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Martínez B, Rodríguez A, Kulakauskas S, Chapot-Chartier MP. Cell wall homeostasis in lactic acid bacteria: threats and defences. FEMS Microbiol Rev 2021; 44:538-564. [PMID: 32495833 PMCID: PMC7476776 DOI: 10.1093/femsre/fuaa021] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2019] [Accepted: 06/03/2020] [Indexed: 12/16/2022] Open
Abstract
Lactic acid bacteria (LAB) encompasses industrially relevant bacteria involved in food fermentations as well as health-promoting members of our autochthonous microbiota. In the last years, we have witnessed major progresses in the knowledge of the biology of their cell wall, the outermost macrostructure of a Gram-positive cell, which is crucial for survival. Sophisticated biochemical analyses combined with mutation strategies have been applied to unravel biosynthetic routes that sustain the inter- and intra-species cell wall diversity within LAB. Interplay with global cell metabolism has been deciphered that improved our fundamental understanding of the plasticity of the cell wall during growth. The cell wall is also decisive for the antimicrobial activity of many bacteriocins, for bacteriophage infection and for the interactions with the external environment. Therefore, genetic circuits involved in monitoring cell wall damage have been described in LAB, together with a plethora of defence mechanisms that help them to cope with external threats and adapt to harsh conditions. Since the cell wall plays a pivotal role in several technological and health-promoting traits of LAB, we anticipate that this knowledge will pave the way for the future development and extended applications of LAB.
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Affiliation(s)
- Beatriz Martínez
- DairySafe research group. Department of Technology and Biotechnology of Dairy Products. Instituto de Productos Lácteos de Asturias, IPLA-CSIC. Paseo Río Linares s/n. 33300 Villaviciosa, Spain
| | - Ana Rodríguez
- DairySafe research group. Department of Technology and Biotechnology of Dairy Products. Instituto de Productos Lácteos de Asturias, IPLA-CSIC. Paseo Río Linares s/n. 33300 Villaviciosa, Spain
| | - Saulius Kulakauskas
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, 78350, Jouy-en-Josas, France
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Barbosa AAT, de Melo MR, da Silva CMR, Jain S, Dolabella SS. Nisin resistance in Gram-positive bacteria and approaches to circumvent resistance for successful therapeutic use. Crit Rev Microbiol 2021; 47:376-385. [PMID: 33689548 DOI: 10.1080/1040841x.2021.1893264] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
Antibiotic resistance among bacterial pathogens is one of the most worrying problems in health systems today. To solve this problem, bacteriocins from lactic acid bacteria, especially nisin, have been proposed as an alternative for controlling multidrug-resistant bacteria. Bacteriocins are antimicrobial peptides that have activity mainly against Gram-positive strains. Nisin is one of the most studied bacteriocins and is already approved for use in food preservation. Nisin is still not approved for human clinical use, but many in vitro studies have shown its therapeutic effectiveness, especially for the control of antibiotic-resistant strains. Results from in vitro studies show the emergence of nisin-resistant bacteria after exposure to nisin. Considering that nisin has shown promising results for clinical use, studies to elucidate nisin-resistant mechanisms and the development of approaches to circumvent nisin-resistance are important. Thus, the objectives of this review are to identify the Gram-positive bacterial strains that have shown resistance to nisin, describe their resistance mechanisms and propose ways to overcome the development of nisin-resistance for its successful clinical application.
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Affiliation(s)
| | | | | | - Sona Jain
- Programa de Pós-Graduação em Biotecnologia Industrial, Universidade Tiradentes, Sergipe, Brasil
| | - Silvio Santana Dolabella
- Programa de Pós-Graduação em Biologia Parasitária, Universidade Federal de Sergipe, São Cristóvão, Brasil
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3
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Complete Genome Sequence of Nisin-Producing Lactococcus lactis subsp. lactis N8. Microbiol Resour Announc 2021; 10:10/1/e01147-20. [PMID: 33414301 PMCID: PMC8407701 DOI: 10.1128/mra.01147-20] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
We report here the genome sequence of Lactococcus lactis subsp. lactis N8, a nisin producer isolated in the 1960s from a dairy product in Finland. The genome consists of a 2.42-Mb chromosome and two plasmids of 80.3 and 71.3 kb.
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4
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Qiao W, Qiao Y, Liu F, Zhang Y, Li R, Wu Z, Xu H, Saris PEJ, Qiao M. Engineering Lactococcus lactis as a multi-stress tolerant biosynthetic chassis by deleting the prophage-related fragment. Microb Cell Fact 2020; 19:225. [PMID: 33298073 PMCID: PMC7727215 DOI: 10.1186/s12934-020-01487-x] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2020] [Accepted: 11/28/2020] [Indexed: 01/02/2023] Open
Abstract
Background In bioengineering, growth of microorganisms is limited because of environmental and industrial stresses during fermentation. This study aimed to construct a nisin-producing chassis Lactococcus lactis strain with genome-streamlined, low metabolic burden, and multi-stress tolerance characteristics. Results The Cre-loxP recombination system was applied to reduce the genome and obtain the target chassis strain. A prophage-related fragment (PRF; 19,739 bp) in the L. lactis N8 genome was deleted, and the mutant strain L. lactis N8-1 was chosen for multi-stress tolerance studies. Nisin immunity of L. lactis N8-1 was increased to 6500 IU/mL, which was 44.44% higher than that of the wild-type L. lactis N8 (4500 IU/mL). The survival rates of L. lactis N8-1 treated with lysozyme for 2 h and lactic acid for 1 h were 1000- and 10,000-fold higher than that of the wild-type strain, respectively. At 39 ℃, the L. lactis N8-1 could still maintain its growth, whereas the growth of the wild-type strain dramatically dropped. Scanning electron microscopy showed that the cell wall integrity of L. lactis N8-1 was well maintained after lysozyme treatment. Tandem mass tags labeled quantitative proteomics revealed that 33 and 9 proteins were significantly upregulated and downregulated, respectively, in L. lactis N8-1. These differential proteins were involved in carbohydrate and energy transport/metabolism, biosynthesis of cell wall and cell surface proteins. Conclusions PRF deletion was proven to be an efficient strategy to achieve multi-stress tolerance and nisin immunity in L. lactis, thereby providing a new perspective for industrially obtaining engineered strains with multi-stress tolerance and expanding the application of lactic acid bacteria in biotechnology and synthetic biology. Besides, the importance of PRF, which can confer vital phenotypes to bacteria, was established.
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Affiliation(s)
- Wanjin Qiao
- Key Laboratory of Molecular Microbiology and Technology, Ministry of Education, College of Life Sciences, Nankai University, No.94 Weijin Road, Nankai District, Tianjin, 300071, China.,Department of Microbiology, Faculty of Agriculture and Forestry, University of Helsinki, Helsinki, Finland
| | - Yu Qiao
- Key Laboratory of Molecular Microbiology and Technology, Ministry of Education, College of Life Sciences, Nankai University, No.94 Weijin Road, Nankai District, Tianjin, 300071, China
| | - Fulu Liu
- Key Laboratory of Molecular Microbiology and Technology, Ministry of Education, College of Life Sciences, Nankai University, No.94 Weijin Road, Nankai District, Tianjin, 300071, China
| | - Yating Zhang
- Key Laboratory of Molecular Microbiology and Technology, Ministry of Education, College of Life Sciences, Nankai University, No.94 Weijin Road, Nankai District, Tianjin, 300071, China
| | - Ran Li
- Department of Microbiology, Faculty of Agriculture and Forestry, University of Helsinki, Helsinki, Finland
| | - Zhenzhou Wu
- State Key Laboratory of Medicinal Chemical Biology & Tianjin Key Laboratory of Protein Sciences, College of Life Sciences, Nankai University, Tianjin, China
| | - Haijin Xu
- Key Laboratory of Molecular Microbiology and Technology, Ministry of Education, College of Life Sciences, Nankai University, No.94 Weijin Road, Nankai District, Tianjin, 300071, China.
| | - Per Erik Joakim Saris
- Department of Microbiology, Faculty of Agriculture and Forestry, University of Helsinki, Helsinki, Finland
| | - Mingqiang Qiao
- Key Laboratory of Molecular Microbiology and Technology, Ministry of Education, College of Life Sciences, Nankai University, No.94 Weijin Road, Nankai District, Tianjin, 300071, China.
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Szendy M, Kalkhof S, Bittrich S, Kaiser F, Leberecht C, Labudde D, Noll M. Structural change in GadD2 of Listeria monocytogenes field isolates supports nisin resistance. Int J Food Microbiol 2019; 305:108240. [PMID: 31202151 DOI: 10.1016/j.ijfoodmicro.2019.108240] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2018] [Revised: 03/15/2019] [Accepted: 05/29/2019] [Indexed: 11/19/2022]
Abstract
The lantibiotic nisin is used as a food additive to effectively inactivate a broad spectrum of Gram-positive bacteria such as Listeria monocytogenes. In total, 282 L. monocytogenes field isolates from German ready-to-eat food products, food-processing environments and patient samples and 39 Listeria reference strains were evaluated for their susceptibility to nisin. The MIC90 value was <1500 IU ml-1. Whole genome sequences (WGS) of four nisin susceptible (NS; growth <200 IU ml-1) and two nisin resistant L. monocytogenes field isolates (NR; growth >1500 IU ml-1) of serotype IIa were analyzed for DNA sequence variants (DSVs) in genes putatively associated with NR and its regulation. WGS of NR differed from NS in the gadD2 gene encoding for the glutamate decarboxylase system (GAD). Moreover, homology modeling predicted a protein structure of GadD2 in NR that promoted a less pH dependent GAD activity and may therefore be beneficial for nisin resistance. Likewise NR had a significant faster growth rate compared to NS in presence of nisin at pH 7. In conclusion, results contributed to ongoing debate that a genetic shift in GAD supports NR state.
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Affiliation(s)
- Maik Szendy
- Coburg University of Applied Sciences and Arts, Institute for Bioanalysis, Friedrich-Streib-Str. 2, D-96450 Coburg, Germany
| | - Stefan Kalkhof
- Coburg University of Applied Sciences and Arts, Institute for Bioanalysis, Friedrich-Streib-Str. 2, D-96450 Coburg, Germany; Fraunhofer Institute for Cell Therapy and Immunology, Protein Biomarker Unit, Perlickstr. 1, D-04103 Leipzig, Germany
| | - Sebastian Bittrich
- University of Applied Sciences Mittweida, Department of Bioinformatics, Technikumplatz 17, D-09648 Mittweida, Germany; Biotechnology Center (BIOTEC), TU Dresden, Tatzberg 47-49, D-01307 Dresden, Germany
| | - Florian Kaiser
- University of Applied Sciences Mittweida, Department of Bioinformatics, Technikumplatz 17, D-09648 Mittweida, Germany; Biotechnology Center (BIOTEC), TU Dresden, Tatzberg 47-49, D-01307 Dresden, Germany
| | - Christoph Leberecht
- University of Applied Sciences Mittweida, Department of Bioinformatics, Technikumplatz 17, D-09648 Mittweida, Germany; Biotechnology Center (BIOTEC), TU Dresden, Tatzberg 47-49, D-01307 Dresden, Germany
| | - Dirk Labudde
- University of Applied Sciences Mittweida, Department of Bioinformatics, Technikumplatz 17, D-09648 Mittweida, Germany
| | - Matthias Noll
- Coburg University of Applied Sciences and Arts, Institute for Bioanalysis, Friedrich-Streib-Str. 2, D-96450 Coburg, Germany.
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6
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Qi J, Caiyin Q, Wu H, Tian K, Wang B, Li Y, Qiao J. The novel sRNA s015 improves nisin yield by increasing acid tolerance of Lactococcus lactis F44. Appl Microbiol Biotechnol 2017; 101:6483-6493. [PMID: 28689267 DOI: 10.1007/s00253-017-8399-x] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2017] [Revised: 06/16/2017] [Accepted: 06/19/2017] [Indexed: 11/29/2022]
Abstract
Nisin, a polycyclic antibacterial peptide produced by Lactococcus lactis, is stable at low pH. Improving the acid tolerance of L. lactis could thus enhance nisin yield. Small non-coding RNAs (sRNAs) play essential roles in acid tolerance by regulating their target mRNAs at the post-transcriptional level. In this study, a novel sRNA, s015, was identified in L. lactis F44 via the use of RNA sequencing, qRT-PCR analysis, and Northern blotting. s015 improved the acid tolerance of L. lactis and boosted nisin yield at low pH. In silico predictions enabled us to construct a library of possible s015 target mRNAs. Statistical analysis and validation suggested that s015 contains a highly conserved region (5'-GAAAAAAAC-3') that likely encompasses the regulatory core of the sRNA. atpG, busAB, cysD, ilvB, tcsR, ung, yudD, and ywdA were verified as direct targets of s015, and the interactions between s015 and its target genes were elucidated. This work provided new insight into the adaptation mechanism of L. lactis under acid stress.
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Affiliation(s)
- Jiakun Qi
- Department of Pharmaceutical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin, China.,Key Laboratory of Systems Bioengineering, Ministry of Education, Tianjin, China
| | - Qinggele Caiyin
- Key Laboratory of Systems Bioengineering, Ministry of Education, Tianjin, China
| | - Hao Wu
- Department of Pharmaceutical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin, China.,Key Laboratory of Systems Bioengineering, Ministry of Education, Tianjin, China
| | - Kairen Tian
- Department of Pharmaceutical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin, China.,Key Laboratory of Systems Bioengineering, Ministry of Education, Tianjin, China
| | - Binbin Wang
- Department of Pharmaceutical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin, China.,Key Laboratory of Systems Bioengineering, Ministry of Education, Tianjin, China
| | - Yanni Li
- Department of Pharmaceutical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin, China.,Key Laboratory of Systems Bioengineering, Ministry of Education, Tianjin, China
| | - Jianjun Qiao
- Department of Pharmaceutical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin, China. .,Key Laboratory of Systems Bioengineering, Ministry of Education, Tianjin, China. .,SynBio Research Platform, Collaborative Innovation Center of Chemical Science and Engineering, Tianjin, China.
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7
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Zhu D, Li R, Liu F, Xu H, Li B, Yuan Y, Saris P, Qiao M. Mu insertion in feuD
triggers the increase in nisin immunity in Lactococcus lactis
subsp. lactis
N8. J Appl Microbiol 2016; 120:402-12. [DOI: 10.1111/jam.13015] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2015] [Revised: 10/21/2015] [Accepted: 11/20/2015] [Indexed: 11/29/2022]
Affiliation(s)
- D. Zhu
- Key Laboratory of Molecular Microbiology and Technology; Ministry of Education; Nankai University; Tianjin China
| | - R. Li
- School of Life Sciences and Technology; ShanghaiTech University; Shanghai China
| | - F. Liu
- Key Laboratory of Molecular Microbiology and Technology; Ministry of Education; Nankai University; Tianjin China
| | - H. Xu
- Key Laboratory of Molecular Microbiology and Technology; Ministry of Education; Nankai University; Tianjin China
| | - B. Li
- Key Laboratory of Systems Bioengineering; Ministry of Education; Department of Pharmaceutical Engineering; Tianjin University; Tianjin China
| | - Y. Yuan
- Key Laboratory of Systems Bioengineering; Ministry of Education; Department of Pharmaceutical Engineering; Tianjin University; Tianjin China
| | - P.E.J. Saris
- Department of Food and Environmental Sciences; University of Helsinki; Helsinki Finland
| | - M. Qiao
- Key Laboratory of Molecular Microbiology and Technology; Ministry of Education; Nankai University; Tianjin China
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Abstract
The dramatic rise in the incidence of antibiotic resistance demands that new therapeutic options will have to be developed. One potentially interesting class of antimicrobials are the modified bacteriocins termed lantibiotics, which are bacterially produced, posttranslationally modified, lanthionine/methyllanthionine-containing peptides. It is interesting that low levels of resistance have been reported for lantibiotics compared with commercial antibiotics. Given that there are very few examples of naturally occurring lantibiotic resistance, attempts have been made to deliberately induce resistance phenotypes in order to investigate this phenomenon. Mechanisms that hinder the action of lantibiotics are often innate systems that react to the presence of any cationic peptides/proteins or ones which result from cell well damage, rather than being lantibiotic specific. Such resistance mechanisms often arise due to altered gene regulation following detection of antimicrobials/cell wall damage by sensory proteins at the membrane. This facilitates alterations to the cell wall or changes in the composition of the membrane. Other general forms of resistance include the formation of spores or biofilms, which are a common mechanistic response to many classes of antimicrobials. In rare cases, bacteria have been shown to possess specific antilantibiotic mechanisms. These are often species specific and include the nisin lytic protein nisinase and the phenomenon of immune mimicry.
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Affiliation(s)
- Lorraine A Draper
- School of Microbiology, University College Cork, Cork, Ireland Alimentary Pharmabiotic Centre, University College Cork, Cork, Ireland
| | - Paul D Cotter
- Alimentary Pharmabiotic Centre, University College Cork, Cork, Ireland Teagasc Food Research Centre, Moorepark, Fermoy, County Cork, Ireland
| | - Colin Hill
- School of Microbiology, University College Cork, Cork, Ireland Alimentary Pharmabiotic Centre, University College Cork, Cork, Ireland
| | - R Paul Ross
- School of Microbiology, University College Cork, Cork, Ireland Alimentary Pharmabiotic Centre, University College Cork, Cork, Ireland
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9
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Bastos MDCDF, Coelho MLV, Santos OCDS. Resistance to bacteriocins produced by Gram-positive bacteria. MICROBIOLOGY-SGM 2014; 161:683-700. [PMID: 25406453 DOI: 10.1099/mic.0.082289-0] [Citation(s) in RCA: 95] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/23/2014] [Accepted: 11/13/2014] [Indexed: 01/01/2023]
Abstract
Bacteriocins are prokaryotic proteins or peptides with antimicrobial activity. Most of them exhibit a broad spectrum of activity, inhibiting micro-organisms belonging to different genera and species, including many bacterial pathogens which cause human, animal or plant infections. Therefore, these substances have potential biotechnological applications in either food preservation or prevention and control of bacterial infectious diseases. However, there is concern that continuous exposure of bacteria to bacteriocins may select cells resistant to them, as observed for conventional antimicrobials. Based on the models already investigated, bacteriocin resistance may be either innate or acquired and seems to be a complex phenomenon, arising at different frequencies (generally from 10(-9) to 10(-2)) and by different mechanisms, even amongst strains of the same bacterial species. In the present review, we discuss the prevalence, development and molecular mechanisms involved in resistance to bacteriocins produced by Gram-positive bacteria. These mechanisms generally involve changes in the bacterial cell envelope, which result in (i) reduction or loss of bacteriocin binding or insertion, (ii) bacteriocin sequestering, (iii) bacteriocin efflux pumping (export) and (iv) bacteriocin degradation, amongst others. Strategies that can be used to overcome this resistance are also addressed.
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Affiliation(s)
- Maria do Carmo de Freire Bastos
- Departamento de Microbiologia Geral, Instituto de Microbiologia Paulo de Góes, Universidade Federal do Rio de Janeiro, CCS, Bloco I, sala I-1-59, Rio de Janeiro
| | - Marcus Lívio Varella Coelho
- Departamento de Microbiologia Geral, Instituto de Microbiologia Paulo de Góes, Universidade Federal do Rio de Janeiro, CCS, Bloco I, sala I-1-59, Rio de Janeiro Instituto Nacional da Propriedade Industrial, INPI, Rio de Janeiro, Brazil
| | - Olinda Cabral da Silva Santos
- Departamento de Microbiologia Geral, Instituto de Microbiologia Paulo de Góes, Universidade Federal do Rio de Janeiro, CCS, Bloco I, sala I-1-59, Rio de Janeiro
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10
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Xu Y, Li X, Li R, Li S, Ni H, Wang H, Xu H, Zhou W, Saris PEJ, Yang W, Qiao M, Rao Z. Structure of the nisin leader peptidase NisP revealing a C-terminal autocleavage activity. ACTA ACUST UNITED AC 2014; 70:1499-505. [DOI: 10.1107/s1399004714004234] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2013] [Accepted: 02/24/2014] [Indexed: 11/10/2022]
Abstract
Nisin is a widely used antibacterial lantibiotic polypeptide produced byLactococcus lactis. NisP belongs to the subtilase family and functions in the last step of nisin maturation as the leader-peptide peptidase. Deletion of thenisPgene in LAC71 results in the production of a non-active precursor peptide with the leader peptide unremoved. Here, the 1.1 Å resolution crystal structure of NisP is reported. The structure shows similarity to other subtilases, which can bind varying numbers of Ca atoms. However, no calcium was found in this NisP structure, and the predicted calcium-chelating residues were placed so as to not allow NisP to bind a calcium ion in this conformation. Interestingly, a short peptide corresponding to its own 635–647 sequence was found to bind to the active site of NisP. Biochemical assays and native mass-spectrometric analysis confirmed that NisP possesses an auto-cleavage site between residues Arg647 and Ser648. Further, it was shown that NisP mutated at the auto-cleavage site (R647P/S648P) had full catalytic activity for nisin leader-peptide cleavage, although the C-terminal region of NisP was no longer cleaved. Expressing this mutant inL. lactisLAC71 did not affect the production of nisin but did decrease the proliferation rate of the bacteria, suggesting the biological significance of the C-terminal auto-cleavage of NisP.
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