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Horizontal DNA transfer

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https://www.readbyqxmd.com/read/28443072/distribution-of-integrons-and-phylogenetic-groups-among-enteropathogenic-escherichia-coli-isolates-from-children-5-years-of-age-in-delhi-india
#1
Taru Singh, Shukla Das, V G Ramachandran, Sayim Wani, Dheeraj Shah, Khan A Maroof, Aditi Sharma
Integrons by means of horizontal gene transfer carry multidrug resistance genes (MDR) among bacteria, including E. coli. The aim of this study was to determine the antibiotic resistance profiles and the genes associated with them, to gain insights in the distribution of phylogroups, prevalence, and characterization of class 1, 2 and 3 integrons among Enteropathogenic E. coli (EPEC) isolates, from children upto 5 years of age from Delhi and National Capital Region (NCR), India. A total of 120 E. coli isolates, including 80 from diarrheagenic E...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28441577/membrane-vesicles-and-horizontal-gene-transfer-in-prokaryotes
#2
REVIEW
Sara Domingues, Kaare M Nielsen
Membrane vesicles (MVs) are released from all living cells. MVs are lumen-containing spheres of lipid-bilayers derived from the cell surface. MVs are biologically active and contain various components, including genetic material. Both chromosomal and plasmid DNA, as well as different types of RNA have been detected in MVs. Vesicle-mediated transfer of genes coding for antibiotic resistance, virulence and metabolic traits has been reported in Gram-negative and Gram-positive bacteria and in Archaea. MVs can persist over time in natural environments...
April 22, 2017: Current Opinion in Microbiology
https://www.readbyqxmd.com/read/28426805/evidence-of-horizontal-gene-transfer-by-transposase-gene-analyses-in-fervidobacterium-species
#3
Alba Cuecas, Wirojne Kanoksilapatham, Juan M Gonzalez
Horizontal Gene Transfer (HGT) plays an important role in the physiology and evolution of microorganisms above all thermophilic prokaryotes. Some members of the Phylum Thermotogae (i.e., Thermotoga spp.) have been reported to present genomes constituted by a mosaic of genes from a variety of origins. This study presents a novel approach to search on the potential plasticity of Fervidobacterium genomes using putative transposase-encoding genes as the target of analysis. Transposases are key proteins involved in genomic DNA rearrangements...
2017: PloS One
https://www.readbyqxmd.com/read/28424528/elucidation-of-quantitative-structural-diversity-of-remarkable-rearrangement-regions-shufflons-in-inci2-plasmids
#4
Tsuyoshi Sekizuka, Michiko Kawanishi, Mamoru Ohnishi, Ayaka Shima, Kengo Kato, Akifumi Yamashita, Mari Matsui, Satowa Suzuki, Makoto Kuroda
A multiple DNA inversion system, the shufflon, exists in incompatibility (Inc) I1 and I2 plasmids. The shufflon generates variants of the PilV protein, a minor component of the thin pilus. The shufflon is one of the most difficult regions for de novo genome assembly because of its structural diversity even in an isolated bacterial clone. We determined complete genome sequences, including those of IncI2 plasmids carrying mcr-1, of three Escherichia coli strains using single-molecule, real-time (SMRT) sequencing and Illumina sequencing...
April 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28421059/phages-in-the-human-body
#5
REVIEW
Ferran Navarro, Maite Muniesa
Bacteriophages, viruses that infect bacteria, have re-emerged as powerful regulators of bacterial populations in natural ecosystems. Phages invade the human body, just as they do other natural environments, to such an extent that they are the most numerous group in the human virome. This was only revealed in recent metagenomic studies, despite the fact that the presence of phages in the human body was reported decades ago. The influence of the presence of phages in humans has yet to be evaluated; but as in marine environments, a clear role in the regulation of bacterial populations could be envisaged, that might have an impact on human health...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28416702/massive-horizontal-transfer-of-transposable-elements-in-insects
#6
Jean Peccoud, Vincent Loiseau, Richard Cordaux, Clément Gilbert
Horizontal transfer (HT) of genetic material is central to the architecture and evolution of prokaryote genomes. Within eukaryotes, the majority of HTs reported so far are transfers of transposable elements (TEs). These reports essentially come from studies focusing on specific lineages or types of TEs. Because of the lack of large-scale survey, the amount and impact of HT of TEs (HTT) in eukaryote evolution, as well as the trends and factors shaping these transfers, are poorly known. Here, we report a comprehensive analysis of HTT in 195 insect genomes, representing 123 genera and 13 of the 28 insect orders...
April 17, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28412903/phage-life-cycles-behind-bacterial-biodiversity
#7
Tomasz Olszak, Agnieszka Latka, Bartosz Roszniowski, Miguel Angel Valvano, Zuzanna Drulis-Kawa
Bacteriophages (phages or bacterial viruses) are the most abundant biological entities in our planet; their influence reaches far beyond the microorganisms they parasitize. Phages are present in every environment and shape up every bacterial population in both active and passive ways. They participate in the circulation of organic matter and drive the evolution of microorganisms by horizontal gene transfer at unprecedented scales. The mass flow of genetic information in the microbial world influences the biosphere and poses challenges for science and medicine...
April 13, 2017: Current Medicinal Chemistry
https://www.readbyqxmd.com/read/28411227/fate-and-persistence-of-a-pathogenic-ndm-1-positive-escherichia-coli-strain-in-anaerobic-and-aerobic-sludge-microcosms
#8
David Mantilla-Calderon, Pei-Ying Hong
The presence of emerging biological pollutants in treated wastewater effluents has gained attention due to increased interest in water reuse. To evaluate the effectiveness of the removal of such contaminants by the conventional wastewater treatment process, the fate and decay kinetics of NDM-1-positive Escherichia coli strain PI7 and its plasmid-encoded antibiotic resistance genes (ARGs) were assessed in microcosms of anaerobic and aerobic sludge. Results showed that E. coli PI7 decayed at a significantly slower rate under anaerobic conditions...
April 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28411218/the-conjugative-relaxase-trwc-promotes-integration-of-foreign-dna-in-the-human-genome
#9
Coral González-Prieto, Richard Gabriel, Christoph Dehio, Manfred Schmidt, Matxalen Llosa
Bacterial conjugation is a mechanism of horizontal DNA transfer. The relaxase TrwC of the conjugative plasmid R388 cleaves one strand of the transferred DNA at the oriT, covalently attaches to it and leads the ssDNA into the recipient cell. In addition, TrwC catalyzes site-specific integration of the transferred DNA into its target sequence present in the genome of the recipient bacterium. Here, we report the analysis of the efficiency and specificity of the integrase activity of TrwC in human cells, using the Type IV Secretion System of the human pathogen Bartonella henselae to introduce relaxase-DNA complexes...
April 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28390108/deciphering-conjugative-plasmid-permissiveness-dynamics-in-wastewater-microbiomes
#10
Samuel Jacquiod, Asker Brejnrod, Stefan M Morberg, Waleed Abu Al-Soud, Søren J Sørensen, Leise Riber
Wastewater treatment plants (WWTPs) are designed to robustly treat polluted water. They are characterized by ceaseless flows of organic, chemical and microbial matter, followed by treatment steps before environmental release. WWTPs are hotspots of horizontal gene transfer (HGT) between bacteria via conjugative plasmids, leading to dissemination of potentially hazardous genetic material such as antimicrobial resistance genes (AMRGs). While current focus is on the threat of AMRGs spreading and environmental maintenance, conjugative plasmid transfer dynamics within and between bacterial communities still remains largely uncharted...
April 8, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28383780/immunoglobulin-superfamily-members-encoded-by-viruses-and-their-multiple-roles-in-immune-evasion
#11
REVIEW
Domènec Farré, Pablo Martínez-Vicente, Pablo Engel, Ana Angulo
Pathogens have developed a plethora of strategies to undermine host immune defenses in order to guarantee their survival. For large DNA viruses, these immune evasion mechanisms frequently rely on the expression of genes acquired from host genomes. Horizontally transferred genes include members of the immunoglobulin superfamily (IgSF), whose products constitute the most diverse group of proteins of vertebrate genomes. Their promiscuous immunoglobulin domains, which comprise the building blocks of these molecules, are involved in a large variety of functions mediated by ligand-binding interactions...
April 6, 2017: European Journal of Immunology
https://www.readbyqxmd.com/read/28376755/reconstruction-of-the-evolution-of-microbial-defense-systems
#12
Pere Puigbò, Kira S Makarova, David M Kristensen, Yuri I Wolf, Eugene V Koonin
BACKGROUND: Evolution of bacterial and archaeal genomes is a highly dynamic process that involves intensive loss of genes as well as gene gain via horizontal transfer, with a lesser contribution from gene duplication. The rates of these processes can be estimated by comparing genomes that are linked by an evolutionary tree. These estimated rates of genome dynamics events substantially differ for different functional classes of genes. The genes involved in defense against viruses and other invading DNA are among those that are gained and lost at the highest rates...
April 4, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28371770/occurrence-of-antibiotic-resistance-genes-and-mobile-genetic-elements-in-enterococci-and-genomic-dna-during-anaerobic-digestion-of-pharmaceutical-waste-sludge-with-different-pretreatments
#13
Juan Tong, XueTing Lu, JunYa Zhang, Qianwen Sui, Rui Wang, Meixue Chen, Yuansong Wei
Pharmaceutical waste sludge harbors large amounts of antibiotic resistance genes (ARGs) and mobile genetic elements (MGEs), and it is necessary to study the reduction of ARGs and MGEs during sludge treatment. Therefore, the antibiotic resistance phenotypes and genotypes of enterococci, and the ARGs and MGEs in genomic DNA were investigated during anaerobic digestion (AD) with microwave (MW), thermal hydrolysis (TH) and ozone pretreatment. Results showed that sludge pretreatment increased the occurrence of the resistance phenotypes and genotypes of enterococci...
March 22, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28369623/the-hidden-life-of-integrative-and-conjugative-elements
#14
François Delavat, Ryo Miyazaki, Nicolas Carraro, Nicolas Pradervand, Jan Roelof van der Meer
Integrative and conjugative elements (ICEs) are widespread mobile DNA that transmit both vertically, in a host-integrated state, and horizontally, through excision and transfer to new recipients. Different families of ICEs have been discovered with more or less restricted host ranges, which operate by similar mechanisms but differ in regulatory networks, evolutionary origin and the types of variable genes they contribute to the host. Based on reviewing recent experimental data, we propose a general model of ICE life style that explains the transition between vertical and horizontal transmission as a result of a bistable decision in the ICE-host partnership...
March 25, 2017: FEMS Microbiology Reviews
https://www.readbyqxmd.com/read/28369562/resistance-gene-transfer-induction-of-transducing-phage-by-sub-inhibitory-concentrations-of-antimicrobials-is-not-correlated-to-induction-of-lytic-phage
#15
Kinga I Stanczak-Mrozek, Ken G Laing, Jodi A Lindsay
Objectives: Horizontal gene transfer of antimicrobial resistance (AMR) genes between clinical isolates via transduction is poorly understood. MRSA are opportunistic pathogens resistant to all classes of antimicrobial agents but currently no strains are fully drug resistant. AMR gene transfer between Staphylococcus aureus isolates is predominantly due to generalized transduction via endogenous bacteriophage, and recent studies have suggested transfer is elevated during host colonization...
March 20, 2017: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/28369538/structure-of-acid-deoxyribonuclease
#16
Armando Varela-Ramirez, Jan Abendroth, Adrian A Mejia, Isabelle Q Phan, Donald D Lorimer, Thomas E Edwards, Renato J Aguilera
Deoxyribonuclease II (DNase II) is also known as acid deoxyribonuclease because it has optimal activity at the low pH environment of lysosomes where it is typically found in higher eukaryotes. Interestingly, DNase II has also been identified in a few genera of bacteria and is believed to have arisen via horizontal transfer. Here, we demonstrate that recombinant Burkholderia thailandensis DNase II is highly active at low pH in the absence of divalent metal ions, similar to eukaryotic DNase II. The crystal structure of B...
March 29, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28348864/dna-uptake-sequences-in-neisseria-gonorrhoeae-as-intrinsic-transcriptional-terminators-and-markers-of-horizontal-gene-transfer
#17
Russell Spencer-Smith, Sabrina Roberts, Neesha Gurung, Lori A S Snyder
DNA uptake sequences are widespread throughout the Neisseria gonorrhoeae genome. These short, conserved sequences facilitate the exchange of endogenous DNA between members of the genus Neisseria. Often the DNA uptake sequences are present as inverted repeats that are able to form hairpin structures. It has been suggested previously that DNA uptake sequence inverted repeats present 3' of genes play a role in rho-independent termination and attenuation. However, there is conflicting experimental evidence to support this role...
August 2016: Microbial Genomics
https://www.readbyqxmd.com/read/28347342/identification-and-analysis-of-genomic-islands-in-burkholderia-cenocepacia-au-1054-with-emphasis-on-pathogenicity-islands
#18
Feng-Biao Guo, Lifeng Xiong, Kai-Yue Zhang, Chuan Dong, Fa-Zhan Zhang, Patrick C Y Woo
BACKGROUND: Genomic islands (GIs) are genomic regions that reveal evidence of horizontal DNA transfer. They can code for many functions and may augment a bacterium's adaptation to its host or environment. GIs have been identified in strain J2315 of Burkholderia cenocepacia, whereas in strain AU 1054 there has been no published works on such regions according to our text mining and keyword search in Medline. RESULTS: In this study, we identified 21 GIs in AU 1054 by combining two computational tools...
March 27, 2017: BMC Microbiology
https://www.readbyqxmd.com/read/28334919/antibiotics-trigger-initiation-of-sccmec-transfer-by-inducing-sos-responses
#19
Pilong Liu, Zhaowei Wu, Huping Xue, Xin Zhao
The rise of antimicrobial resistance limits therapeutic options for infections by methicillin-resistant staphylococci. The staphylococcal cassette chromosome mec (SCCmec) is a mobile genetic element as the only carrier of the methicillin-resistance determinants, the mecA or mecC gene. The use of antibiotics increases the spread of antibiotic resistance, but the mechanism by which antibiotics promote horizontal dissemination of SCCmec is largely unknown. In this study, we demonstrate that many antibiotics, including β-lactams, can induce the expression of ccrC1 and SCCmec excision from the bacterial chromosome...
April 20, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28333270/environmental-and-genetic-modulation-of-the-phenotypic-expression-of-antibiotic-resistance
#20
Diarmaid Hughes, Dan I Andersson
Antibiotic resistance can be acquired by mutation or horizontal transfer of a resistance gene, and generally an acquired mechanism results in a predictable increase in phenotypic resistance. However, recent findings suggest that the environment and/or the genetic context can modify the phenotypic expression of specific resistance genes/mutations. An important implication from these findings is that a given genotype does not always result in the expected phenotype. This dissociation of genotype and phenotype has important consequences for clinical bacteriology and for our ability to predict resistance phenotypes from genetics and DNA sequences...
March 8, 2017: FEMS Microbiology Reviews
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