Stability of Cole1-Like and Pbr322-Like Plasmids in Escherichia Coli

Total Page:16

File Type:pdf, Size:1020Kb

Stability of Cole1-Like and Pbr322-Like Plasmids in Escherichia Coli Molecular Microbiology (1989) 3(12). 1745-1752 Stability of ColE1-like and pBR322-like plasmids in Escherichia coli J. Aya la-San martin and M. C. G6mez-Eichelmann* piasmid-specifio DNA sequence to a cellular partition Departamento de Biologia Molecular, Instituto de system (Miki ef al., 1980; Gustafsson et al., 1983); (iii) Investigaciones Biomedicas, Universidad Nacional site-specific recombination of multimers to provide an Autonoma de Mexico. Apto Postal 70-228, 04510 adequate number of units for partitioning (Austin et al.. Mexico. D.F. Mexico. 1981; Sherratt et aL, 1986); (iv) post-segregational killing. which prevents the appearance of plasmid-free cells in a growing culture (Jaffe et al.. 1985; Gerdes etal., 1986); and Summary (iv) temporal inhibition of cell division if the plasmid The average copy number, the level of ampicillin replication process does not provide a sufficient number resistance conferred by one plasmid, and the degree of plasmid copies per cell cycle (Ogura and Hiraga, 1983a; of plasmid multimerization were determined for Miki ef a/., 1984). Different plasmids display distinct several ColE1-like and pBR322-like plasmids. From strategies to ensure an accurate partition and therefore the results obtained, the variance of the units of stability. The low oopy-number plasmids, F. R1 and partition corresponding to each plasmid studied was prophage P1, and the intermediate copy-number plasmid, calculated. Experimentally determined plasmid stabi- pSCIOI, in addition to other strategies to ensure their lity was compared with that calculated using the stability, code for functions involved in active partition variance of the units of partition and the ratio between (Meacock and Cohen, 1980; Nordstrom ef al.. 1980; the generation times of plasmid-free and of plasmid- Austin and Abeles, 1983; Gustafsson ef ai. 1983; Ogura carrying cells, assuming that the units of partition are and Hiraga, 1983b). However, there are no reports of distributed randomly between daughter cells. active partition mechanisms for high copy-number plas- Stability of the pBR322-like plasmids present mainly mids. The stability of plasmids is a complex phenomenon; as monomers in the bacterial host was consistent with however, as has been suggested by Summers and random partitioning, whereas pBR322-like plasmids, Sherratt (1984), bacterial cells carrying high copy-number present mainly as dimers, and the ColE1-like plasmid plasmids with no active partition mechanism can generate showed greater stability than that predicted with plasmid-free cells if the number of units of partition in random partitioning at cell division. some cells close to division is relatively low. The present study was designed to experimentally test the hypothesis that partition of high copy-number plas- mids is at random. For this purpose, a bacterial population Introduction was considered to be formed by various cell sub-popu- Plasmids are extrachromosomal DNA replicons present in lations carrying different numbers of units of partition and many bacteria in a defined number of copies per cell. For therefore showing different probabilities for generation of some plasmids, this number may be as low as one to six, plasmid-free cells. It was also considered that in a whereas for others it may be as high as 100. Many bacterial population growing without selective pressure, low-copy and multi-copy plasmids are stably maintained the variance of units of partition remains constant after in a bacterial population after many generations of growth reaching an equilibrium. If this hypothesis is correct, the under non-selective conditions; however, most of the stability of these plasmids should be a function of the multi-copy plasmlds constructed in vitro and used as variance of the number of units of partition in cells near cloning vectors are unstable and are lost from cultures at division. frequencies ranging from 10"^ to 10"^ per cell per Plasmids having different transcriptionai pattems as generation (Summers and Sherratt, 1984). well as rop* and rop~ plasmids were selected. The Five main mechanisms for ensuring plasmid stability plasmid transcriptional pattern can modify the degree of have been proposed; (i) a precise replication control plasmid multimerization and, therefore, plasmid stability (Davison, 1984; Lacatena et al., 1984); (ii) an active (Bujard ef al., 1985). The rop gene encodes for a protein partition mechanism mediated by the attachment of a that represses plasmid replication (Laoatena etal., 1984) and probably determines a broader piasmid copy-number Received 2 July. 1989. *For correspondence. TeJ. (5) 5503893. variance (Summers and Sherratt, 1985). 1746 J. Ayala-Sanmarti'n and M. C. Gomez-Eichelmann Piasmid copy number, piasmid multimerization, and was calculated from the distribution of single-cell resist- single-cell resistance to ampicillin were determined in ance to different concentrations of ampicillin (Fig. 1). From strain C600 carrying each of the plasmids tested. From the these data, the average level of ampicillin resistance in the results obtained, the variance of the units of partition was bacterial population was calculated. The average level of calculated. Piasmid stability was experimentally resistance to ampicillin and the average piasmid copy determined and compared with that calculated using the number were used to determine the resistance level to experimentally obtained values for variance of the units of ampicillin conferred by one piasmid (Table 1). Piasmid pT7 partition. conferred a higher resistance to ampicillin than that conferred by the other plasmids tested. This higher resistance level is probably due to the presence in pT7 of a Results stronger bla promoter or to a higher degree of transcrip- tional readthrough into this gene from distal promoters. Average piasmid copy number and level of ampicillin The ampicillin resistance conferred by one copy of the resistance conferred by one piasmid derivative plasmids plOI or pBR329 was lower than that conferred by the original plasmids pBR322 or pBR327, The average piasmid copy number per cell determined by respectively. As mentioned before, the former plasmids a method which yields an accurate piasmid to chromo- contained an insertion of 877bp in the unique EcoRI site some ratio (Womble ef a/., 1977) was 11.5 for C0IEI present in both pBR322 and pBR327. This insert sepa- (average of two independent experiments) and 11 for pT7 rates the anti-tet promoter (Covarrubias and Bolivar, 1982) (average cf three experiments) (Table 1). The copy from the bla gene; therefore, it is possible that in plOI and numbers for plasmids pBR322, plO1, pBR327 and pBR329 the number of transcripts containing the bla gene pBR329 were determined by fluorescence densitometry is lower than that in pBR322 and pBR327. (Projan etal., 1983) using piasmid pT7 as control. With this method, the average copy number for piasmid pBR322 was 61; for plOI, 37; for pBR327. 74; and for pBR329, 20 Piasmid multimerization (Table 1). The ccpy number for piasmid pBR327 (rop~) was, as expected, higher than that for pBR322 {rop^) The degree of piasmid multimerization for the plasmids (Lacatena et al., 1984). However, the copy number for tested is shown in Table 2. Multimerization of piasmid plasmids plOI and pBR329 which carry the rep region of plOI was calculated by both electron microscopy and pBR322 and pBR327, respectively, was lower than the densitometry, as described in the Experimental pro- number expected. The main difference between pBR322 cedures. The results obtained with these two methods and pBR327 and the derivative plasmids plOI and were similar; therefore piasmid multimerization for the pBR329 is the insertion in the EcoRI site of the former other plasmids was determined using only the second plasmids of a fragment of 877 bp carrying the gene cat method. The degrees of multimerization for C0IEI and pT7 (Experimental procedures; Covarrublas and Bolivar, were similar. The relatively high percentage of dimers 1982). presented by these two plasmids was unexpected. C0IEI Since there is a linear correlation between resistance to encodes a determinant, cer, which converts multimers to ampicillin and gene dosage (Uhlin and Nordstrom, 1977). monomers (Summers and Sherratt, 1984); pT7 carries the the level of ampicillin resistance conferred by one piasmid resolution system encoded by Tn? (Arthur and Sherratt, 1979) in addition to the cer determinant. The prevalent molecular form of plasmids pBR322 and pBR327 was the Table 1. Piasmid copy number and level of ampjcillin resistance conferred by one piasmid to strain 0600. dimer; meanwhile plO1 and pBR329 were present mainly as monomers. Average ampicillin Ampicillin Average piasmid resistartce resistance Piasmid copy number/cell" (fig ml 'f (iig mlVcop/ Distribution of piasmid copy number in the bacterial PT7 11 2300 210 pBR322 61 7400 120 population at different times plOl 37 1600 .#.: pBR327 74 6700 90 The distribution of piasmid copy number in cells growing pBR329 20 900 45 exponentially under non-selective pressure at different a. The copy numbers were estimated by determination of CCC DNA (pT7) times was studied. These distributions were determined in and by fluorescence densitomelry (pBR322, plOl. pBR327, and pBR329). a cell culture started with ceils from Luria plates containing b. Calculated from histograms, as shown in Fig. 2. The histograms were a relatively high concentration of Tc (50^.g ml"^). The obtained from experiments represented as in Fig. 1. c. Ratio between
Recommended publications
  • Cosmid Vectors for Streptomycetes Genomic DNA Cloning
    Europaisches Patentamt 19 European Patent Office Office europeen des brevets (n) Publication number : 0 620 280 A1 EUROPEAN PATENT APPLICATION (21) Application number : 94302414.1 © int. ci.5: C12N 15/70, C12N 15/76, C12N 1/21, //(C12N1/21, (22) Date of filing : 05.04.94 C12R1:19, 1:465, 1:55) (30) Priority : 16.04.93 US 48719 (72) Inventor : Denoya, Claudio D. 80 Spyglass Circle Groton, Connecticut 06340 (US) @ Date of publication of application : 19.10.94 Bulletin 94/42 (74) Representative : Moore, James William, Dr. Pfizer Limited @ Designated Contracting States : Ramsgate Road AT BE CH DE DK ES FR GB GR IE IT LI LU NL Sandwich Kent CT13 9NJ (GB) PT SE @ Applicant : PFIZER INC. 235 East 42nd Street New York, N.Y. 10017 (US) (54) Cosmid vectors for streptomycetes genomic DNA cloning. (57) Novel cosmid cloning vectors are disclosed. Such vectors facilitate many steps involved in cloning chromosomal DNA restriction fragments from streptomycetes. The cosmids have Adenine and Thymine-rich recognition sequences for several restriction enzymes flanking cloning sites. Also disclosed are host cells containing the novel cosmid cloning vectors. o 00 CM o CM CO LU Jouve, 18, rue Saint-Denis, 75001 PARIS EP 0 620 280 A1 Background of the Invention The present invention relates to a set of novel cosmid cloning vectors that facilitate gene cloning in a wide variety of streptomycetes, including the avermectin-producing microorganism Streptomyces avermitilis. 5 The application of recombinant DNA techniques in antibiotic-producing microorganisms constitutes an in- creasingly important area of biotechnological research. Streptomycetes are gram- positive microorganisms that are well known for their ability to produce a variety of commercially useful therapeutic substances.
    [Show full text]
  • Pcor: a New Design of Plasmid Vectors for Nonviral Gene Therapy
    Gene Therapy (1999) 6, 1482–1488 1999 Stockton Press All rights reserved 0969-7128/99 $12.00 http://www.stockton-press.co.uk/gt BRIEF COMMUNICATION pCOR: a new design of plasmid vectors for nonviral gene therapy F Soubrier, B Cameron, B Manse, S Somarriba, C Dubertret, G Jaslin, G Jung, C Le Caer, D Dang, JM Mouvault, D Scherman, JF Mayaux and J Crouzet Rhoˆne-Poulenc Rorer, Centre de Recherche de Vitry Alfortville, 13 Quai J Guesde, 94403 Vitry-sur-Seine, France A totally redesigned host/vector system with improved initiator protein, ␲ protein, encoded by the pir gene limiting properties in terms of safety has been developed. The its host range to bacterial strains that produce this trans- pCOR plasmids are narrow-host range plasmid vectors for acting protein; (2) the plasmid’s selectable marker is not an nonviral gene therapy. These plasmids contain a con- antibiotic resistance gene but a gene encoding a bacterial ditional origin of replication and must be propagated in a suppressor tRNA. Optimized E. coli hosts supporting specifically engineered E. coli host strain, greatly reducing pCOR replication and selection were constructed. High the potential for propagation in the environment or in yields of supercoiled pCOR monomers were obtained (100 treated patients. The pCOR backbone has several features mg/l) through fed-batch fermentation. pCOR vectors carry- that increase safety in terms of dissemination and selec- ing the luciferase reporter gene gave high levels of lucifer- tion: (1) the origin of replication requires a plasmid-specific ase activity when injected into murine skeletal muscle. Keywords: gene therapy; plasmid DNA; conditional replication; selection marker; multimer resolution Two different types of DNA vehicles, based criteria.4 These high copy number plasmids carry a mini- on recombinant viruses and bacterial DNA plasmids, are mal amount of bacterial sequences, a conditional origin used in gene therapy.
    [Show full text]
  • Mobilization of the Cole1 Plasmid with Synthetic Constructs
    Faculty of Medicine Master in Molecular Biology and Biochemistry June, 2016 Mobilization of the ColE1 Plasmid with Synthetic Constructs By Miriam Ruiz Cantos Under the supervision of: Prof. Fernando de la Cruz Calahorra Dr. Athanasia Varsaki Index Introduction ................................................................................................................................... 1 MOB families ............................................................................................................................ 3 Plasmid incompatibility ............................................................................................................ 4 ColE1 and its MOB region ........................................................................................................ 6 Objectives .................................................................................................................................... 10 Methodology ............................................................................................................................... 11 Plasmid methodology, enzymes and oligonucleotides. ........................................................... 13 Conjugation experiments......................................................................................................... 15 Standard genetic experiments .................................................................................................. 15 Results ........................................................................................................................................
    [Show full text]
  • A Plasmid System with Tunable Copy Number
    bioRxiv preprint doi: https://doi.org/10.1101/2021.07.13.451660; this version posted July 13, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-ND 4.0 International license. 1 A Plasmid System with Tunable Copy Number 2 Miles V. Rouches and Yasu Xu 3 Field of Biophysics, Cornell University, Ithaca, NY 14853, USA ∗ 4 Louis Cortes and Guillaume Lambert 5 School of Applied and Engineering Physics, Cornell University, Ithaca, NY 14853, USA 6 (Dated: July 13, 2021) Plasmids are one of the most commonly used and time-tested molecular biology platforms for genetic engineering and recombinant gene expression in bacteria. Despite their ubiquity, little consideration is given to metabolic effects and fitness costs of plasmid copy numbers on engineered genetic systems. Here, we introduce two systems that allow for the finely-tuned control of plasmid copy number: a plasmid with an anhydrotetracycline-controlled copy number, and a massively parallel assay that is used to generate a continuous spectrum of ColE1-based copy number variants. Using these systems, we investigate the effects of plasmid copy number on cellular growth rates, gene expression, biosynthesis, and genetic circuit performance. We perform single-cell timelapse measurements to characterize plasmid loss, runaway plasmid replication, and quantify the impact of plasmid copy number on the variability of gene expression. Using our massively parallel assay, we find that each plasmid imposes a 0.063% linear metabolic burden on their hosts, hinting at a simple relationship between metabolic burdens and plasmid DNA synthesis.
    [Show full text]
  • Mechanisms of Theta Plasmid Replication
    Mechanisms of Theta Plasmid Replication JOSHUA LILLY1 and MANEL CAMPS1 1Department of Microbiology and Environmental Toxicology, University of California Santa Cruz, Santa Cruz, CA 95064 ABSTRACT Plasmids are autonomously replicating pieces of lagging-strand synthesis are coupled or uncoupled. This DNA. This article discusses theta plasmid replication, which is a article focuses on replication of circular plasmids whose class of circular plasmid replication that includes ColE1-like lagging strand is synthesized discontinuously, a mecha- origins of replication popular with expression vectors. nism known as theta replication because replication in- All modalities of theta plasmid replication initiate synthesis θ with the leading strand at a predetermined site and complete termediates have the shape of the Greek letter (theta). replication through recruitment of the host’s replisome, Our discussion will focus on replication initiation, which which extends the leading strand continuously while informs different biological properties of plasmids (size, synthesizing the lagging strand discontinuously. There are clear host range, plasmid copy number, etc.), and on how ini- differences between different modalities of theta plasmid tiation is regulated in these plasmids. To highlight unique replication in mechanisms of DNA duplex melting and in priming aspects of theta plasmid replication, this mode of repli- of leading- and lagging-strand synthesis. In some replicons cation will also be compared with another mode of cir- duplex melting depends on transcription, while other replicons rely on plasmid-encoded trans-acting proteins (Reps); cular plasmid replication, strand-displacement. primers for leading-strand synthesis can be generated through processing of a transcript or in other replicons by the action of host- or plasmid-encoded primases.
    [Show full text]
  • Open Final Thesis Long 2012.Pdf
    The Pennsylvania State University The Graduate School College of Engineering ENGINEERING A SYNTHETIC REPLICATION SYSTEM TO SECURELY STORE RECOMBINANT DNA A Thesis in Agricultural and Biological Engineering by Long Chen 2012 Long Chen Submitted in Partial Fulfillment of the Requirements for the Degree of Master of Science December 2012 The thesis of Long Chen was reviewed and approved* by the following: Howard Salis Assistant Professor of Agricultural and Biological Engineering Thesis Advisor Jeff Catchmark Professor of Agricultural and Biological Engineering Kenneth Keiler Associate Professor of Biochemistry and Molecular Biology Virendra Puri Distinguished Professor of Agricultural and Biological Engineering Graduate Program Coordinator *Signatures are on file in the Graduate School iii ABSTRACT The biotech industry spends millions to engineer genetic systems and manufacture products, and yet the DNA can be stolen and easily reverse-engineered for nefarious purposes. We are developing a synthetic DNA replication system to securely store high- value recombinant DNA and to prevent it from being manipulated by unauthorized third- parties. Our “LOCK and KEY” system only allows a high-value plasmid to replicate inside an authorized bacterial host, controlling a key route to reverse engineering a genetic system. Importantly, the LOCK and KEY system requires no special action by legitimate researchers and multiple orthogonal variants are available. iv TABLE OF CONTENTS List of Figures………………………………………………………………………………....v List of Tables………………………………………………………………………………….vi
    [Show full text]
  • Genetic Control of Cole1 Plasmid Stability That Is Independent of Plasmid Copy Number Regulation
    UC Office of the President Recent Work Title Genetic control of ColE1 plasmid stability that is independent of plasmid copy number regulation. Permalink https://escholarship.org/uc/item/8rp9q6cj Journal Current genetics, 65(1) ISSN 0172-8083 Authors Standley, Melissa S Million-Weaver, Samuel Alexander, David L et al. Publication Date 2019-02-01 DOI 10.1007/s00294-018-0858-0 Peer reviewed eScholarship.org Powered by the California Digital Library University of California Current Genetics https://doi.org/10.1007/s00294-018-0858-0 ORIGINAL ARTICLE Genetic control of ColE1 plasmid stability that is independent of plasmid copy number regulation Melissa S. Standley1 · Samuel Million‑Weaver1,2 · David L. Alexander1,3 · Shuai Hu1 · Manel Camps1 Received: 26 March 2018 / Revised: 8 June 2018 / Accepted: 12 June 2018 © Springer-Verlag GmbH Germany, part of Springer Nature 2018 Abstract ColE1-like plasmid vectors are widely used for expression of recombinant genes in E. coli. For these vectors, segregation of individual plasmids into daughter cells during cell division appears to be random, making them susceptible to loss over time when no mechanisms ensuring their maintenance are present. Here we use the plasmid pGFPuv in a recA relA strain as a sensitized model to study factors affecting plasmid stability in the context of recombinant gene expression. We find that in this model, plasmid stability can be restored by two types of genetic modifications to the plasmid origin of replication (ori) sequence: point mutations and a novel 269 nt duplication at the 5′ end of the plasmid ori, which we named DAS (duplicated anti-sense) ori.
    [Show full text]
  • Choosing a Cloning Vector
    Cloning Vectors 19 2 Choosing a Cloning Vector Andrew Preston 1. Introduction Since the construction of the first generation of general cloning vectors in the early 1970s, the number of plasmids created has increased to an almost countless number. Thus, a critical decision facing today’s investigator is that of which plasmid to use in a particular project? Despite the bewildering choice of commercial and other available vectors, the choice of which cloning vector to use can be decided by applying a small number of criteria: insert size, copy number, incompatibility, selectable marker, clon- ing sites, and specialized vector functions. Several of these criteria are dependent on each other. This chapter discusses these criteria in the context of choosing a plasmid for use as a cloning vector and Table 1 displays the features of some commonly used cloning vectors. 2. Criteria for Choosing a Cloning Vector 2.1. Insert Size For projects in which it is desired that a particular piece of DNA be cloned, one consideration is the size of the insert DNA. Most general cloning plasmids can carry a DNA insert up to around 15 kb in size. Inserts in excess of this place constraints on proper replication of the plasmids (particularly for high-copy-number vectors) and can cause problems with insert stability. Several types of vectors are available for cloning large fragments of DNA. These are most commonly used to construct libraries of clones that are often representative of entire genomes. Library clones are then screened to identify the particular clone that carries the DNA of interest.
    [Show full text]
  • Isolation and Characterization of Novel Mutations in the Psc101 Origin That Increase Copy Number Received: 29 September 2017 Mitchell G
    www.nature.com/scientificreports OPEN Isolation and characterization of novel mutations in the pSC101 origin that increase copy number Received: 29 September 2017 Mitchell G. Thompson1,2,3, Nima Sedaghatian1,2, Jesus F. Barajas2,4, Maren Wehrs1,2, Accepted: 11 January 2018 Constance B. Bailey1,2, Nurgul Kaplan1,2,4, Nathan J. Hillson1,2,4, Aindrila Mukhopadhyay1,2 & Published: xx xx xxxx Jay D. Keasling1,2,5,6,7 pSC101 is a narrow host range, low-copy plasmid commonly used for genetically manipulating Escherichia coli. As a byproduct of a genetic screen for a more sensitive lactam biosensor, we identifed multiple novel mutations that increase the copy number of plasmids with the pSC101 origin. All mutations identifed in this study occurred on plasmids which also contained at least one mutation localized to the RepA protein encoded within the origin. Homology modelling predicts that many of these mutations occur within the dimerization interface of RepA. Mutant RepA resulted in plasmid copy numbers between ~31 and ~113 copies/cell, relative to ~5 copies/cell in wild-type pSC101 plasmids. Combining the mutations that were predicted to disrupt multiple contacts on the dimerization interface resulted in copy numbers of ~500 copies/cell, while also attenuating growth in host strains. Fluorescent protein production expressed from an arabinose-inducible promoter on mutant origin derived plasmids did correlate with copy number. Plasmids harboring RepA with one of two mutations, E83K and N99D, resulted in fuorescent protein production similar to that from p15a- (~20 copies/cell) and ColE1- (~31 copies/cell) based plasmids, respectively. The mutant copy number variants retained compatibility with p15a, pBBR, and ColE1 origins of replication.
    [Show full text]
  • When Pol I Goes Into High Gear Processive DNA Synthesis by Pol I in the Cell
    [Cell Cycle 3:2, 116-118; February 2004]; ©2004 Landes Bioscience Extra Views When Pol I Goes into High Gear Processive DNA Synthesis by Pol I in the Cell Manel Camps* ABSTRACT Lawrence A. Loeb Pol I is the most abundant polymerase in E. coli and plays an important role in short patch repair. In accordance with this role in the cell, the purified polymerase exhibits low The Joseph Gottstein Memorial Cancer Research Laboratory; Department of processivity and high fidelity in vitro. Pol I is also the polymerase responsible for leader Pathology; University of Washington; Seattle, Washington USA strand synthesis during ColE1 plasmid replication. In a previous publication, we *Correspondence to: Manel Camps; Email: [email protected] described the generation of a highly error-prone DNA polymerase I. Expression of this Received 11/11/03; Accepted 11/17/03 mutant Pol I results in errors during the replication of a ColE1 plasmid. The distribution and spectrum of mutations in the ColE1 plasmid sequence downstream the ori indicates Previously published online as a Cell Cycle E-publication: that Pol I is capable of more processive replication in vivo than previously accepted. http://www.landesbioscience.com/journals/cc/abstract.php?id=651 Here, we review evidence suggesting that Pol I may be recruited into a replisome-like holoenzyme and speculate that processive DNA replication by Pol I may play a role in KEY WORDS recombination-dependent DNA replication in the cell. plasmid, replication, Pol I, Pol III, replisome, DNA repair, recombination DNA polymerases catalyze the template-directed incorporation of deoxynucleotides into a growing primer terminus.
    [Show full text]
  • Based Assay (RBA) for Screening Bacteriophage Lambda Libraries
    Recombination-Based Assay (RBA) for UNIT 6.12 Screening Bacteriophage Lambda Libraries The recombination-based assay represents a convenient way to screen a complex library BASIC constructed in bacteriophage λ for homology to a given sequence cloned into a specially PROTOCOL designed plasmid. The technique serves to screen a bacteriophage library rapidly and efficiently with a sequence cloned into a plasmid; counterselection then yields the gene product of interest with its plasmid carrier deleted. Because 106 to 107 plaque-forming units (pfu) may be screened using several petri dishes, and the homology for crossing-over need only be >25 bp, the RBA represents an efficient way to screen complex λ libraries rapidly for homology to a given sequence. In this procedure (outlined in Fig. 6.12.1), a λ library is screened using a specially designed R6K supF plasmid, pAD1 (Fig. 6.12.2), carrying the desired target sequence. Recombinants arising from cross-over events between the plasmid and a bacteriophage carrying a corresponding region of homology are selected by their ability to grow on strain DM21 (Fig. 6.12.3). Growth of λ on DM21 requires the presence of the supF allele encoded on the plasmid to suppress an amber mutation in the host strain that prevents λ propagation. Recovery of the original phage carrying the target sequence requires a reversal of the homologous recombination event. This reversal occurs spontaneously, and is detected by PCR amplification using primers that flank the cloning site in the λ vector (Fig. 6.12.4). supF supF Kmr ori Kmr ori DM21 blue plaque lacZam P1 ban dnaBam cos cos λ-plasmid chimera colorless plaque plasmid cos human probe cos cos cos phage λ phage Figure 6.12.1 The recombination-based assay (RBA).
    [Show full text]
  • Cole1-Plasmid Production in Escherichia Coli: Mathematical Simulation and Experimental Validation
    View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Publications at Bielefeld University ORIGINAL RESEARCH published: 01 September 2015 doi: 10.3389/fbioe.2015.00127 ColE1-plasmid production in Escherichia coli: mathematical simulation and experimental validation Inga Freudenau 1, Petra Lutter 1, Ruth Baier 2, Martin Schleef 2, Hanna Bednarz 1,3, Alvaro R. Lara 4 and Karsten Niehaus 1,3* 1 Abteilung für Proteom- und Metabolomforschung, Fakultät für Biologie, Universität Bielefeld, Bielefeld, Germany, Edited by: 2 PlasmidFactory GmbH & Co. KG, Bielefeld, Germany, 3 Institut für Genomforschung und Systembiologie, Centrum für Firas H. Kobeissy, Biotechnologie (CeBiTec), Universität Bielefeld, Bielefeld, Germany, 4 Departamento de Procesos y Tecnología, Universidad University of Florida, USA Autónoma Metropolitana-Cuajimalpa, Mexico City, Mexico Reviewed by: Lyamine Hedjazi, Plasmids have become very important as pharmaceutical gene vectors in the fields of Institute of Cardiometabolism and Nutrition (ICAN), France gene therapy and genetic vaccination in the past years. In this study, we present a dynamic Zaher Dawy, model to simulate the ColE1-like plasmid replication control, once for a DH5α-strain American University of Beirut, carrying a low copy plasmid (DH5 -pSUP 201-3) and once for a DH5 -strain carrying Lebanon α α a high copy plasmid (DH5 -pCMV-lacZ) by using ordinary differential equations and the *Correspondence: α Karsten Niehaus, MATLAB software. The model includes the plasmid replication control by two regulatory Abteilung für Proteom- und RNA molecules (RNAI and RNAII) as well as the replication control by uncharged tRNA Metabolomforschung, Fakultät für Biologie, Universität Bielefeld, molecules. To validate the model, experimental data like RNAI- and RNAII concentration, Universitätsstr.
    [Show full text]