represent 100% identity to previously characterised Blp class II
[39]
bacteriocins [39,40] . Blp bacteriocin gene clusters are known to encode multiple bacteriocin-like peptides