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Food Science of Animal Products 2023, 1(2): 9240013 https://doi.org/10.26599/FSAP.2023.9240013
Research Article | Open Access | Issue | Published: 26 June 2023

Antibacterial mechanisms, whole genome sequencing and potential functional prediction of Lactoplantibacillus plantarum L3

Show Author's Information Hongyu Jin,§,  Yuhan Wang,§,  Jing Kong,  Xiaoyun Han,  Mengyang Li,  Xiuliang Li,  Qingshen Sun( )
Engineering Research Center of Agricultural Microbiology Technology, Ministry of Education & Heilongjiang Provincial Key Laboratory of Plant Genetic Engineering and Biological Fermentation Engineering for Cold Region & Key Laboratory of Microbiology, College of Heilongjiang Province & School of Life Sciences, Heilongjiang University, Harbin 150080, China

§These authors contributed equally to the work.

Keywords:
functional prediction, Lactoplantibacillus plantarum L3, bacteriocin L3, bacteriostatic mechanism, whole genome sequencing
Cite this article:
Jin H, Wang Y, Kong J, et al. Antibacterial mechanisms, whole genome sequencing and potential functional prediction of Lactoplantibacillus plantarum L3. Food Science of Animal Products, 2023, 1(2): 9240013. https://doi.org/10.26599/FSAP.2023.9240013
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Abstract Full text About this article

In our previous study, we have isolated Lactoplantibacillus plantarum L3 (GenBank accession No. MT781360) which can secret bacteriocin L3 with broad-spectrum antibacterial activities. This work aimed to illustrate the antibacterial mechanism of bacteriocin L3 and predict the functionalities of the L. plantarum L3 strain through whole genome analysis. Preliminary exploration of the bacteriostatic mechanism showed that bacteriocin L3 destroyed the cell membrane integrity and led to the extravasation of the cell contents, leading to cell death. The sequencing results showed that the genome of Lactobacillus plantarum L3 was 3 187 020 bp in size, with a GC content of 44.57%. Overall, 3 024 encoding genes were annotated, with a sequence length of 2 679 162 bp, accounting for 84.06% of the total genome length. The strain has strong reproductive and metabolic abilities and high safety. The bacteriocin gene cluster analysis showed that the bacteriocins L3 belonged to the class IIb bacteriocins. This work might provide a theoretical basis for the application of this strain in the food industry, especially its potential use in dairy products.


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About this article

Antibacterial mechanisms, whole genome sequencing and potential functional prediction of Lactoplantibacillus plantarum L3

Show Author's information Hongyu Jin,§, Yuhan Wang,§, Jing Kong, Xiaoyun Han, Mengyang Li, Xiuliang Li, Qingshen Sun( )
Engineering Research Center of Agricultural Microbiology Technology, Ministry of Education & Heilongjiang Provincial Key Laboratory of Plant Genetic Engineering and Biological Fermentation Engineering for Cold Region & Key Laboratory of Microbiology, College of Heilongjiang Province & School of Life Sciences, Heilongjiang University, Harbin 150080, China

§These authors contributed equally to the work.

Abstract

In our previous study, we have isolated Lactoplantibacillus plantarum L3 (GenBank accession No. MT781360) which can secret bacteriocin L3 with broad-spectrum antibacterial activities. This work aimed to illustrate the antibacterial mechanism of bacteriocin L3 and predict the functionalities of the L. plantarum L3 strain through whole genome analysis. Preliminary exploration of the bacteriostatic mechanism showed that bacteriocin L3 destroyed the cell membrane integrity and led to the extravasation of the cell contents, leading to cell death. The sequencing results showed that the genome of Lactobacillus plantarum L3 was 3 187 020 bp in size, with a GC content of 44.57%. Overall, 3 024 encoding genes were annotated, with a sequence length of 2 679 162 bp, accounting for 84.06% of the total genome length. The strain has strong reproductive and metabolic abilities and high safety. The bacteriocin gene cluster analysis showed that the bacteriocins L3 belonged to the class IIb bacteriocins. This work might provide a theoretical basis for the application of this strain in the food industry, especially its potential use in dairy products.

Keywords: functional prediction, Lactoplantibacillus plantarum L3, bacteriocin L3, bacteriostatic mechanism, whole genome sequencing

References(40)

[1]

Y. Zhu, Y. Xu, Q. Yang, Antifungal properties and AFB1 detoxification activity of a new strain of Lactobacillus plantarum, J. Hazard Mater. 414 (2021) 125569. https://doi.org/10.1016/j.jhazmat.2021.125569.
DOI Google Scholar
[2]

F. Leroy, L. de Vuyst, Lactic acid bacteria as functional starter cultures for the food fermentation industry, Trends Food Sci. Technol. 15 (2004) 67–78. https://doi.org/10.1016/j.jpgs.2003.09.004.
DOI Google Scholar
[3]

A. Mayorgas, I. Dotti, A. Salas, Microbial metabolites, postbiotics, and intestinal epithelial function, Mol. Nutr. Food Res. 65 (2021) 2000188. https://doi.org/10.1002/mnfr.202000188.
DOI Google Scholar
[4]

A. Galvez, H. Abriouel, L. Lopez, et al., Bacteriocin-based strategies for food biopreservation, Int. J. Food Microbiol. 120 (2007) 51–70. https://doi.org/10.1016/j.ijfoodmicro.2007.06.001.
DOI Google Scholar
[5]

Y. Cui, L. Luo, X. Wang, et al., Mining, heterologous expression, purification, antibactericidal mechanism, and application of bacteriocins: a review, Compr. Rev. Food Sci. Food. Saf. 20 (2020) 863–899. https://doi.org/10.1111/1541-4337.12658.
DOI Google Scholar
[6]

J. Zhang, Y. Bu, C. Zhang, et al., Development of a low-cost and high-efficiency culture medium for bacteriocin Lac-B23 production by Lactobacillus plantarum J23, Biology (Basel) 9 (2020) 171–182. https://doi.org/10.3390/biology9070171.
DOI Google Scholar
[7]

S. C. Yang, C. H. Lin, C. T. Sung, et al., Antibacterial activities of bacteriocins: application in foods and pharmaceuticals, Front. Microbiol. 5 (2014) 683–692. https://doi.org/10.3389/fmicb.2014.00241.
DOI Google Scholar
[8]

X. Lv, H. Ma, M. Sun, et al., A novel bacteriocin DY4-2 produced by Lactobacillus plantarum from cutlassfish and its application as bio-preservative for the control of Pseudomonas fluorescens in fresh turbot (Scophthalmus maximus) fillets, Food Control 89 (2018) 22–31. https://doi.org/10.1016/j.foodcont.2018.02.002.
DOI Google Scholar
[9]

G. Liu, Z. Song, X. Yang, et al., Antibacterial mechanism of bifidocin A, a novel broad-spectrum bacteriocin produced by Bifidobacterium animalis BB04, Food Control 62 (2016) 309–316. https://doi.org/10.1016/j.foodcont.2015.10.033.
DOI Google Scholar
[10]

Y. Zhang, J. Yang, Y. Liu, et al., A novel bacteriocin PE-ZYB1 produced by Pediococcus pentosaceus zy-B isolated from intestine of Mimachiamys nobilis: purification, identification and its anti-listerial action, LWT-Food Sci. Technol. 118 (2020) 108760. https://doi.org/10.1016/j.lwt.2019.108760.
DOI Google Scholar
[11]

R. Zhao, Y. Lu, J. Ran, et al., Purification and characterization of bacteriocin produced by Lactobacillus rhamnosus zrx01, Food Biosci. 38 (2020) 100754. https://doi.org/10.1016/j.fbio.2020.100754.
DOI Google Scholar
[12]

S. Lim, N. Lee, H. Paik, Antibacterial and anticavity activity of probiotic Lactobacillus plantarum 200661 isolated from fermented foods against Streptococcus mutans, LWT-Food Sci. Technol. 118 (2019) 108840. https://doi.org/10.1016/j.lwt.2019.108840.
DOI Google Scholar
[13]

B. Muhialdin, H. Algboory, H. Kadum, et al., Antifungal activity determination for the peptides generated by Lactobacillus plantarum TE10 against Aspergillus flavus in maize seeds, Food Control 109 (2020) 106898. https://doi.org/10.1016/j.foodcont.2019.106898.
DOI Google Scholar
[14]
E. Salvetti, S. Torriani, G. Felis., The genus Lactobacillus: a taxonomic update Probiotics. Antimicro. 4 (2012) 217−226. https://doi.org/10.1007/s12602-012-9117-8.
DOI
[15]

A. Zepeda-Hernandez, L. Garcia-Amezquita, T. Requena, et al., Probiotics, prebiotics, and synbiotics added to dairy products: uses and applications to manage type 2 diabetes, Food Res. Int. 142 (2021) 110208. https://doi.org/10.1016/j.foodres.2021.110208.
DOI Google Scholar
[16]

S. Choi, H. Youn, W. Hong, et al., Intranasal administration model for evaluating protection against influenza virus in mice, J. Bacteriol. Virol. 45 (2015) 44–50. https://doi.org/10.4167/jbv.2015.45.1.44.
DOI Google Scholar
[17]

Y. Huang, D. Liu, X. Jia, et al., Whole genome sequencing of Lactobacillus plantarum DMDL 9010 and its effect on growth phenotype under nitrite stress, LWT-Food Sci. Technol. 149 (2021) 111778. https://doi.org/10.1016/j.lwt.2021.111778.
DOI Google Scholar
[18]

Q. S. Sun, Y. H. Wang, D. Q. Han, et al., Isolation and identification of lactic acid bacteria with antibacterial activity in pickles and their bacteriocin production characteristics, Journal of Food Science and Technology 40(4) (2022) 64–73. https://doi.org/10.12301 /spxb202100309.
DOI Google Scholar
[19]
H. Mohammad, B. Alizadeh, F. Fereshteh, Aggregation, adherence, anti-adhesion and antagonistic activity properties relating to surface charge of probiotic Lactobacillus brevis gp104 against Staphylococcus aureus. Microb Pathog. 147 (2020) 104420. https://doi.org/10.1016/j.micpath.2020.104420.
DOI
[20]

Q. L. Feng, J. Wu, G. Q. Chen, et al., A mechanistic study of the antibacterial effect of silver ions on Escherichia coli and Staphylococcus aureus, J. Biomed. Mater. Res. 52 (2000) 662–668. https://doi.org/10.1002/1097-4636(20001215)52:4<662::AID-JBM10>3.0.CO;2-3.
DOI Google Scholar
[21]
EFSA, EFSA panel on additives and products or substances used in animal feed (FEEDAP); guidance on the assessment of bacterial susceptibility to antimicrobials of human and veterinary importance, The EFSA Journal 10 (2012) 2740. https://doi.org/10.2903/j.efsa.2012.2740.
DOI
[22]

J. Cleveland, L. Chikindas, J. Montville, et al., Bacteriocins: safe, natural antimicrobials for food preservation, Int. J. Food Microbiol. 71 (2001) 1–20. https://doi.org/10.1016/s0168-1605(01)00560-8.
DOI Google Scholar
[23]
V. Ahmad, M. Khan, M. Alzohairy, et al., Antimicrobial potential of bacteriocins: in therapy, agriculture and food preservation, Int. J. Antimicrob. Agents 49 (2017) 1−11. https://doi.org/10.1016/j.ijantimicag.2016.08.016
DOI
[24]

H. Behrens, A. Six, D. Walker, et al., The therapeutic potential of bacteriocins as protein antibiotics, Emerg. Top Life Sci. 1 (2017) 65–74. https://doi.org/10.1042/etls20160016.
DOI Google Scholar
[25]
Y. Wang, Y. Qin, Y. Zhang, et al., Antibacterial mechanism of plantaricin lpl-1, a novel class IIa bacteriocin against Monocytogenes listeria, Food Control 97 (2019) 87−93. https://doi.org/10.1016/j.foodcont.2018.10.025.
DOI
[26]

K. Zhou, W. Zhou, P. Li, et al., Mode of action of pentocin 31-1: an antilisteria bacteriocin produced by Lactobacillus pentosus from Chinese traditional ham, Food Control 19 (2008) 817–822. https://doi.org/10.1016/j.foodcont.2007.08.008.
DOI Google Scholar
[27]
I. Gut, S. Blanke, D. van Donk., Mechanism of inhibition of Bacillus anthracis spore outgrowth by the lantibiotic nisin. ACS Chem. Biol. 6 (2011) 744−752. https://doi.org/10.1021/cb1004178.
DOI
[28]

H. Flemming, J. Wingender, U. Szewzyk, et al., Biofilms: an emergent form of bacterial life, Nat. Rev. Microbiol. 14 (2016) 563–575. https://doi.org/10.1038/nrmicro.2016.94.
DOI Google Scholar
[29]

R. Kajwadkar, J. Shin, G. Lin, et al., High-purity nisin alone or in combination with sodium hypochlorite is effective against planktonic and biofilm populations of Enterococcus faecalis, J. Endodontices. 43 (2017) 989–994. https://doi.org/10.1016/j.joen.2017.01.034.
DOI Google Scholar
[30]

S. Todorov, M. Wachsman, E. Tome, et al., Characterisation of an antiviral pediocin-like bacteriocin produced by Enterococcus faecium, Food Microbiol. 27 (2010) 869–879. https://doi.org/10.1016/j.fm.2010.05.001.
DOI Google Scholar
[31]

S. Tiwari, S. Srivastava, Purification and characterization of plantaricin LR14: a novel bacteriocin produced by Lactobacillus plantarum LR/14, Appl. Microbiol. Biotechnol. 79 (2008) 759–767. https://doi.org/10.1007/s00253-008-1482-6.
DOI Google Scholar
[32]
Y. Héchard, H. Sahl, Mode of action of modified and unmodified bacteriocins from Gram-positive bacteria, Biochimie 84 (2002) 545-557. https://doi.org/10.1016/s0300-9084(02)01417-7.
DOI
[33]

I. Hammami, M. Triki, A. Rebai, Purification and characterization of the novel bacteriocin BAC IH7 with antifungal and antibacterial properties, J. Plant Pathol. 93 (2011) 443–454. https://doi.org/10.1016/j.lwt.2021.111456.
DOI Google Scholar
[34]

J. Polman, M. Beerthuyzen, R. Siezen, et al., Characterization of the Lactococcus lactis nisin a operon genes nisP, encoding a subtilisin-like serine protease involved in precursor processing, and nisR, encoding a regulatory protein involved in nisin biosynthesis, J. Bacteriol. 175 (1993) 2578–2588. https://doi.org/10.1128/jb.175.9.2578-2588.1993.
DOI Google Scholar
[35]

C. Natalia, Q. María, M. Emilse, et al., Antimicrobial activity of MccJ25(G12Y) against Gram-negative foodborne pathogens in vitro and in food models, Int. J. Food Microbiol. 352 (2021) 109267. https://doi.org/10.1016/j.ijfoodmicro.2021.109267.
DOI Google Scholar
[36]

D. Deamer, M. Akeson, D. Branton, Three decades of nanopore sequencing, Nat. Biotechnol. 34 (2016) 518–524. https://doi.org/10.1038/nbt.3423.
DOI Google Scholar
[37]

A. Magi, R. Semeraro, A. Mingrino, et al., Nanopore sequencing data analysis: state of the art, applications and challenges, Brief Bioinform. 19 (2018) 1256–1272. https://doi.org/10.1093/bib/bbx062.
DOI Google Scholar
[38]

M. Jain, H. Olsen, B Paten, et al., The oxford nanopore minIon: delivery of nanopore sequencing to the genomics community, Genome Biol. 17 (2016) 239. https://doi.org/10.1186/s13059-016-1103-0.
DOI Google Scholar
[39]

M. Kleerebezem, J. Boekhorst, R. Molenaar, et al., Complete genome sequence of Lactobacillus plantarum WCFS1, Proc. Natl. Acad. Sci. 100 (2003) 1990–1995. https://doi.org/10.1073/pnas.0337704100.
DOI Google Scholar
[40]

Z. Zhang, C. Liu, Y Zhu, et al., Safety assessment of Lactobacillus plantarum JDM1 based on the complete genome, Int. J. Food Microbiol. 153 (2012) 166–170. https://doi.org/10.1016/j.ijfoodmicro.2011.11.003.
DOI Google Scholar
Publication history
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Publication history

Received: 09 February 2023
Revised: 03 April 2023
Accepted: 10 April 2023
Published: 26 June 2023
Issue date: June 2023

Copyright

© Beijing Academy of Food Sciences 2023.

Acknowledgements

Acknowledgements

This work was supported by the Heilongjiang Province Natural Science Foundation of China (grant number: LH2021C075); Graduate Innovation Project of Heilongjiang University (YJSCX2022-245HLJU); Special Fund Project for Basic Scientific Research Business Fees of Heilongjiang University in Heilongjiang Province (grant number: 2020-KYYWF-1012); Open Item from Key Laboratory of Functional Inorganic Material Chemistry (Heilongjiang University), Ministry of Education.

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Food Science of Animal Products published by Tsinghua University Press. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

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