10 years of the nisin-controlled gene expression system (NICE) in Lactococcus lactis

Appl Microbiol Biotechnol

DOI10.1007/s00253-005-0107-6

MINI-REVIEW

Igor Mierau.Michiel Kleerebezem

10years of the nisin-controlled gene expression system(NICE) in Lactococcus lactis

Received:29April2005/Revised:13July2005/Accepted:17July2005

#Springer-Verlag2005

Abstract Lactococcus lactis is a Gram-positive lactic acid bacterium that,in addition to its traditional use in food fermentations,is increasingly used in modern biotechno-logical applications.In the last25years great progress has been made in the development of genetic engineering tools and the molecular characterization of this species.A new versatile and tightly controlled gene expression system, based on the auto-regulation mechanism of the bacteriocin nisin,was developed10years ago—the NIsin Controlled gene Expression system,called NICE.This system has become one of the most successful and widely used tools for regulated gene expression in Gram-positive bacteria. The review describes,after a brief introduction of the host bacterium https://www.wendangku.net/doc/745355630.html,ctis,the fundaments,components and func-tion of the NICE system.Furthermore,an extensive over-view is provided of the different applications in lactococci and other Gram-positive bacteria:(1)over-expression of homologous and heterologous genes for functional studies and to obtain large quantities of specific gene products,(2) metabolic engineering,(3)expression of prokaryotic and eukaryotic membrane proteins,(4)protein secretion and anchoring in the cell envelope,(5)expression of genes with toxic products and analysis of essential genes and(6)large-scale applications.Finally,an overview is given of growth and induction conditions for lab-scale and industrial-scale applications.

Introduction

Kuipers et al.(1995)published a paper describing the auto-induction of the expression of the lactococcal bacteriocin nisin.In the same paper they described an experiment in which this mechanism was used to drive the induction of the expression of a heterologous protein—aβ-glucuron-idase from Escherichia coli—by nisin.This marked the birth of one of the most successful and widely used Gram-positive gene expression systems,which was later dubbed as NICE—NIsin-Controlled gene Expression.This review will give an overview of the background and function of the system,on its applications and current and future developments.

The host Lactococcus lactis

Lactococcus lactis is a homofermentative bacterium that is used for the production of fermented milk products such as buttermilk,fermented butter,many varieties of soft and hard cheeses,Scandinavian ropy fermented milk products and as a symbiotic partner in kefir.Its importance cannot be underestimated.Teuber(1995)calculated that annually, approximately100million tons of milk are inoculated with Lactococcus species,and that this results at the end of the growth in ca.500,000tons of bacteria or the weight of ca.6 million people,equalling half of the human population of The Netherlands.

The primary function of lactococci is rapid lactic acid production from lactose that leads to the preservation of the otherwise quickly spoiled milk.In secondary processes the bacterial culture contributes to both flavour and texture of the product(Teuber1995;Leroy and Devuyst2004). Flavour can be generated by the production of carbon-source-derived aroma compounds,like diacetyl,or by the degradation of milk proteins or fats into specific flavour compounds or their precursors.The texture is influenced by the degradation of milk proteins and the formation of https://www.wendangku.net/doc/745355630.html,ctococci are ubiquitous on plant ma-terial and probably came into use with the domestication of farm animals at least10,000years ago.Almost150 years ago Louis Pasteur was the first to recognize that lactic acid fermentation is caused by bacteria.In terms of microbiology history,it is noteworthy that lactococci were the first bacteria ever that were isolated in pure culture by

I.Mierau(*).M.Kleerebezem

NIZO food research,

P.O.Box20,6710BA Ede,The Netherlands e-mail:igor.mierau@nizo.nl

Tel.:+31-318-659644

Fax:+31-318-650400

Joseph Lister in 1873(Teuber 1995).Since this time,especially because of their economic importance,these bacteria have been intensely investigated and character-ized.Today,we have a wealth of knowledge of the microbiology,physiology,ecology,technology and genet-ics of these bacteria (Teuber 1995;Wood and Warner 2003).In the last 25years impressive progress has been made in the development of genetic engineering tools and the molecular characterization of lactococci (Gasson and de V os 1994;Wood and Warner 2003).The tools include transformation,the availability of many different vectors,gene integration,gene knockout,conjugation,and consti-tutive and regulated gene expression systems.Functional characteristics that have extensively been studied in lactococci include the carbon metabolism,the extracellular and intracellular proteolytic system,the production of an-tibiotic substances,and their interaction with and resis-tance to bacteriophages (Gasson and de V os 1994;Wood and Warner 2003).At present the genome information of at least three strains of https://www.wendangku.net/doc/745355630.html,ctis is elucidated and largely publicly available (Bolotin et al.2001;Klaenhammer et al.2002).The next stage is the genome-wide characterization of gene transcription,protein composition and metabolic processes and the response of all the aforementioned to changes in the environment or deliberately introduced ge-netic changes (Kleerebezem et al.2002;Guillot et al.2003).

This wealth of knowledge and experience has led to the use of lactococci far beyond their original role in food preservation and production.A few examples are the ex-pression of bacterial and viral antigens for safe vaccination via mucosal immunization,the production of human cy-tokines and other therapeutic agents for in situ treatments,the use of lactococci as a cell factory for the production of specific compounds and the pilot production of pharma-ceutical products (Hols et al.1999;Hugenholtz et al.2000,2002;Nouaille et al.2003;Hanniffy et al.2004;Leroy and Devuyst 2004;Mierau et al.2005a ).The availability of an easy-to-operate and strictly controlled gene expression system (NICE)has been crucial for the development of many of these applications.

Nisin and the regulation of nisin biosynthesis

Nisin is a 34-amino acid anti-microbial peptide (lantibiotic)with various unusual amino acids and five ring structures (Fig.1).Nisin first binds to lipidII and then forms,together with this cell-wall synthesis precursor,small pores in the cytoplasmic membrane that lead to leakage of small mol-ecules,including adenosine triphosphate (ATP),and sub-sequently,to cell death (Hasper et al.2004).Because of its broad host spectrum it is widely used as a preservative in the food industry (Dodd and Gasson 1994;van Kraaij et al.1999).Initially,nisin is ribosomally synthesized as a pre-cursor.Subsequent enzymatic modifications introduce the unusual chemical and structural features of the molecule.Finally,the modified molecule is translocated across the cytoplasmic membrane and processed into its mature form (Kleerebezem et al.1997b ).Biosynthesis of nisin is encoded by a cluster of 11genes (Fig.2),of which the first gene,nisA ,encodes the precursor of nisin.The other genes direct the synthesis of proteins that are involved in the modifica-tion,translocation and processing of nisin (nisB ,nisC ,nisP ,and nisT ),in the immunity against nisin (nisI ,nisF ,nisE ,and nisG )and in the regulation of the expression of the nisin genes (nisR and nisK )(Kuipers et al.1995;Kleerebezem et al.1999).NisR and NisK belong to the family of bacterial two-component signal transduction systems.NisK is a histidine –protein kinase that resides in the cytoplasmic

H 2N

Fig.1Schematic representation of mature nisin.Dhb indicates dehydrobutyrine;Dha ,dehy-droalanine;Ala –S –Ala ,lanthio-nine;and Abu –S –Ala ,β-methyllanthionine

A

B

T

C

I

P

R

K

F

E G

P*P P Fig.2Schematic representation of the nisin gene cluster.Black arrows indicate the three promoters that regulate expression of the nisin genes.P*nisA indicates the nisA promoter that is used for the nisin-controlled gene expression (NICE)systems.A indicates nisin A structural gene;B ,T ,C and P ,genes involved in modification,translocation and processing of nisin;I ,F ,E and G ,genes involved in immunity against nisin;and R and K ,genes involved in the regulation of the expression of the nisin gene cluster

membrane and is proposed to act as a receptor for the mature nisin molecule.Upon binding of nisin to NisK it auto-phosphorylates and transfers the phosphate group to NisR, which is a response regulator that becomes activated upon phosphorylation by NisK.Activated NisR*induces tran-scription from two of the three promoters in the nisin gene cluster:P nisA and P nisF(Fig.2).The promoter that drives the expression of nisR and nisK is not affected(Kuipers et al.

Table1Commonly used host strains and plasmids of the NICE system(all strains belong to the species Lactococcus lactis subsp.cremoris)Name of strain

or plasmid

Characteristics Reference

Strains

NZ9700Progeny of the conjugation between nisin producer strain

NIZO B8with MG1614(Rif R Strp R derivative of

MG1363).Carries nisin–sucrose transposon Tn5276.Often

used as nisin producer strain for induction experiments

Kuipers et al.1993,1998;

Kunji et al.2003

NZ9800Derivative of NZ9700.Has a4-bp deletion in nisA gene,

leading to inactivation of the nisin operon except for the

nisRK genes that are transcribed by a constitutive promoter.

Host of the NICE system

Kuipers et al.1993,1998

NZ9000Integration of nisRK into the pepN gene of strain MG1363

using plasmid pNZ9573.Most commonly used host of

the NICE system.Integration results in pepN negative

phenotype

Kuipers et al.1998

NZ3900Derivative of NZ3000;nisRK integrated into the pepN gene.

Host for food-grade use of the NICE system by plasmid

selection based on the ability to grow on lactose as

carbon source.

de Ruyter et al.1996a

NZ3000Derivative of strain MG5267(lac operon of strain

NCDO712on the chromosome).Part of the lacF gene is

deleted,rendering the strain unable to grow on lactose.

Growth on lactose can be restored by providing the lacF

gene on a plasmid

Gasson1983;Platteeuw

et al.1996

NZ9000htrA NZ9000with clean deletion of the htrA gene.Host for

protein secretion

Lindholm et al.2004

Plasmids

pNZ9573Plasmid for integration of nisRK into the pepN locus

of https://www.wendangku.net/doc/745355630.html,ctis subsp.cremoris.Cm R,Em R,P15A-ori of

Escherichia coli

de Ruyter et al.1996a

pNZ9520nisRK genes on plasmid pIL253(high copy number);

expression of nisRK under control of rep promoter of

the plasmid;Ery R

Kleerebezem et al.1997a

pNZ9530nisRK genes on plasmid pIL252(low copy number);

expression of nisRK under control of rep promoter of

the plasmid;Ery R

Kleerebezem et al.1997a

pNZ8048Nco I site used for translational fusions,standard vector;

Cm R

Kuipers et al.1998

pNZ8148Nco I site used for translational fusions,deletion of60bp

(see text)residual DNA from Bacillus subtilis,standard

vector;Cm R

This paper

pNZ8150Sca I site used for translational fusions,standard vector;

Cm R

This paper

pNZ8021Vector for transcriptional fusions;Cm R This paper

pNZ8110Vector for protein secretion using the signal sequence of

Usp45of https://www.wendangku.net/doc/745355630.html,ctis,translational fusion via Nae I site;Cm R

This paper

pNZ8008Promoterless gusA gene fused to the nisin promoter,used

for study of the nisin-controlled expression in https://www.wendangku.net/doc/745355630.html,ctis and

other hosts;Cm R

de Ruyter et al.1996a

pMSP3535Vector,which contains both nisRK and P nisA,pAMβ1

and ColE1replicons,nisRK,P nisA,Ery R

Bryan et al.2000

1995,1998;de Ruyter et al.1996a;Kleerebezem et al. 1999).

The nisin-controlled gene expression system

For exploitation of the auto-induction mechanism of nisin for gene expression,the genes for the signal transduction system nisK and nisR were isolated from the nisin gene cluster and inserted into the chromosome of https://www.wendangku.net/doc/745355630.html,ctis subsp. cremoris MG1363(nisin-negative),creating the strain NZ9000(Kuipers et al.1998)(see Table1).When a gene of interest is subsequently placed behind the inducible promoter P nisA on a plasmid[e.g.pNZ8048(Kuipers et al. 1998)(see Table1)]or on the chromosome(Koebmann et al.2000;Boels et al.2004;Sim?es-Barbosa et al.2004), expression of that gene can be induced by the addition of sub-inhibitory amounts of nisin(0.1–5ng/ml)to the culture medium(Fig.3)(de Ruyter et al.1996b).Depending on the presence or absence of the corresponding targeting signals, the protein is expressed into the cytoplasm,into the mem-brane or secreted into the medium.

Studies with increasing amounts of nisin,using theβ-glucuronidase gene as the reporter,show a linear dose–response curve(Kuipers et al.1995;de Ruyter et al.1996a; Kleerebezem et al.1999).This shows that the NICE system can be used not only for on/off gene expression studies but also to dose the target protein.This property has elegantly been used in a number of metabolic engineering studies to show enzyme concentration-dependant production of spe-cific metabolites(Lopez de Felipe et al.1998;Hols et al. 1999;Looijesteijn et al.1999;Hugenholtz et al.2000). Host strains

Table1gives an overview of commonly used host strains and plasmids and their sources.All strains are derivatives of https://www.wendangku.net/doc/745355630.html,ctis subsp.cremoris MG1363,a plasmid-free progeny of the dairy starter strain NCDO712(Gasson 1983).NZ9700(Kuipers et al.1993,1998)is a nisin-producing strain that was obtained by conjugation of the nisin–sucrose transposon Tn5276of the nisin-A-producer NIZO B8(previously R5)with MG1614,a rifampicin-and streptomycin-resistant derivative of MG1363(Gasson 1983).This strain is often used as a source of nisin for induction of the NICE https://www.wendangku.net/doc/745355630.html,9800is a derivative of strain NZ9700,in which four nucleotides of the nisA gene have been deleted(Kuipers et al.1993).This strain does not produce nisin,and the transcription of the nisin operon is abolished.Transcription of the nisin operon in this strain can be reactivated by the addition of sub-inhibitory amounts of nisin(Kuipers et al.1995).This was one of the early host strains of the NICE system since it provides the necessary regulatory genes(nisK and nisR)and immunity to nisin.Presently,the most commonly used host strain is NZ9000.To construct this strain the genes for nisK and nisR were integrated into the pepN gene of MG1363(de Ruyter et al.1996a;Kuipers et al.1998).The two genes are transcribed from their own constitutive promoter.

Strain NZ3900was developed for food-grade applica-tions of the NICE system(de Ruyter et al.1996a,1997).It is derived from strain NZ3000,which is a lacF deletion mutant of strain MG5267,a strain with a single chromo-somal copy of the lactose operon of the dairy starter strain NCDO712.The lactose operon was transferred to strain MG1363by transduction,creating strain MG5267.Due to the lacF deletion,strain NZ3000is unable to grow on lactose.However,growth on lactose can be restored by providing lacF on a plasmid(Platteeuw et al.1996). Finally,NZ3900was obtained by inserting nisRK into the pepN gene as described for NZ9000(de Ruyter et al. 1996a).

In addition to the use of nisK and nisR genes that are integrated into the chromosome,two plasmids have been constructed based on the broad-host-range plasmid pAMβ1that allow transfer of the NICE system to other

t

Product

Fig.3Nisin-controlled gene expression.NisK indicates his-tidine–protein kinase;NisR,re-sponse regulator;and Gene X, target gene cloned behind the nisA promoter with or without targeting signals

species (see below):pNZ9520(high copy number)and pNZ9530(low copy number)(Kleerebezem et al.1997a ).Alongside various alternative food-grade selection sys-tems (de V os 1999),a new attractive selection strategy has been developed based on the lethal phenotype of an ala-nine racemase mutation (Bron et al.2002).In addition to its food-grade nature it allows stringent selection for the presence of the recombinant plasmid,which is not possi-ble with selection on growth of a fermentable sugar,since there are always other fermentable carbon sources in in-dustrial fermentation media.

The elucidation of the genome sequence of https://www.wendangku.net/doc/745355630.html,ctis led to the identification of a hitherto unknown proteinase that is bound to the extracellular surface of the membrane.It

functions both in the degradation of abnormally folded secreted proteins and in the maturation of secreted pro-proteins (Poquet et al.2000).Deletion of this proteinase gene (NZ9000ΔhtrA )leads to increased stability of het-erologous-secreted proteins (Lindholm et al.2004).

Plasmids

Plasmids have been constructed for translational and transcriptional fusions and for intracellular production or secretion of the gene product.pNZ8048is the most commonly used plasmid for translational fusions.A gene of interest can be PCR-amplified using primers that in-

C

D

Transcriptional fusion after 33 codons of the nisA gene and about 10 codons in a different frame depending on restriction enzyme used

Secretion of the target protein. Cloning via a blunt-end Nae I site.

NdeI

PstI SphI KpnI SpeI XbaI SacI HindIII

Translational fusion in Nco I: …CC ATG G

Translational fusion in Sca I: …AGT (ACT) via blunt end ligation with PCR fragment

A

B

PstI NcoI

SphI KpnI SpeI XbaI SacI HindIII

Fig.4Four commonly used basic cloning vectors for the NICE system.Pnis indicates nisA promoter;nisA ′,truncated nisA gene;T ,transcription terminator;repA and repC ,replication proteins;cm ,

chloramphenicol resistance;and ssUSP ,signal sequence of the https://www.wendangku.net/doc/745355630.html,ctis usp45gene (van Asseldonk et al.1993)

troduce the canonical Nco I site around the ATG start codon,allowing direct cloning of the gene fused to the nisA start codon.Recently,two variants of this plasmid were constructed:pNZ8148and pNZ8150(Fig.4a,and b). In pNZ8148a small60-bp remnant DNA-fragment of Bacillus subtilis,the initial cloning host of the pSH series of plasmids(de V os1987),was removed,making the plasmid conform to self-cloning guidelines.In plasmid pNZ8150(Fig.4b)the Nco I site was exchanged for an Sca I site,which is situated directly upstream of the ATG start codon.This improved version of pNZ8148avoids the disadvantage generated by the obligate use of the Nco I site, which in some cases makes it necessary to change the first base of the second codon of the gene of interest.In pNZ8150,the gene of interest can be amplified,starting at the ATG start codon and bluntly fused to the vector, creating an accurate nisA translational fusion.Plasmid pNZ8021(Fig.4c)can be used for transcriptional fusions. Prior to the gene of interest a truncated nisin A precursor of 33amino acids,with a number of additional amino acids (about ten,depending on the restriction site used)from a different reading frame,will be produced.pNZ8110 (Fig.4d)can be used for protein secretion using the signal sequence of the major secreted protein Usp45of https://www.wendangku.net/doc/745355630.html,ctis (van Asseldonk et al.1993).The advent of cheap and fast gene synthesis with codon usage correction makes the availability of a large array of vectors unnecessary,since in most cases,gene synthesis will be faster and cheaper than the preparation of complicated constructs(Fuglsang2003; Gupta et al.2004).

Transfer of the NICE system to other bacteria Because of its simplicity and its powerful induction char-acteristics,the NICE system has been transferred to other low-GC Gram-positive bacteria.This has,for example, allowed the establishment of regulated gene expression where none existed or the establishment of better-regulat-ed systems than those so far available(Eichenbaum et al. 1998;Neu and Henrich2003).The establishment of the NICE system in other bacteria has facilitated the study of pathogenic streptococci and enterococci,and allowed dose–response studies for live vaccines(Eichenbaum et al.1998; Pavan et al.2000;Hughes et al.2002;Ribardo and McIver 2003;Waters et al.2003).Using the dual plasmid system pNZ9520/30and one of the nisA promoter vectors(typ-ically withβ-glucuronidase orβ-galactosidase as reporter gene,e.g.pNZ8008)the NICE system was introduced into Leuconostoc lactis,Lactobacillus brevis,Lactobacillus helveticus,Lactobacillus plantarum,Streptococcus pyo-genes,Streptococcus agalactiae,Streptococcus pneumo-niae,Streptococcus zooepidemicus,Enterococcus faecalis and B.subtilis(Kleerebezem et al.1997a;Eichenbaum et al.1998;Pavan et al.2000;?vall-J??skel?inen et al. 2002;Chong and Nielsen2003).In many cases regulated gene expression can be established;however,growth of several species is retarded by the introduction of the dou-ble-plasmid system.This is the case for https://www.wendangku.net/doc/745355630.html,ctis,Lb. helveticus and Lb.plantarum(Kleerebezem et al.1997a; Pavan et al.2000).However,this seems not to be the case for Streptococcus species and B.subtilis(Eichenbaum et al. 1998).Other strategies have been employed for E.faecalis, Lb.plantarum and Lactobacillus gasseri.For E.faecalis a vector(pMSP3535,Table1)has been developed that carries both the nisRK genes and the nisA promoter on one plasmid,considerably simplifying the transfer procedure (Bryan et al.2000).In Lb.plantarum and Lb.gasseri the nisRK genes were integrated as single copies into the chromosome(Pavan et al.2000;Neu and Henrich2003). This strategy was very successful to improve growth,to establish tight regulation and to accomplish reliable and stable expression results.

In general these examples demonstrate that the NICE system can successfully be transferred to other Gram-positive bacteria;however,each case is different because of variations in nisin sensitivity,in the primary amino acid sequence of the RNA polymerase(possible interaction with NisR)and in other factors.New systems need to be opti-mized in relation to the location of the nisRK genes(e.g. on a different plasmid in relation to the nisA promoter with the target gene,or both on the same plasmid,or the nisRK genes on the chromosome),the amount of nisin for induction,cell density for optimum induction,production time,medium composition,temperature etc.

NICE-like systems

Two-component regulatory systems are common in the biosynthesis of bacteriocins of Gram-positive bacteria (Kleerebezem and Quadri2001;Kotelnikova and Gelfand 2002).Because of the excellent properties of the NICE system(tight regulation and high degree of induction)and its universal applicability,the same regulation mechanism has been used to develop expression systems for other Gram-positive bacteria from their own genetic material. NICE-like systems are now available for B.subtilis[SURE (Subtilin Regulated gene Expression)(Kleerebezem et al. 2004)],Lb.plantarum(Mathiesen et al.2004),Lactoba-cillus sakei(Axelsson et al.2003)and Enterococcus (Hickey et al.2003).Although the NICE system can be transferred into other bacteria,development of homologous systems will be advantageous for the ease and range of use because it will consist only of genetic elements of the relevant bacterium.

Overview of applications of the NICE system

In the following section we will give an overview of known applications of the NICE system with some pertinent examples.

Over-expression of homologous and heterologous genes

The NICE system has been used to express genes of var-ious different backgrounds(Gram-positive,Gram-negative and eukaryotic)to study metabolic and enzyme function and to produce larger amounts of an enzyme for food, medical or technical applications.With the homolo-gous pepN gene of https://www.wendangku.net/doc/745355630.html,ctis it has been shown that pro-tein production up to50%of the total cellular protein is possible without the formation of inclusion bodies (de Ruyter et al.1996b).Theβ-glucuronidase gene of the Gram-negative E.coli has been expressed up to20%of the total cellular protein(de Ruyter et al.1996a).Further-more,the NICE system has been used to study the genetics and biology of pathogenic bacteria(McCormick et al. 2001;Antiporta and Dunny2002;Francia and Clewell 2002;Ribardo and McIver2003;Waters et al.2003,2004; Rigoulay et al.2004)and to study genetic entities such as chromosomes and bacteriophage genomes(Madsen et al. 1999;Zhou et al.2000;Campo et al.2002;McGrath et al. 2002;Zú?iga et al.2002).In general the experience is that genes of these various backgrounds can be expressed;how-ever,the yield is very much case-dependant.The greatest obstacle is probably codon usage.Genes of closely relat-ed Gram-positive organisms(the genera Streptococcus, Enterococcus,Staphylococcus and low-GC Lactobacillus) are almost always expressed effectively and hardly present any problems.The expression of genes of other organisms depends on the codon usage and the distribution of rarely used codons.

There are many examples in which the NICE system has been used to express enzymes that can be used in food applications,although at present,there is,to our knowledge,no commercially used application.Important examples are the expression of phage lysins,various pep-tidases and esterases to influence,for instance,flavour formation in dairy fermentations(de Ruyter et al.1997; Wegmann et al.1999;Fernández et al.2000;Luoma et al. 2001;Christensson et al.2002;Hickey et al.2004).An-other important feature of the NICE system is that it is possible to control not only the expression of one gene but of a whole operon,as shown for the eight-gene(F1F0) H+-ATPase operon of https://www.wendangku.net/doc/745355630.html,ctis(Koebmann et al.2000) or the rfb operon of https://www.wendangku.net/doc/745355630.html,ctis(Boels et al.2004). Metabolic engineering

Metabolic engineering is based on the application of genet-ic engineering methods to manipulate cellular processes and structures with the aim to study,improve or redirect cellular functions(Nielsen2001)https://www.wendangku.net/doc/745355630.html,ctis has widely been used as a model system for metabolic engineering studies because it has a rather simple carbon and energy metabo-lism in which the carbon source is mainly transformed into lactic acid via the central metabolite pyruvate(Kleerebezem and Hugenholtz2003).The possibility to dose the ex-pression of a gene of interest by varying the amount of nisin that is added for induction is unique and makes the NICE system an ideal instrument to study gradual changes in a metabolic route.Therefore,nisin-dosed expression has been used extensively to study,engineer and model sugar catabolism in https://www.wendangku.net/doc/745355630.html,ctis and the conversion of pyruvate into various alternative end products,like diacetyl and L-alanine (Lopez de Felipe et al.1998;Hols et al.1999;Lopez de Felipe and Hugenholtz1999;Hugenholtz et al.2000; Wouters et al.2000;Hoefnagel et al.2002;Neves et al. 2002;Ramos et al.2004;Smid et al.2005).As mentioned above,the NICE system cannot only be used to drive ex-pression of single genes,but also of whole operons.This feature has also been used to study and manipulate com-plex metabolic pathways,like the production of exopoly-saccharides(Looijesteijn et al.1999;Boels et al.2001, 2003,2004)and of the vitamins folate and riboflavin, leading to higher product yields(Hugenholtz et al.2002; Sybesma et al.2003a,b;Burgess et al.2004;de V os and Hugenholtz2004).

Expression of integral membrane proteins Lactococcus lactis is an excellent tool for the expression and study of integral membrane proteins of both prokary-otes and eukaryotes(Kunji et al.2003).In addition to straightforward cloning and cultivation procedures,(1) many strains of https://www.wendangku.net/doc/745355630.html,ctis are auxotrophic,allowing the incorporation of various labels,(2)the tightly regulated NICE system allows the cloning and induction of mem-brane proteins that are often toxic for the cell,(3)expressed membrane proteins are only targeted to the cytoplasmic membrane,(4)the cells have a weak proteolytic activity (htrA)that can easily be eliminated(see above),(5)https://www.wendangku.net/doc/745355630.html,ctis has only one membrane,allowing direct functional studies with either intact bacteria or isolated membrane vesicles and(6)the membrane proteins can easily be solubilized with various detergents(Kunji et al.2003)https://www.wendangku.net/doc/745355630.html,ctis has been used for the expression and functional analysis of various classes of prokaryotic integral membrane proteins such as ATP-binding cassette(ABC)transporters,ABC efflux pumps,major facilitator superfamily proteins,pep-tide transporters,mechano-sensitive channel,ATP/adeno-sine diphosphate(ADP)transporters etc.(Hagting et al. 1997;Franke et al.1999;Heuberger et al.2001;Sakamoto et al.2001;Kunji et al.2003).These transporters have been expressed to sometimes very high levels of up to30%of all membrane proteins(Margolles et al.1999)and,in general, to1–10%of all membrane proteins(Kunji et al.2003). Recently,it has been shown that https://www.wendangku.net/doc/745355630.html,ctis is also suitable for the expression of eukaryotic membrane proteins,like the KDEL receptor and different mitochondrial and hydro-genosomal carriers(Kunji et al.2003).These proteins could not only be expressed at between0.1and5%of all membrane proteins,but they were also functionally intact and showed the characteristics that they have in their natural environment.

Protein secretion and surface exposure of proteins Lactococcus lactis is a Gram-positive bacterium and there-fore has only one cellular membrane.This makes it an ideal host for protein secretion with subsequent membrane-or cell-wall-anchoring,or export into the fermentation medi-um.Another advantage is the low extracellular proteinase activity in lactococci.To date there are only two pro-teinases known:(1)the cell-wall-anchored proteinase PrtP (200kD)(Kunji et al.1996)and(2)the housekeeping membrane-bound proteinase HtrA(Poquet et al.2000). The first is plasmid-encoded and absent in the plasmid-free host strains(Gasson1983).For the second a viable mutation can be constructed that helps to stabilize secreted proteins(Miyoshi et al.2002;Lindholm et al.2004)(see above).

In comparison to the aerobically growing B.subtilis, which can secrete several grams of protein per litre,protein secretion in Lactococcus is less effective.Nonetheless, Lactococcus is an interesting host for,e.g.surface display of various antigens and the development of live vaccines and other in situ applications(Enouf et al.2001;Le Loir et al.2001b;?vall-J??skel?inen et al.2002;Bermúdez-Humarán et al.2002,2003;Ribeiro et al.2002;Chatel et al. 2003;Steen et al.2003;Lindholm et al.2004).One of the latest areas of application has been the expression and secretion of a surface-layer protein with a yield of about 100mg/l for the exploration of nanobiotechnological applications(Novotny et al.2005).

Research on the improvement of the secretion efficien-cy of lactococci is still ongoing(Le Loir et al.2001a; Nouaille et al.2003,2004;Ravn et al.2003)and is now intensified by the elucidation of the genome sequences of many Gram-positive bacteria.To date,two signal pep-tides are mainly used to effect protein secretion:(1)the signal peptide of the major lactococcal-secreted protein Usp45(van Asseldonk et al.1993)and(2)the signal peptide of the cell-wall-associated proteinase PrtP.In general the signal peptide of Usp45gives better results and is more widely used than that of PrtP(Arnau et al. 1997;Le Loir et al.2001a;Nouaille et al.2003).

For the exposure of proteins on the cell wall two principal systems have been developed:(1)the sortase system that uses the LPXTG motive at the N-or C-terminus of the protein(Dieye et al.2001;Ton-That et al. 2004)and(2)the cell-wall anchor of the major autolysin of https://www.wendangku.net/doc/745355630.html,ctis that also can be attached either N-or C-terminally(Steen et al.2003).

Expression and analysis of toxic or essential gene products

One of the great strengths of the NICE system is that it is tightly regulated,and genes that would otherwise have a detrimental effect on the cell can be cloned,analysed and expressed.Two examples are the cloning and expression of the lysin and holin genes of a homologous bacteriophage (de Ruyter et al.1997)and of cell-wall-lytic enzymes of other bacteria(Cibik et al.2001;Hickey et al.2004).Other examples are the expression of integral membrane proteins that were mentioned above.In very rare cases the residual leakage of the system can lead to unsuccessful cloning attempts when genes are cloned that encode toxic gene products.This can be amended by placing also the nisA promoter in single copy on the chromosome(Henrich et al. 2002;Sim?es-Barbosa et al.2004).

The tight control of gene expression displayed by the NICE system also allows the functional study of essential genes in any background in which the NICE system can be implemented.By integration of the nisA promoter up-stream of the gene under study,expression of essential genes can be controlled by the addition of nisin to the medium,thereby allowing growth.Subsequent removal of nisin from the growth medium leads to increasing depletion of the essential gene product,allowing the investigation of the mutant phenotype.This strategy has been employed successfully to study the phenotypes of the(F1F0)H+-ATPase(Koebmann et al.2000),the rfb locus in https://www.wendangku.net/doc/745355630.html,ctis (Boels et al.2004)and the alr gene in Lb.plantarum(Bron et al.2002).This application of the NICE system raises possibilities for high-throughput essential gene screening methods that can be of great value for pharmaceutical drug target research.

Industrial-scale applications

To our knowledge,nothing has been published yet on large-scale use of the NICE system,although clearly, there is great potential.Recently,in our own facilities,we conducted experiments to upscale the nisin-induced gene expression,using the anti-microbial protein lysostaphin as a model.This process was straightforward and without complications.Fermentation protocols can be scaled up from the1-to300-l scale and to the3,000-l scale,with almost identical fermentation characteristics and product yields(100mg/l).Four consecutive fermentations with nisin induction at3,000l were virtually identical(Mierau et al.2005a).In the same process it was also demonstrated that the downstream processing is straightforward and easy.With four unit operations—microfiltration,homog-enization,second microfiltration and chromatography—a product with90%purity was obtained(Mierau et al. 2005a).

Optimization of the NICE system for large-scale applications

As can be seen from the above,the NICE system is widely used in the scientific community for very different pur-poses.However,so far,we are aware of only one study on the optimization of the fermentation and induction scheme

to maximize product formation.In our laboratory,in a se-ries of58fermentations,a number of key parameters were tested and optimized using the antibiotic protein lyso-staphin as a model:pH of the fermentation,the neutralizing agent,the fermentation temperature,the optical density (OD)at which the culture is induced,the amount of nisin that is used for induction and the medium composition (C,N and minerals).This optimization led to a threefold increase in product formation(300mg/l)and shows that a substantial increase in yield can be achieved with care-ful optimization of the complete process(Mierau et al. 2005b).

Next-generation applications

Lactococcus lactis,in combination with the NICE gene expression system,has a number of properties that make it an interesting host for novel applications: Straightforward and functional expression and placement of membrane proteins.This property may allow the use of https://www.wendangku.net/doc/745355630.html,ctis for the expression of pharmaceutically relevant receptors and the search for new drug targets. Expression of genes with potentially toxic gene products. With the advent of genome sequencing there is an in-creased need for the functional analysis of known and unknown https://www.wendangku.net/doc/745355630.html,ctis is an ideal host for low-GC Gram-positive bacteria,especially the Gram-positive path-ogens like streptococci,enterococci and staphylococci. High-throughput cloning of silent genes(not induced with nisin)can help to increase the gene cloning success rate and allow the study of gene products that otherwise would be missed.

Furthermore,control of the expression of essential genes allows high-throughput screening for pharmaceuti-cal anti-microbial targets.

Lactococcus lactis can be grown in micro-titre plates without vigorous agitation.This feature allows simple high-throughput applications for enzyme screening and enzyme evolution.

Lactococcus lactis has a basic amino-sugar metabolism that allows the production of various heteropolysaccha-rides.The ability of https://www.wendangku.net/doc/745355630.html,ctis to produce polysaccharides makes it a possible alternative for the production of cap-sule polysaccharides of,e.g.pathogenic streptococci and other Gram-positive bacteria.

Lactococcus lactis has a high reduction potential because of its fermentative metabolism and thus allows in situ regeneration of NAD(P)H for redox reactions.This feature can be exploited for the construction of cell factories for the production of specific stereoisomers using various dehydrogenases.Bottlenecks for gene expression in https://www.wendangku.net/doc/745355630.html,ctis Fermentation conditions

Aerobic bacteria can be grown to cell densities far above 100g/l dry biomass concentration(Riesenberg and Guthke 1999).Because of the fermentative metabolism this is not possible with https://www.wendangku.net/doc/745355630.html,ctis.In a simple acidifying buffered culture in,for instance,M17medium(Terzaghi and Sandine1975),the maximum cell density is about OD600= 3(1g/l dry cell mass)(Pedersen et al.2002).Growth will stop when a pH of about5.0is reached.With neutraliza-tion using NaOH or NH4OH the cell density can rise to OD600=15(5g/l dry cell mass).The main reason for this limitation is the accumulation of lactic acid that eventually will stop the growth.There have been attempts to develop high cell density cultivation methods for lactic acid bacteria (Schiraldi et al.2003),but so far,none of these have been applied to increase gene expression.Efficient methods to extend logarithmic growth of https://www.wendangku.net/doc/745355630.html,ctis would allow further increase in the product yield.

Recently,it has been rediscovered that lactococci can grow under aerobic conditions when haem is added to the medium(Duwat et al.2001).Under these conditions the growth period and the long-term survival of the cells is greatly extended.This observation can be employed to considerably increase the cell density of lactococcal cul-tures and initiate nisin-controlled gene expression at higher cell densities,leading to increased product formation. Alternatively,NICE-like systems that display highly similar characteristics,but can be employed in respiring bacteria,such as SURE(SUbtilin Regulated gene Expres-sion)in B.subtilis,can potentially overcome the fer-mentative biomass yield restrictions encountered with https://www.wendangku.net/doc/745355630.html,ctis.

Codon usage

Until very recently codon usage was an important factor in the possibility and efficiency to express heterologous genes in https://www.wendangku.net/doc/745355630.html,ctis(GC content of the DNA of35–37%)(see above).When a gene donor organism is closely related to https://www.wendangku.net/doc/745355630.html,ctis,or the DNA GC content is similar to that of https://www.wendangku.net/doc/745355630.html,ctis,the probability that a gene can successfully be expressed is high.With the availability of cheap and reliable custom DNA synthesis,there are no longer re-strictions as to the origin of a specific target gene,since, from a known amino acid sequence,a gene can be de-signed that fits the codon usage pattern of the host or-ganism(Fuglsang2003;Gupta et al.2004).In addition to a general codon optimization,specific codon tables can be used,such as the codon table for the highly expressed ribosomal genes,to further increase product formation.

Growth and nisin induction for the NICE system

in https://www.wendangku.net/doc/745355630.html,ctis

Various media are available for growth of lactococci.The most commonly used laboratory medium is M17(Terzaghi and Sandine1975)supplemented with glucose,lactose or other sugars as carbon source and a relevant antibiotic for plasmid selection.For large-scale applications this medium is too expensive(2%ofβ-glycerophosphate as buffer)and not compatible with pharmaceutical applications because it contains animal-derived material(beef extract),posing a Bovine spongiform encephalopathy(BSE)hazard.The basic ingredients for a large-scale medium are1–3% peptone,0.5–2%yeast extract,1–10%carbon source and small amounts of magnesium and manganese ions.Since large-scale fermentations are often conducted under pH-controlled conditions,a buffer is not needed.Individual processes need specific optimization of the medium com-ponents and fermentation conditions(see Mierau et al. 2005b for an example).

For experiments in which specific metabolites are addressed or cell components need to be labelled,a chemically defined medium can be used(Poolman and Konings1988;Jensen and Hammer1993).Lactococci are auxotrophic for a number of amino acids that can be added in a labelled form and are then integrated into newly formed proteins(Kunji et al.2003).

For nisin induction of gene expression,various protocols have been reported.Nisin can either be used as pure nisinA, as crude preparation from Sigma(Catalogue no.N5764)or obtained from the culture supernatant of the strain NZ9700 (see Table1).Culture supernatant is mostly used in a 1:1,000dilution and can be stored frozen in aliquots.For induction,the exact concentration of the supernatant needs to be determined by testing dilutions between1:100and 1:10,000(Kunji et al.2003).In general,it is somewhat easier to use commercially available nisin;however,the exact amount needed for full induction also needs to be determined because of batch differences.

At a laboratory scale,an overnight culture is most commonly inoculated into fresh medium with a dilution of 1:100,grown to an optical density OD600=0.2–0.5and induced with0.1–2ng/ml nisin.After that,the culture is continued for0.5–3h and then harvested for further use or testing.In this set-up pH is not controlled,and the culture will stop growing at low cell densities because of lactic acid production and the consequent pH drop.Alterna-tively,the culture can be grown with pH control to higher cell densities.In this case,induction can be carried out at cell densities as high as OD600=5or more,leading to a substantial yield increase(Mierau et al.2005b). Finally,it has been shown that nisin induction also operates at large scales,as recently demonstrated with the production of lysostaphin in four subsequent3,000-l fermentations(Mierau et al.2005a).References

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