Feasibility of Genome-Wide Screening for Biosafety Assessment of Probiotics: A Case Study of Lactobacillus helveticus MTCC 5463

Probiotics and Antimicrobial Proteins

Volumn 7, Issue 4, 2015, Pages 249-258

  Senan, S ^a   Prajapati, J B ^b   Joshi, C G ^b  

^a SOUTH DAKOTA STATE UNIVERSITY   (United States)

^b ANAND AGRICULTURAL UNIVERSITY   (India)

Author keywords

16S rRNA; Antibiotic resistance; Lactobacillus spp; Probiotics

Indexed keywords

BACTERIOCIN; BETA LACTAM; CRISPR ASSOCIATED PROTEIN; HEMOLYSIN; INTEGRASE; PROBIOTIC AGENT; QUINOLINE DERIVED ANTIINFECTIVE AGENT; TRANSPOSASE;

ANTIBIOTIC RESISTANCE; ARTICLE; BACTERIAL GROWTH; BACTERIAL STRAIN; BACTERIAL VIRULENCE; BIOSAFETY; CRISPR CAS SYSTEM; FEASIBILITY STUDY; GENE INSERTION SEQUENCE; GENE SEQUENCE; GENETIC ASSOCIATION; GENETIC SCREENING; HIGH THROUGHPUT SEQUENCING; LACTOBACILLUS HELVETICUS; NONHUMAN; PLASMID; PRIORITY JOURNAL; PROPHAGE; PYROSEQUENCING; BACTERIAL GENOME; DRUG EFFECTS; GENETIC DATABASE; GENETICS; PATHOGENICITY; PRODUCT SAFETY; VIRULENCE;

CONSUMER PRODUCT SAFETY; DATABASES, GENETIC; DRUG RESISTANCE, BACTERIAL; FEASIBILITY STUDIES; GENOME, BACTERIAL; HEMOLYSIN PROTEINS; LACTOBACILLUS HELVETICUS; PROBIOTICS; VIRULENCE;

EID: 84947494303     PISSN: 18671306     EISSN: None     Source Type: Journal    
DOI: 10.1007/s12602-015-9199-1     Document Type: Article

References (45)

1. European Food Safety Authority (2007) Scientific Opinion of the scientific committee on the introduction of a Qualified Presumption of Safety (QPS) approach for assessment of selected microorganisms referred to EFSA. EFSA J 578:1–16
2. Salminen S, Nybom S, Meriluoto J, Carmen M, Vesterlund S, El-Nezami H (2010) Interaction of probiotics and pathogens: benefits to human health? Curr Opin Biotechnol 21:157–167. doi:10.1016/j.copbio.2010.03.016
3. Brughton RA, Gruber WC, Haffar AA, Baker CJ (1983) Neonatal meningitis due to Lactobacillus. Pediatr Infect Dis J 2:382–384
4. Harty DW, Oakey HJ, Patrikakis M, Hume HJ, Knox KW (1994) Pathogenic potential of lactobacilli. Int J Food Microbiol 24:179–189
5. Rautio MH, Jousimies-Somer H, Kauma H, Pietarinen M, Saxelin S, Tynkkynen S, Koskela M (1999) Liver abscess due to a Lactobacillus rhamnosus strain indistinguishable from L. rhamnosus strain GG. Clin Infect Dis 28:1159–1160
6. Adams M, Mitchell R (2002) Fermentation and pathogen control: a risk assessment approach. Int J Food Microbiol 79:75–78
7. Borriello SP, Hammes WP, Holzapfel W (2003) Safety of probiotics that contain lactobacilli or bifidobacteria. Clin Infect Dis 36:775–780
8. Lee SY, Chang MT, Lee MH, Wu MS (2004) Lactobacillus peritonitis: a rare cause of peritonitis in peritoneal dialysis patients. Ren Fail 26:419–423
9. Tleyjeh IM, Routh M, Qutub MO, Lischer G (2004) Lactobacillus gasseri causing Fournier’s gangrene. Scand J Infect Dis 36:501–503
10. Kubiszewska I, Januszewska M, Rybka J, Gackowska L (2014) Lactic acid bacteria and health: are probiotics safe for human? Postepy Hig Med Dosw 17:1325–1334
11. Sanders ME, Akkermans LMA, Haller D, Hammerman C, Heimbach J, Huys G, Levy D, Mack D, Phothirath P, Constable A, Solano-Aguilar G, Vaughan E (2010) Assessment of probiotic safety for human use. Gut Microbes 1:1–22
12. International Life Sciences Institute Risk Science Institute Pathogen Risk Assessment Working Group (1996) A conceptual framework to assess the risks of human disease following exposure to pathogens. Risk Anal 16:841–848
13. Didelot X, Bowden R, Wilson DJ, Peto TA, Crook DW (2012) Transforming clinical microbiology with bacterial genome sequencing. Nat Rev Genet 13:601–612. doi:10.1038/nrg3226
14. Klaenhammer TR, Azcarate-Peril MA, Altermann E, Barrangou R (2007) Influence of the dairy environment on gene expression and substrate utilization in lactic acid bacteria. J Nutr 137:748–750
15. Callanan M, Kaleta P, O’Callaghan J, O’Sullivan O, Jordan K (2008) Genome sequence of Lactobacillus helveticus, an organism distinguished by selective gene loss and insertion sequence element expansion. J Bacteriol 190:727–735. doi:10.1128/JB.01295-07
16. Zhao W, Chen Y, Sun Z, Wang J, Zhou Z, Sun T, Wang L, Chen W, Zhang H (2011) Complete genome sequence of Lactobacillus helveticus H10. J Bacteriol 193:2666–2667. doi:10.1128/JB.00166-11
17. Prajapati JB, Khedkar CD, Chitra J (2011) Whole genome shotgun sequencing of Indian origin strain of Lactobacillus helveticus strain MTCC 5463 with probiotic potential. J Bacteriol 193:4282–4283. doi:10.1128/JB.05449-11
18. Tompkins TA, Barreau G, Broadbent JR (2012) Complete genome sequence of Lactobacillus helveticus R0052, a commercial probiotic strain. J Bacteriol 194:6349. doi:10.1128/JB.01638-12
19. Brul S, Bassett JP, Cook P (2012) Omics’ technologies in quantitative microbial risk assessment. Trends Food Sci Technol 27:12–24
20. Zhang ZY, Liu C, Zhu YZ, Wei YX, Tian F, Zhao GP, Guo XK (2012) Safety assessment of Lactobacillus plantarum JDM1 based on the complete genome. Int J Food Microbiol 153:166–170. doi:10.1016/j.ijfoodmicro.2011.11.003
21. Khedekar CD, Dave JM, Sannabhadti SS (1990) Inhibition of growth of pathogenic microorganisms during production and storage of cultured milk. J Food Sci Technol 27:214–217
22. Patidar SK, Prajapati JB (1999) Effect of feeding Lactobacilli on serum antibody titre and faecal flora in chicks. Microbiogie Aliments Nutr 17:145–154
23. Ashar N, Prajapati JB (1999) Evaluation of hypolipemic effect of feeding Lactobacillus acidophilus V3 in human subjects. J Dairy Foods Home Sci 18:78–84
24. Prajapati JB, Senan S, Momin JK, Damor R (2012) A randomised double blind placebo controlled trial of potential probiotic strain Lactobacillus helveticus MTCC 5463: assessment of its safety, tolerance and influence on intestinal well-being and humoral immune response in healthy human volunteers. Int J Health Pharm Sci 3:1–12
25. Kodaikkal V, Prajapati JB, Ljungh A (2012) Evaluation of adhesion of Lactobacillus strains to HT 29 cells by a flow cytometric assay. Int J Appl Anim Sci 1:1–7
26. Senan S, Prajapati JB, Joshi CG (2015) Whole-genome based validation of the adaptive properties of Indian origin probiotic Lactobacillus helveticus strain MTCC 5463. J Sci Food Agric 95:321–328
27. Senan S, Prajapati JB, Joshi CG (2014) Comparative genome-scale analysis of niche-based stress-responsive genes in Lactobacillus helveticus strains. Genome 57:185–192. doi:10.1139/gen-2014-0020
28. Wei YX, Zhang ZY, Liu C (2012) Safety assessment of Bifidobacterium longum JDM301 based on complete genome sequences. World J Gastroenterol 18:479–488. doi:10.3748/wjg.v18.i5.479
29. Bourdichon F, Casaregola S, Farrokh C (2012) Food fermentations: microorganisms with technological beneficial use. Int J Food Microbiol 154:87–97. doi:10.1016/j.ijfoodmicro.2011.12.030
30. Bennedsen M, Stuer-Lauridsen B, Danielsen M, Johansen E (2011) Screening for antimicrobial resistance genes and virulence factors via genome sequencing. Appl Environ Microbiol 77:2785–2787. doi:10.1128/AEM.02493-10
31. Hacker J, Kaper JB (1999) The concept of pathogenicity islands. In: Kaper JB, Hacker J (eds) Pathogenicity islands and other mobile virulence elements. ASM Press, Washington, DC, pp 1–11
32. Sui SJ, Fedynak A, Hsiao WML (2009) The association of virulence factors with genomic islands. PLoS ONE 4:8094. doi:10.1371/journal.pone.0008094
33. Macklaim JM, Gloor GB, Anukam KC, Cribby S, Reid G (2011) At the crossroads of vaginal health and disease, the genome sequence of Lactobacillus iners AB-1. Proc Natl Acad Sci USA 108:4688–4695. doi:10.1073/pnas.1000086107
34. Siezen RJ, van Hylckama Vlieg LET (2011) Genomic diversity and versatility of Lactobacillus plantarum, a natural metabolic engineer. Microb Cell Fact 10:S1–S3. doi:10.1186/1475-2859-10-S1-S3
35. Parkhill J, Sebaihia M, Preston A, Murphy LD (2003) Comparative analysis of the genome sequences of Bordetella pertussis, Bordetella parapertussis and Bordetella bronchiseptica. Nat Genet 35:32–40
36. Zarazaga M, Sáenz Y, Portillo A, Tenorio C, Ruiz-Larrea F, Del Campo R, Baquero F, Torres C (1999) In vitro activities of ketolide HMR3647, macrolides, and other antibiotics against Lactobacillus, Leuconostoc, and Pediococcus isolates. Antimicrob Agents Chemother 43:3039–3041
37. Temmerman R, Pot B, Huys G, Swings J (2003) Identification and antibiotic susceptibility of bacterial isolates from probiotic products. Int J Food Microbiol 81(1):1–10
38. Hummel A, Holzapfel WH, Franz CM (2007) Characterization and transfer of antibiotic resistance genes from enterococci isolated from food. Syst Appl Microbiol 30:1–7
39. Halttunen TMC, Collado H, El-Nezami H (2008) Combining strains of lactic acid bacteria may reduce their toxin and heavy metal removal efficiency from aqueous solution. Lett Appl Microbiol 46:160–165
40. Penaud S, Fernandez A, Boudebbouze S (2006) Induction of heavy-metal-transporting CPXtype ATPases during acid adaptation in Lactobacillus bulgaricus. Appl Environ Microbiol 72:7445–7454
41. Azcarate-Peril MAE, Altermann LG, Goh YJ, Tallon R (2008) Analysis of the genome sequence of Lactobacillus gasseri ATCC 33323 reveals the molecular basis of an autochthonous intestinal organism. Appl Environ Microbiol 74:4610–4625. doi:10.1128/AEM.00054-08
42. Kim DH, Jung EA, Sohng IS, Han JA, Kim TH, Han MJ (1998) Intestinal bacterial metabolism of flavonoids and its relation to some biological activities. Arch Pharm Res 21:17–23
43. Chen X, Wu B, Wang PG (2003) Glucuronides in anti-cancer therapy. Curr Med Chem Anti-Cancer Agents 3:139–150
44. Gloux K, Berteau O, Oumami HE, Béguet F, Leclerc M, Doré J (2011) A metagenomic β-glucuronidase uncovers a core adaptive function of the human intestinal microbiome. PNAS 108:4539–4546. doi:10.1073/pnas.1000066107
45. Lebeer S, Vanderleyden J, De Keersmaecker SC (2008) Genes and molecules of lactobacilli supporting probiotic action. Microbiol Mol Biol Rev 72:728–764. doi:10.1128/MMBR.00017-08