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https://www.readbyqxmd.com/read/28344191/transposition-of-insertion-sequence-is256bsu1-in-bacillus-subtilis-168-is-strictly-dependent-on-reca
#1
Motohiro Akashi, Shota Harada, Syunsuke Moki, Yuki Okouji, Kiwamu Takahashi, Shigeki Kada, Keigo Yamagami, Yasuhiko Sekine, Satoru Watanabe, Taku Chibazakura, Hirofumi Yoshikawa
We developed an insertion sequence transposition detection system called the "jumping cat assay" and applied it to the Bacillus subtilis chromosome using IS256Bsu1 derived from B. subtilis natto. The high frequency of transposition enabled us to explore host factors; combining the assay and genetic analyses revealed that recA is essential for the transposition of IS256Bsu1. Detailed analyses using various domain mutants of recA demonstrated that this essentiality is not related to the function of recA in homologous recombination...
March 24, 2017: Genes & Genetic Systems
https://www.readbyqxmd.com/read/28334919/antibiotics-trigger-initiation-of-sccmec-transfer-by-inducing-sos-responses
#2
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...
March 3, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28334155/genetic-diversity-of-symbiotic-paraburkholderia-species-isolated-from-nodules-of-mimosa-pudica-l-and-phaseolus-vulgaris-l-grown-in-soils-of-the-brazilian-atlantic-forest-mata-atl%C3%A3-ntica
#3
Rebeca Fuzinatto Dall Agnol, Caroline Bournaud, Sérgio Miana de Faria, Gilles Béna, Lionel Moulin, Mariangela Hungria
Some species of the genus Paraburkholderia that are able to nodulate and fix nitrogen in symbiosis with legumes are called β-rhizobia and represent a group of ecological and biotechnological importance. We used Mimosa pudica and Phaseolus vulgaris to trap 427 rhizobial isolates from rhizospheric soil of Mimoseae trees in the Brazilian Atlantic Forest. Eighty-four representative strains were selected according to the 16S rRNA haplotypes and taxonomically characterized using a concatenated 16S rRNA-recA phylogeny...
February 23, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28330987/architecture-and-mechanism-of-the-central-gear-in-an-ancient-molecular-timer
#4
REVIEW
Martin Egli
Molecular clocks are the product of natural selection in organisms from bacteria to human and their appearance early in evolution such as in the prokaryotic cyanobacterium Synechococcus elongatus suggests that these timers served a crucial role in genetic fitness. Thus, a clock allows cyanobacteria relying on photosynthesis and nitrogen fixation to temporally space the two processes and avoid exposure of nitrogenase carrying out fixation to high levels of oxygen produced during photosynthesis. Fascinating properties of molecular clocks are the long time constant, their precision and temperature compensation...
March 2017: Journal of the Royal Society, Interface
https://www.readbyqxmd.com/read/28320880/rna-mediated-cis-regulation-in-acinetobacter-baumannii-modulates-stress-induced-phenotypic-variation
#5
Carly Ching, Kevin Gozzi, Björn Heinemann, Yunrong Chai, Veronica G Godoy
In the nosocomial opportunistic pathogen Acinetobacter baumannii, RecA-dependent mutagenesis, which causes antibiotic resistance acquisition, is linked to the DNA damage response (DDR). Notably, unlike the Escherichia coli paradigm, recA and DDR gene expression in A. baumannii are bimodal. Namely, there is phenotypic variation upon DNA damage, which may provide a bet-hedging strategy for survival. Thus, understanding recA gene regulation is key to elucidate the yet unknown DDR regulation in A. baumannii Here, we identify a structured 5' Untranslated Region (5' UTR) in the recA transcript which serves as a cis-regulatory element...
March 20, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28315338/lymphatic-and-vascular-markers-in-an-optic-nerve-crush-model-in-rat
#6
A Trost, D Bruckner, A Kaser-Eichberger, K Motloch, B Bogner, C Runge, C Strohmaier, S Couillard-Despres, H A Reitsamer, F Schroedl
Only few tissues lack lymphatic supply, such as the CNS or the inner eye. However, if the scleral border is compromised due to trauma or tumor, lymphatics are detected in the eye. Since the situation in the optic nerve (ON), part of the CNS, is not clear, the aim of this study is to screen for the presence of lymphatic markers in the healthy and lesioned ON. Brown Norway rats received an unilateral optic nerve crush (ONC) with defined force, leaving the dura intact. Lesioned ONs and unlesioned contralateral controls were analyzed 7 days (n = 5) and 14 days (n = 5) after ONC, with the following markers: PDGFRb (pericyte), Iba1 (microglia), CD68 (macrophages), RECA (endothelial cell), GFAP (astrocyte) as well as LYVE-1 and podoplanin (PDPN; lymphatic markers)...
March 14, 2017: Experimental Eye Research
https://www.readbyqxmd.com/read/28298904/rna-primer-extension-hinders-dna-synthesis-by-escherichia-coli-mutagenic-dna-polymerase-iv
#7
Tommy F Tashjian, Ida Lin, Verena Belt, Tiziana M Cafarelli, Veronica G Godoy
In Escherichia coli the highly conserved DNA damage regulated dinB gene encodes DNA Polymerase IV (DinB), an error prone specialized DNA polymerase with a central role in stress-induced mutagenesis. Since DinB is the DNA polymerase with the highest intracellular concentrations upon induction of the SOS response, further regulation must exist to maintain genomic stability. Remarkably, we find that DinB DNA synthesis is inherently poor when using an RNA primer compared to a DNA primer, while high fidelity DNA polymerases are known to have no primer preference...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28297645/on-the-mechanism-of-homology-search-by-reca-protein-filaments
#8
Maria P Kochugaeva, Alexey A Shvets, Anatoly B Kolomeisky
Genetic stability is a key factor in maintaining, survival, and reproduction of biological cells. It relies on many processes, but one of the most important is a homologous recombination, in which the repair of breaks in double-stranded DNA molecules is taking place with a help of several specific proteins. In bacteria, this task is accomplished by RecA proteins that are active as nucleoprotein filaments formed on single-stranded segments of DNA. A critical step in the homologous recombination is a search for a corresponding homologous region on DNA, which is called a homology search...
March 14, 2017: Biophysical Journal
https://www.readbyqxmd.com/read/28294553/nitric-oxide-enhanced-shiga-toxin-production-was-regulated-by-fur-and-reca-in-enterohemorrhagic-escherichia-coli-o157
#9
Kimitoshi Ichimura, Takeshi Shimizu, Akio Matsumoto, Shinichiro Hirai, Eiji Yokoyama, Hiroki Takeuchi, Kinnosuke Yahiro, Masatoshi Noda
Enterohemorrhagic Escherichia coli (EHEC) produces Shiga toxin 1 (Stx1) and Shiga toxin 2 (Stx2). Nitric oxide (NO), which acts as an antimicrobial defense molecule, was found to enhance the production of Stx1 and Stx2 in EHEC under anaerobic conditions. Although EHEC O157 has two types of anaerobic NO reductase genes, an intact norV and a deleted norV, in the deleted norV-type EHEC, a high concentration of NO (12-29 μmol/L, maximum steady-state concentration) is required for enhanced Stx1 production and a low concentration of NO (~12 μmol/L, maximum steady-state concentration) is sufficient for enhanced Stx2 production under anaerobic conditions...
March 15, 2017: MicrobiologyOpen
https://www.readbyqxmd.com/read/28285864/e-coli-reca-gene-improves-gene-targeted-homologous-recombination-in-mycoplasma-hyorhinis
#10
Hassan Z A Ishag, Qiyan Xiong, Maojun Liu, Zhixin Feng, Guoqing Shao
Mycoplasma hyorhinis is an opportunistic pathogen of pigs. Recently, it has been shown to transform cell cultures, increasing the attention of the researchers. Studies on the pathogenesis require specific genetic tool that is not yet available for the pathogen. To address this limitation, we constructed two suicide plasmids pGEMT-tetM/LR and pGEMT-recA-tetM/LR having a tetracycline resistance marker flanked by two hemolysin gene arms. The latter plasmid encodes an E. coli recA, a gene involved in DNA recombination, repair and maintenance of DNA...
March 8, 2017: Journal of Microbiological Methods
https://www.readbyqxmd.com/read/28262707/management-of-e-coli-sister-chromatid-cohesion-in-response-to-genotoxic-stress
#11
Elise Vickridge, Charlene Planchenault, Charlotte Cockram, Isabel Garcia Junceda, Olivier Espéli
Aberrant DNA replication is a major source of the mutations and chromosomal rearrangements associated with pathological disorders. In bacteria, several different DNA lesions are repaired by homologous recombination, a process that involves sister chromatid pairing. Previous work in Escherichia coli has demonstrated that sister chromatid interactions (SCIs) mediated by topological links termed precatenanes, are controlled by topoisomerase IV. In the present work, we demonstrate that during the repair of mitomycin C-induced lesions, topological links are rapidly substituted by an SOS-induced sister chromatid cohesion process involving the RecN protein...
March 6, 2017: Nature Communications
https://www.readbyqxmd.com/read/28238534/structural-insights-into-a-unique-dimeric-dead-box-helicase-csha-that-promotes-rna-decay
#12
Jennifer Huen, Chia-Liang Lin, Bagher Golzarroshan, Wan-Li Yi, Wei-Zen Yang, Hanna S Yuan
CshA is a dimeric DEAD-box helicase that cooperates with ribonucleases for mRNA turnover. The molecular mechanism for how a dimeric DEAD-box helicase aids in RNA decay remains unknown. Here, we report the crystal structure and small-angle X-ray scattering solution structure of the CshA from Geobacillus stearothermophilus. In contrast to typical monomeric DEAD-box helicases, CshA is exclusively a dimeric protein with the RecA-like domains of each protomer forming a V-shaped structure. We show that the C-terminal domains protruding outward from the tip of the V-shaped structure is critical for mediating strong RNA binding and is crucial for efficient RNA-dependent ATP hydrolysis...
March 7, 2017: Structure
https://www.readbyqxmd.com/read/28238475/mesorhizobium-delmotii-and-mesorhizobium-prunaredense-are-two-new-species-containing-rhizobial-strains-within-the-symbiovar-anthyllidis
#13
Roba Mohamad, Anne Willems, Antoine Le Quéré, Géraldine Maynaud, Marjorie Pervent, Maurine Bonabaud, Emeric Dubois, Jean-Claude Cleyet-Marel, Brigitte Brunel
Eight mesorhizobial symbiotic strains isolated from Anthyllis vulneraria root-nodules were studied and compared taxonomically with defined Mesorhizobium species. All strains presented identical 16S rDNA sequences but can be differentiated by multilocus sequence analysis of housekeeping genes (recA, atpD, glnII and dnaK). Matrix-assisted laser desorption ionization-time-of-flight mass spectrometry analyses separate these strains in two groups and a separate strain. Levels of DNA-DNA relatedness were less than 55% between representative strains and their closest Mesorhizobium reference relatives...
February 12, 2017: Systematic and Applied Microbiology
https://www.readbyqxmd.com/read/28231272/vibrio-japonicus-sp-nov-a-novel-member-of-the-nereis-clade-in-the-genus-vibrio-isolated-from-the-coast-of-japan
#14
Hiroyasu Doi, Ikuko Osawa, Hayamitsu Adachi, Manabu Kawada
A novel Vibrio strain, JCM 31412T, was isolated from seawater collected from the Inland Sea (Setonaikai), Japan, and characterized as a Gram-negative, oxidase-positive, catalase-negative, facultatively anaerobic, motile, ovoid-shaped bacterium with one polar flagellum. Based on 16S rDNA gene identity, strain JCM 31412T showed a close relationship with type strains of Vibrio brasiliensis (LMG 20546T, 98.2% identity), V. harveyi (NBRC 15634T, 98.2%), V. caribbeanicus (ATCC BAA-2122T, 97.8%) and V. proteolyticus (NBRC 13287T, 97...
2017: PloS One
https://www.readbyqxmd.com/read/28229214/diversity-of-lactic-acid-bacteria-associated-with-banana-fruits-in-taiwan
#15
Yi-Sheng Chen, Yu-Jou Liao, Yi-Shan Lan, Hui-Chung Wu, Fujitoshi Yanagida
Banana is a popular fruit worldwide. The lactic acid bacteria (LAB) microflora in banana fruits has not been studied in detail. A total of 164 LAB were isolated from banana fruits in Taiwan. These isolates were initially divided into nine groups (r1 to r9) using restriction fragment length polymorphism analysis and 16S ribosomal DNA sequencing. Isolates belonging to Lactobacillus plantarum group were further divided into three additional groups using multiplex PCR assay targeting the recA gene. The most common bacterial genera found in banana fruits were Lactobacillus and Weissella...
April 2017: Current Microbiology
https://www.readbyqxmd.com/read/28222005/a-modular-low-complexity-ecg-delineation-algorithm-for-real-time-embedded-systems
#16
Jose Manuel Bote, Joaquin Recas, Francisco Rincon, David Atienza, Roman Hermida
This work presents a new modular and lowcomplexity algorithm for the delineation of the different ECG waves (QRS, P and T peaks, onsets and end). Involving a reduced number of operations per second and having a small memory footprint, this algorithm is intended to perform realtime delineation on resource-constrained embedded systems. The modular design allows the algorithm to automatically adjust the delineation quality in run time to a wide range of modes and sampling rates, from a Ultra-low power mode when no arrhythmia is detected, in which the ECG is sampled at low frequency, to a complete High-accuracy delineation mode in which the ECG is sampled at high frequency and all the ECG fiducial points are detected, in case of arrhythmia...
February 17, 2017: IEEE Journal of Biomedical and Health Informatics
https://www.readbyqxmd.com/read/28220509/a-novel-symbiovar-aegeanense-of-the-genus-ensifer-nodulates-vigna-unguiculata
#17
Anastasia P Tampakaki, Christos T Fotiadis, Georgia Ntatsi, Dimitrios Savvas
BACKGROUND: Cowpea (Vigna unguiculata) forms nitrogen-fixing root nodules with diverse symbiotic bacteria, mainly slow-growing rhizobial species belonging to the genus Bradyrhizobium, although few studies have reported the isolation of fast-growing rhizobia under laboratory and field conditions. Despite that much research has been done on cowpea-nodulating bacteria in various countries around the world, very limited information is available on cowpea rhizobia in European soils. The aim of this study was to study the genetic and phenotypic diversity of indigenous cowpea-nodulating rhizobia in Greece...
February 21, 2017: Journal of the Science of Food and Agriculture
https://www.readbyqxmd.com/read/28214058/phylogenetic-multilocus-sequence-analysis-of-indigenous-slow-growing-rhizobia-nodulating-cowpea-vigna-unguiculata-l-in-greece
#18
Anastasia P Tampakaki, Christos T Fotiadis, Georgia Ntatsi, Dimitrios Savvas
Cowpea (Vigna unguiculata) is a promiscuous grain legume, capable of establishing efficient symbiosis with diverse symbiotic bacteria, mainly slow-growing rhizobial species belonging to the genus Bradyrhizobium. Although much research has been done on cowpea-nodulating bacteria in various countries around the world, little is known about the genetic and symbiotic diversity of indigenous cowpea rhizobia in European soils. In the present study, the genetic and symbiotic diversity of indigenous rhizobia isolated from field-grown cowpea nodules in three geographically different Greek regions were studied...
February 2, 2017: Systematic and Applied Microbiology
https://www.readbyqxmd.com/read/28209394/ensifer-shofinae-sp-nov-a-novel-rhizobial-species-isolated-from-root-nodules-of-soybean-glycine-max
#19
Wen Hao Chen, Sheng Hui Yang, Zhao Hu Li, Xiao Xia Zhang, Xin Hua Sui, En Tao Wang, Wen Xin Chen, Wen Feng Chen
Two bacterial strains isolated from root nodules of soybean were characterized phylogenetically as members of a distinct group in the genus Ensifer based on 16S rRNA gene comparisons. They were also verified as a separated group by the concatenated sequence analyses of recA, atpD and glnII (with similarities ≤93.9% to the type strains for defined species), and by the average nucleotide identities (ANI) between the whole genome sequence of the representative strain CCBAU 251167(T) and those of the closely related strains in Ensifer glycinis and Ensifer fredii (90...
February 2, 2017: Systematic and Applied Microbiology
https://www.readbyqxmd.com/read/28204854/adsorption-of-dna-binding-proteins-to-functionalized-carbon-nanotube-surfaces-with-and-without-dna-wrapping
#20
Yu Ishibashi, Shusuke Oura, Kazuo Umemura
We examined the adsorption of DNA binding proteins on functionalized, single-walled carbon nanotubes (SWNTs). When SWNTs were functionalized with polyethylene glycol (PEG-SWNT), moderate adsorption of protein molecules was observed. In contrast, nanotubes functionalized with CONH2 groups (CONH2-SWNT) exhibited very strong interactions between the CONH2-SWNT and DNA binding proteins. Instead, when these SWNT surfaces were wrapped with DNA molecules (thymine 30-mers), protein binding was a little decreased. Our results revealed that DNA wrapped PEG-SWNT was one of the most promising candidates to realize DNA nanodevices involving protein reactions on DNA-SWNT surfaces...
February 15, 2017: European Biophysics Journal: EBJ
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