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Is the distribution of plasmid lengths bimodal? Plasmid (IF 2.6) Pub Date : 2024-02-04 Ian Dewan, Hildegard Uecker
The length of a plasmid is a key property which is linked to many aspects of plasmid biology. When distributions of plasmid lengths are shown in the literature, they are usually plotted with length on a logarithmic scale. However, a quantity and its logarithm have distinct distributions which may differ considerably in shape. Mistaking the distribution of log-lengths for the distribution of lengths
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pSK41/pGO1-family conjugative plasmids of Staphylococcus aureus encode a cryptic repressor of replication Plasmid (IF 2.6) Pub Date : 2023-11-13 Alvina Sarosh, Stephen M. Kwong, Slade O. Jensen, Faith Northern, William G. Walton, Thomas C. Eakes, Matthew R. Redinbo, Neville Firth, Krystle J. McLaughlin
The majority of large multiresistance plasmids of Staphylococcus aureus utilise a RepA_N-type replication initiation protein, the expression of which is regulated by a small antisense RNA (RNAI) that overlaps the rep mRNA leader. The pSK41/pGO1-family of conjugative plasmids additionally possess a small (86 codon) divergently transcribed ORF (orf86) located upstream of the rep locus. The product of
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The extensively antibiotic resistant ST111 Acinetobacter baumannii isolate RBH2 carries an extensive mobile element complement of plasmids, transposons and insertion sequences Plasmid (IF 2.6) Pub Date : 2023-09-06 Stephanie J. Ambrose, Mehrad Hamidian, Ruth M. Hall
The complete genome of RBH2, a sporadic, carbapenem resistant ST111 Acinetobacter baumannii isolate from Brisbane, Australia was determined and analysed. RBH2 is extensively resistant and the chromosome includes two transposons carrying antibiotic resistance genes, AbaR4 (oxa23 in Tn2006) and Tn7::Tn2006 (dfrA1, sat2, aadA1, oxa23). The chromosome also includes two copies of Tn6175, a transposon carrying
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Clinical antibiotic-resistance plasmids have small effects on biofilm formation and population growth in Escherichia coli in vitro Plasmid (IF 2.6) Pub Date : 2023-08-29 Laura Brülisauer, Ricardo León-Sampedro, Alex R. Hall
Antimicrobial resistance (AR) mechanisms encoded on plasmids can affect other phenotypic traits in bacteria, including biofilm formation. These effects may be important contributors to the spread of AR and the evolutionary success of plasmids, but it is not yet clear how common such effects are for clinical plasmids/bacteria, and how they vary among different plasmids and host strains. Here, we used
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Effect of the S008-sgaCD operon on IncC plasmid stability in the presence of SGI1-K or absence of an SGI1 variant Plasmid (IF 2.6) Pub Date : 2023-07-28 Stephanie J. Ambrose, Ruth M. Hall
An IncC or IncA plasmid is needed to enable transfer of SGI1 type integrative mobilisable elements but an IncC plasmid does not stably co-exist with SGI1. However, the plasmid is stably maintained with SGI1-K, a natural SGI1 deletion variant that lacks the sgaDC genes (S007 and S006) and the upstream open reading frame (S008) found in the SGI1 backbone. Here, the effect of the sgaDC genes and S008
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Plasmids on the move: Latest advances in Plasmid Biology from ISPB2022 Plasmid (IF 2.6) Pub Date : 2023-06-25 Jean-Yves Bouet, François Cornet, Eva Top
Abstract not available
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A subclass of the IS1202 family of bacterial insertion sequences targets XerCD recombination sites Plasmid (IF 2.6) Pub Date : 2023-06-09 Patricia Siguier, Philippe Rousseau, François Cornet, Michael Chandler
We describe here a new family of IS which are related to IS1202, originally isolated from Streptococcus pneumoniae in the mid-1990s and previously tagged as an emerging IS family in the ISfinder database. Members of this family have impacted some important properties of their hosts. We describe here another potentially important property of certain family members: specific targeting of xrs recombination
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Atypical low-copy number plasmid segregation systems, all in one? Plasmid (IF 2.6) Pub Date : 2023-06-08 Patricia Siguier, Manuel Campos, François Cornet, Jean-Yves Bouet, Catherine Guynet
Plasmid families harbor different maintenances functions, depending on their size and copy number. Low copy number plasmids rely on active partition systems, organizing a partition complex at specific centromere sites that is actively positioned using NTPase proteins. Some low copy number plasmids lack an active partition system, but carry atypical intracellular positioning systems using a single protein
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An overview of plasmid transfer in the plant microbiome Plasmid (IF 2.6) Pub Date : 2023-06-07 Angela M. Sánchez-Salazar, Tanvi Taparia, Asmus K. Olesen, Jacquelinne J. Acuña, Søren J. Sørensen, Milko A. Jorquera
Plant microbiomes are pivotal for healthy plant physiological development. Microbes live in complex co-association with plant hosts, and interactions within these microbial communities vary with plant genotype, plant compartment, phenological stage, and soil properties, among others. Plant microbiomes also harbor a substantial and diverse pool of mobile genes encoded on plasmids. Several plasmid functions
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In-silico functional analysis of hypothetical proteins from Lactiplantibacillus plantarum plasmids reveals enrichment of cell envelope proteins Plasmid (IF 2.6) Pub Date : 2023-05-29 Dimple Davray, Ram Kulkarni
Lactiplantibacillus plantarum is one of the important species of lactic acid bacterium (LAB) found in diverse environments, with many strains exhibiting probiotic properties. In our previous study, 41.6% of protein families (PFs) encoded by 395 plasmids from several L. plantarum strains were found to be hypothetical proteins with no predicted function. This study aimed at predicting the functions of
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CFTR and dystrophin encoding plasmids carrying both luciferase reporter gene, nuclear import specific sequences and triple helix sites Plasmid (IF 2.6) Pub Date : 2023-05-18 Delphine Maze, Caroline Girardin, Nathalie Benz, Tristan Montier, Chantal Pichon, Patrick Midoux
Duchenne Muscular Dystrophy and Cystic Fibrosis are two major monogenetic diseases which could be treated by non-viral gene therapy. For this purpose, plasmid DNA (pDNA) coding for the functional genes requires its equipment with signal molecules favouring its intracellular trafficking and delivery in the nucleus of the target cells. Here, two novel constructions of large pDNAs encoding the Cystic
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Guidelines for the estimation and reporting of plasmid conjugation rates Plasmid (IF 2.6) Pub Date : 2023-04-29 Olivia Kosterlitz, Jana S. Huisman
Conjugation is a central characteristic of plasmid biology and an important mechanism of horizontal gene transfer in bacteria. However, there is little consensus on how to accurately estimate and report plasmid conjugation rates, in part due to the wide range of available methods. Given the similarity between approaches, we propose general reporting guidelines for plasmid conjugation experiments. These
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Plasmid classifications Plasmid (IF 2.6) Pub Date : 2023-04-26 M. Pilar Garcillán-Barcia, Santiago Redondo-Salvo, Fernando de la Cruz
Plasmids are universally present in bacteria and play key roles in the dissemination of genes such as antibiotic resistance determinants. Major concepts in Plasmid Biology derive from the efforts to classify plasmids. Here, we review the main plasmid classification systems, starting by phenotype-based methods, such as fertility inhibition and incompatibility, followed by schemes based on a single gene
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Calcium-responsive plasmid copy number regulation is dependent on discrete YopD domains in Yersinia pseudotuberculosis Plasmid (IF 2.6) Pub Date : 2023-04-17 Pit Engling, Tifaine Héchard, Tomas Edgren, Matthew Francis, Petra Dersch, Helen Wang
Yersinia pathogenicity depends mainly on a Type III Secretion System (T3SS) responsible for translocating effector proteins into the eukaryotic target cell cytosol. The T3SS is encoded on a 70 kb, low copy number virulence plasmid, pYV. A key T3SS regulator, YopD, is a multifunctional protein and consists of discrete modular domains that are essential for pore formation and translocation of Yop effectors
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Polluted wetlands contain multidrug-resistance plasmids encoding CTX-M-type extended-spectrum β-lactamases Plasmid (IF 2.6) Pub Date : 2023-04-04 Ryan T. Botts, Dawne M. Page, Joseph A. Bravo, Madelaine L. Brown, Claudia C. Castilleja, Victoria L. Guzman, Samantha Hall, Jacob D. Henderson, Shelby M. Kenney, Mariele E. Lensink, Megan V. Paternoster, Sarah L. Pyle, Lucas Ustick, Chara J. Walters-Laird, Eva M. Top, David E. Cummings
While most detailed analyses of antibiotic resistance plasmids focus on those found in clinical isolates, less is known about the vast environmental reservoir of mobile genetic elements and the resistance and virulence factors they encode. We selectively isolated three strains of cefotaxime-resistant Escherichia coli from a wastewater-impacted coastal wetland. The cefotaxime-resistant phenotype was
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Reprogramming Targeted-Antibacterial-Plasmids (TAPs) to achieve broad-host range antibacterial activity Plasmid (IF 2.6) Pub Date : 2023-03-30 Sarah Djermoun, Audrey Reuter, Elisabeth Derollez, Christian Lesterlin, Sarah Bigot
The emergence and spread of antimicrobial resistance results in antibiotic inefficiency against multidrug resistant bacterial strains. Alternative treatment to antibiotics must be investigated to fight bacterial infections and limit this global public health problem. We recently developed an innovative strategy based on mobilizable Targeted-Antibacterial-Plasmids (TAPs) that deliver CRISPR/Cas systems
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Iteron control of oriV function in IncP-1 plasmid RK2 Plasmid (IF 2.6) Pub Date : 2023-03-28 Anand P. Maurya, Alessandro Lazdins, Helen Wilson, Georgina S. Lloyd, Elton R. Stephens, Anthony S. Haines, Christopher M. Thomas
Replication control of many plasmids is mediated by the balance between the positive and negative effects of Rep protein binding repeated sequences (iterons) associated with the replication origin, oriV. Negative control is thought to be mediated by dimeric Rep protein linking iterons in a process termed “handcuffing”. The well-studied oriV region of RK2 contains 9 iterons arranged as a singleton (iteron
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SSR identification and phylogenetic analysis in four plant species based on complete chloroplast genome sequences Plasmid (IF 2.6) Pub Date : 2023-02-23 Yueyi Zhu, Xianwen Zhang, Shufeng Yan, Chen Feng, Dongfang Wang, Wei Yang, Muhammad Khan Daud, Jiqian Xiang, Lei Mei
The effective utilization of traditional Chinese medicine (TCM) has been challenged by the difficulty to accurately distinguish between similar plant varieties. The stability and conservation of the chloroplast genome can aid in resolving genotypes. Previous studies using nuclear sequences and molecular markers have not effectively differentiated the species from related taxa, such as Machilus leptophylla
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Carriage of three plasmids in a single human clinical isolate of Clostridioides difficile Plasmid (IF 2.6) Pub Date : 2022-12-23 Anna M. Roseboom, Quinten R. Ducarmon, Bastian V.H. Hornung, Céline Harmanus, Monique J.T. Crobach, Ed J. Kuijper, Rolf H.A.M. Vossen, Susan L. Kloet, Wiep Klaas Smits
A subset of clinical isolates of Clostridioides difficile contains one or more plasmids and these plasmids can harbor virulence and antimicrobial resistance determinants. Despite their potential importance, C. difficile plasmids remain poorly characterized. Here, we provide the complete genome sequence of a human clinical isolate that carries three high-copy number plasmids from three different plasmid
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IS26-mediated loss of the translocatable unit from Tn4352B requires the presence of the recA1 allele Plasmid (IF 2.6) Pub Date : 2022-12-05 Carol H. Pong, Jade E. Peace, Christopher J. Harmer, Ruth M. Hall
The pseudo-compound transposon Tn4352B is unusual in that the translocatable unit (TU) consisting of one of the bounding IS26 copies and the central portion containing the aphA1a gene has been found to be readily lost in the Escherichia coli strains used as host. Rapid loss required the presence of an additional 2 G residues adjacent to the internal end of one of the IS26 that flank the central portion
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Can SGI1 family integrative mobilizable elements overcome entry exclusion exerted by IncA and IncC plasmids on IncC plasmids? Plasmid (IF 2.6) Pub Date : 2022-11-11 Stephanie J. Ambrose, Ruth M. Hall
Though IncC and IncA plasmids are compatible, they exert high level exclusion on one another. Here, the question of whether the presence of an SGI1 family element in the donor can overcome the exclusion of an IncC plasmid exerted by an IncC or IncA plasmid in the recipient was investigated. The transfer of the integrative mobilizable element SGI1 and its many variant forms into a new host is dependent
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Corrigendum to “The fluorination effect on the transfection efficacy of cell penetrating peptide complexes” [PLASMID, volume 119 (2022) start page–end page] Plasmid (IF 2.6) Pub Date : 2022-10-31 Abdulgader A. Baoum
Abstract not available
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IncFV plasmid pED208: Sequence analysis and evidence for translocation of maintenance/leading region proteins through diverse type IV secretion systems Plasmid (IF 2.6) Pub Date : 2022-10-11 Abu Amar M. Al Mamun, Kimberly Kissoon, Kouhei Kishida, William C. Shropshire, Blake Hanson, Peter J. Christie
Two phylogenetically distantly-related IncF plasmids, F and pED208, serve as important models for mechanistic and structural studies of F-like type IV secretion systems (T4SSFs) and F pili. Here, we present the pED208 sequence and compare it to F and pUMNF18, the closest match to pED208 in the NCBI database. As expected, gene content of the three cargo regions varies extensively, although the maintenance/leading
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Characterization of IncI1/ST71 and IncF18:A−:B1 multidrug-resistance plasmids from an avian Escherichia coli isolate Plasmid (IF 2.6) Pub Date : 2022-10-01 Teng-Li Zhang, Dan-Dan He, Ying-Ying Liu, Li-Jie Yu, Gong-Zheng Hu, Yu-Shan Pan
To characterize IncI1 and IncF18:A−:B1 multidrug-resistance plasmids from an avian Escherichia coli isolate, antibiotic susceptibility testing, conjugation assays, transformation assays, S1-PFGE, and WGS analysis were performed. The 119,457-bp plasmid pEC014–1 with a multidrug-resistance region (MRR) containing four different segments interspersed with six IS26 elements, belonged to incompatibility
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Genomic analysis of plasmid content in food isolates of E. coli strongly supports its role as a reservoir for the horizontal transfer of virulence and antibiotic resistance genes Plasmid (IF 2.6) Pub Date : 2022-09-18 María G. Balbuena-Alonso, Gerardo Cortés-Cortés, Jay W. Kim, Patricia Lozano-Zarain, Manel Camps, Rosa del Carmen Rocha-Gracia
The link between E. coli strains contaminating foods and human disease is unclear, with some reports supporting a direct transmission of pathogenic strains via food and others highlighting their role as reservoirs for resistance and virulence genes. Here we take a genomics approach, analyzing a large set of fully-assembled genomic sequences from E. coli available in GenBank. Most of the strains isolated
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An easily modifiable conjugative plasmid for studying horizontal gene transfer Plasmid (IF 2.6) Pub Date : 2022-09-11 Qinqin Wang, Asmus Kalckar Olesen, Lorrie Maccario, Jonas Stenløkke Madsen
Horizontal gene transfer is an important mechanism in bacterial evolution and can occur at striking frequencies when mediated by mobile genetic elements. Conjugative plasmids are mobile genetic elements that are main drivers of horizontal transfer and a major facilitator in the spread of antibiotic resistance genes. However, conjugative plasmid models that readily can be genetically modified with the
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Implementation of a tunable t-CRISPRi system for gene regulation in Giardia duodenalis Plasmid (IF 2.6) Pub Date : 2022-08-08 Eduardo García-Huerta, Sara Espinoza-Corona, Francisco Alejandro Lagunas-Rangel, Maria Luisa Bazan-Tejeda, Yessica Vazquez-Cobix, Maria Guadalupe Ortega-Pierres, Rosa Maria Bermúdez-Cruz
Giardia duodenalis, is a binuclear and microaerophilic protozoan that causes giardiasis. Up to date, several molecular approaches have been taken to understand the molecular mechanisms of diverse cellular processes in this parasitic protozoan. However, the role of many genes involved in these processes needs further analysis. The CRISPR interference (CRISPRi) system has been widely used, as a constitutive
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Genetic editing of multi-resistance plasmids in Escherichia coli isolated from meat during transfer Plasmid (IF 2.6) Pub Date : 2022-07-21 Tania S. Darphorn, Stanley Brul, Benno H. ter Kuile
Resistance plasmids mediate the rapid spread of antimicrobial resistance, which poses a threat to veterinary and human healthcare. This study addresses the question whether resistance plasmids from Escherichia coli isolated from foodstuffs always transfer unchanged to recipient E. coli cells, or that genetic editing can occur. Strains containing between one and five different plasmids were co-incubated
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Conjugation-mediated transfer of pXO16, a large plasmid from Bacillus thuringiensis sv. israelensis, across the Bacillus cereus group and its impact on host phenotype Plasmid (IF 2.6) Pub Date : 2022-07-13 Pauline Hinnekens, Jacques Mahillon
pXO16, the 350 kb-conjugative plasmid from Bacillus thuringiensis sv. israelensis promotes its own transfer at high efficiency, triggers the transfer of mobilizable and non-mobilizable plasmids, as well as the transfer of host chromosomal loci. Naturally found in B. thuringiensis sv. israelensis, pXO16 transfers to various strains of Bacillus cereus sensu lato (s.l.) at a wide range of frequencies
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Plasmidome analysis of a hospital effluent biofilm: Status of antibiotic resistance Plasmid (IF 2.6) Pub Date : 2022-06-09 Claire Hennequin, Christiane Forestier, Ousmane Traore, Didier Debroas, Geneviève Bricheux
Plasmids are widely involved in the dissemination of characteristics within bacterial communities. Their genomic content can be assessed by high-throughput sequencing of the whole plasmid fraction of an environment, the plasmidome. In this study, we analyzed the plasmidome of a biofilm formed in the effluents of the teaching hospital of Clermont-Ferrand (France). Our analysis discovered >350 new complete
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Brick into the Gateway (BiG): A novel approach for faster cloning combining Golden Gate and Gateway methods Plasmid (IF 2.6) Pub Date : 2022-04-08 Letícia F. Ferigolo, Mateus H. Vicente, Fabio T.S. Nogueira
Gateway system is one of the most known cloning systems, which makes it compatible with several expression vectors, including those used for Yeast Two-Hybrid (Y2H) and Bimolecular Fluorescence Complementation (BiFC) assays. However, this system is laborious and expensive due to its two-step cloning. In this research, we developed a new cloning strategy named Brick into the Gateway (BiG). This approach
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Characterization of the Agrobacterium octopine-cucumopine catabolic plasmid pAtAg67 Plasmid (IF 2.6) Pub Date : 2022-04-02 Marjolein J.G. Hooykaas, Shuai Shao, Paul J.J. Hooykaas
In addition to tumor-inducing agrobacteria, non-pathogenic strains are often isolated from crown gall tumors. Such non-pathogenic strains sometimes contain catabolic plasmids that allow them to take advantage of the opines produced in the tumors. Here we characterize for the first time an octopine catabolic plasmid, pAtAg67, which is derived from an Agrobacterium strain isolated from a grapevine tumor
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Evolution of Acinetobacter baumannii plasmids carrying the oxa58 carbapenemase resistance gene via plasmid fusion, IS26-mediated events and dif module shuffling Plasmid (IF 2.6) Pub Date : 2022-03-12 Naomi I. Jones, Christopher J. Harmer, Mohammad Hamidian, Ruth M. Hall
Acinetobacter baumannii RepAci1-RepAci10 plasmids pA388 from a global clone 1 (GC1) isolate from Greece, and pACICU1 and variant pACICU1b from an Italian GC2 isolate were found to share a common ancestor. The ancestor formed via recombination between pdif sites in the widely-distributed RepAci1 plasmid pA1–1 and in a RepAci10 plasmid carrying the oxa58 carbapenem-resistance gene in a dif module. Each
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Estimating plasmid conjugation rates: A new computational tool and a critical comparison of methods Plasmid (IF 2.6) Pub Date : 2022-03-07 Jana S. Huisman, Fabienne Benz, Sarah J.N. Duxbury, J. Arjan G.M. de Visser, Alex R. Hall, Egil A.J. Fischer, Sebastian Bonhoeffer
Plasmids are important vectors for the spread of genes among diverse populations of bacteria. However, there is no standard method to determine the rate at which they spread horizontally via conjugation. Here, we compare commonly used methods on simulated and experimental data, and show that the resulting conjugation rate estimates often depend strongly on the time of measurement, the initial population
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Screening of CHO-K1 endogenous promoters for expressing recombinant proteins in mammalian cell cultures Plasmid (IF 2.6) Pub Date : 2022-02-05 Ileana Tossolini, Agustina Gugliotta, Fernando López Díaz, Ricardo Kratje, Claudio Prieto
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The fluorination effect on the transfection efficacy of cell penetrating peptide complexes Plasmid (IF 2.6) Pub Date : 2022-02-04 Abdulgader A. Baoum
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Complete sequence of classic F-type plasmid pRK100 shows unique conservation over time and geographic location Plasmid (IF 2.6) Pub Date : 2022-01-22 Marjanca Starčič-Erjavec, Karmen Jeseničnik, Lauren P. Elam, Andrej Kastrin, Luka Predojević, Tatyana A. Sysoeva
Plasmids exhibit great diversity of gene content and host ranges and are famous for quick adaptation to the genetic background of the bacterial host cell. In addition to observing ever evolving plasmids, some plasmids have conserved backbones: a stable core composition and arrangement of genes in addition to variable regions. There are a few reports of extremely conserved plasmids. Here we report the
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A role for the last C-terminal helix of the F plasmid segregating protein SopA in nucleoid binding and plasmid maintenance Plasmid (IF 2.6) Pub Date : 2022-01-15 Dipika Mishra, Anirudh Jakhmola, Ramanujam Srinivasan
The rapid emergence and spread of antibiotic resistance is a growing global burden. Antibiotic resistance is often associated with large single or low copy number plasmids, which rely upon cytoskeletal proteins for their stable maintenance. While the mechanism of plasmid partitioning has been well established for the R plasmids, the molecular details by which the F plasmid is maintained is only beginning
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Replication initiator proteins of Acinetobacter baumannii plasmids: An update note Plasmid (IF 2.6) Pub Date : 2021-12-22 Semiramis Castro-Jaimes, Gabriela Guerrero, Elena Bello-López, Miguel A. Cevallos
The bioinformatic analysis that we made of 492 Acinetobacter baumannii plasmid sequences identified 418 genes encoding Replication Initiator (Rep) proteins that fell into at least fourteen groups according to the protein domains that they contained. The most abundant group of Rep proteins contained a Rep_3 superfamily domain, followed by Rep proteins containing Replicase/PriCT_1 superfamily domains
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A single step three-strain in vivo Gateway reaction Plasmid (IF 2.6) Pub Date : 2021-11-18 Aaron Nicholas Gillman, Alexandra Helleux, Sören Abel
We developed a simplified, highly efficient Gateway reaction that recombines target DNA to expression (destination) plasmids in vivo and subsequently conjugates the final vector into a recipient strain, all in a single step. This recipient strain does not need to contain any selective marker and can be freely chosen as long as it is sensitive to ccdB counterselection and can be targeted by the RP4α
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Frequency and diversity of small plasmids in mesophilic Aeromonas isolates from fish, water and sediment Plasmid (IF 2.6) Pub Date : 2021-11-17 Daniel Pérez-García, Violeta Larios-Serrato, Rogelio Rojas-Rios, Jorge Erick Otero-Olarra, Itza Mendoza-Sanchez, Everardo Curiel-Quesada, Abigail Pérez-Valdespino
Plasmids are autonomous genetic elements ubiquitously present in bacteria. In addition to containing genetic determinants responsible for their replication and stability, some plasmids may carry genes that help bacteria adapt to different environments, while others without a known function are classified as cryptic. In this work we identified and characterized plasmids from a collection of mesophilic
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Sequence polarity between the promoter and the adjacent gene modulates promoter activity Plasmid (IF 2.6) Pub Date : 2021-09-06 Tam T. Tran, Trevor C. Charles
Promoter engineering has been employed as a strategy to enhance and optimize the production of bio-products. Availability of promoters with predictable activities is needed for downstream application. However, whether promoter activity remains the same in different gene contexts remains unknown. Six consecutive promoters that have previously been determined to have different activity levels were used
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An expression system of channelrhodopsin-2 driven by a minimal Arc/Arg3.1 promoter and Tet system was developed in human neuroblastoma cells Plasmid (IF 2.6) Pub Date : 2021-08-17 Akara Metasuk, Narisorn Kitiyanant, Banthit Chetsawang
Advances in neuroscience have relied on the development of techniques that examine neuronal cell activities. One major challenge involves the limitations in labeling and controlling neuronal activities relating to the cell's activation state. In this study, the modified human codon-optimized channelrhodopsin-2 photoreceptor hChR2(C128S) was integrated into function with inducible gene expression methods
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Simultaneous transformation of five vectors in Gluconobacter oxydans Plasmid (IF 2.6) Pub Date : 2021-07-10 Li Liu, Yue Chen, Shiqin Yu, Jian Chen, Jingwen Zhou
Gluconobacter oxydans is an obligate Gram-negative bacterium that belongs to the family Acetobacteraceae. It is one of the most frequently used microorganisms in industrial biotechnology to produce chemicals related to incomplete oxidation. However, the fine-tuning of G. oxydans is hampered by the lack of efficient genetic tools to enable sophisticated metabolic manipulations. Thus, a series of shuttle
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One-step construction of a food-grade expression system based on the URA3 gene in Kluyveromyces lactis Plasmid (IF 2.6) Pub Date : 2021-05-28 Zhicheng Liang, Mulan Deng, Zhi Zhang, Meirong Li, SuJin Zhou, ZhengGang Zhao, YunPing Mu, LiNa Wang, Chengyun Ning, Allan Zijian Zhao, Fanghong Li
Proteins from food-grade expression systems can be used in food products and medical applications. Herein, we describe a one-step method of constructing an expression vector in Kluyveromyces lactis by combining a URA3-deficient strain and a plasmid vector with no drug-resistant selection. Adjacent DNA elements of the vector were assembled in a targeted manner through a reaction with a special recombinase
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Interference of ISEcp1-blaCTX-M-1 with the shufflon rearrangement in IncI1 plasmids Plasmid (IF 2.6) Pub Date : 2021-05-06 Milan S. Stosic, Marianne Sunde, Solveig Sølverød Mo, Amar Anandrao Telke, Knut Rudi
IncI1 plasmids are known disseminators of the extended-spectrum cephalosporin resistance (ESC) gene blaCTX-M-1, among species of the Enterobacteriaceae family. In several IncI1 plasmids, this gene was found incorporated into the transposition unit, ISEcp1-blaCTX-M-1-orf477, interrupting a shufflon region, a hallmark of IncI1 conjugative plasmids. The shufflon diversifies pilV gene that encodes the
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An improved direct metamobilome approach increases the detection of larger-sized circular elements across kingdoms Plasmid (IF 2.6) Pub Date : 2021-04-17 Katrine Wacenius Skov Alanin, Tue Sparholt Jørgensen, Patrick Denis Browne, Bent Petersen, Leise Riber, Witold Kot, Lars Hestbjerg Hansen
Mobile genetic elements (MGEs) are instrumental in natural prokaryotic genome editing, permitting genome plasticity and allowing microbes to accumulate genetic diversity. MGEs serve as a vast communal gene pool and include DNA elements such as plasmids and bacteriophages (phages) among others. These mobile DNA elements represent a human health risk as they can introduce new traits, such as antibiotic
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Reciprocal relation between reporter gene transcription and translation efficiency in fission yeast Plasmid (IF 2.6) Pub Date : 2021-02-02 Suchita Srivastava, Satinderdeep Kaur, Hemant K. Verma, Suman Rani, Manisha Thakur, Swati Haldar, Jagmohan Singh
The fission yeast, Schizosaccharomyces pombe, is an excellent model for basic research but is not useful for commercial scale protein expression due to lack of strong expression vectors. Earlier, we showed that the lsd90 promoter elicited significantly greater GFP expression level than the adh1 and nmt1 promoters, albeit in different vector backbones. Here, we have systematically investigated the contribution
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Molecular characterization of two novel NDM-1-producing atypical enteroaggregative Escherichia coli isolates from patients Plasmid (IF 2.6) Pub Date : 2021-02-23 Pengcheng Du, Pei Zhang, Juan Wang, Ruichao Li, Séamus Fanning, Li Bai
To investigate NDM-1-producing atypical Enteroaggregative Escherichia coli (aEAEC) of sequence type 349 from hospitalized patients, the isolates 13ZX28 and 13ZX36 were subjected to antimicrobial susceptibility testing, conjugation and whole genome sequencing. Only one single nucleotide mutation was detected in chromosomes despite different plasmid profiles. Both isolates were positive for blaNDM-1
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Utilization of a tetracycline-inducible system for high-level expression of recombinant proteins in Francisella tularensis LVS Plasmid (IF 2.6) Pub Date : 2021-02-18 Valeria Sheshko, Marek Link, Igor Golovliov, Lucie Balonova, Jiri Stulik
Francisella tularensis is a Gram-negative intracellular pathogen causing tularemia. A number of its potential virulence factors have been identified, but their biology and functions are not precisely known. Understanding the biological and immunological functions of these proteins requires adequate genetic tools for homologous and heterologous expression of cloned genes, maintaining both original structure
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The extrachromosomal elements of the Naegleria genus: How little we know Plasmid (IF 2.6) Pub Date : 2021-02-20 B.T. Nguyen, N.M. Chapman, S. Tracy, K.M. Drescher
There are currently 47 characterized species in the Naegleria genus of free-living amoebae. Each amoeba has thousands of extrachromosomal elements that are closed circular structures comprised of a single ribosomal DNA (rDNA) copy and a large non-rDNA sequence. Despite the presence of putative open reading frames and introns, ribosomal RNA is the only established transcript. A single origin of DNA
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Genomic islands related to Salmonella genomic island 1; integrative mobilisable elements in trmE mobilised in trans by A/C plasmids Plasmid (IF 2.6) Pub Date : 2021-02-11 Claire de Curraize, Eliane Siebor, Catherine Neuwirth
Salmonella genomic island 1 (SGI1), an integrative mobilisable element (IME), was first reported 20 years ago, in the multidrug resistant Salmonella Typhimurium DT104 clone. Since this first report, many variants and relatives have been found in Salmonella enterica and Proteus mirabilis. Thanks to whole genome sequencing, more and more complete sequences of SGI1-related elements (SGI1-REs) have been
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Identification and characterization of a spreadable IncI1 plasmid harbouring a blaCTX-M-15 gene in an Italian human isolate of Salmonella serovar Napoli Plasmid (IF 2.6) Pub Date : 2021-02-11 Sara Petrin, Massimiliano Orsini, Eleonora Mastrorilli, Alessandra Longo, Debora Cozza, John E. Olsen, Antonia Ricci, Carmen Losasso, Lisa Barco
Salmonella enterica subsp. enterica serovar Napoli (S. Napoli) ranks among the top serovars causing human infections in Italy, although not common in other European countries. Isolates are generally pan-susceptible or resistant to aminoglycosides only, however data on antimicrobial resistance genes in strains of S. Napoli are limited. Recently an isolate encoding resistance to third generation cephalosporins