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https://www.readbyqxmd.com/read/29149421/kribbella-podocarpi-sp-nov-isolated-from-the-leaves-of-a-yellowwood-tree-podocarpus-latifolius
#1
Sarah M Curtis, Iulia Norton, Gareth J Everest, Paul R Meyers
An endophytic actinobacterial strain was isolated from a yellowwood tree growing on the slope of Devil's Peak, Cape Town, South Africa. Analysis of the 16S rRNA gene showed that the strain belongs to the genus Kribbella. Phylogenetic analyses using the 16S rRNA gene and multilocus sequence analysis using the concatenated gene sequences of the gyrB, rpoB, relA, recA and atpD genes showed that strain YPL1(T) is closely related to the type strains of Kribbella karoonensis and Kribbella shirazensis. DDH experiments showed that strain YPL1(T) is a distinct genomic species from its close phylogenetic relative, K...
November 17, 2017: Antonie Van Leeuwenhoek
https://www.readbyqxmd.com/read/29146260/a-novel-burkholderia-ambifaria-strain-able-to-degrade-the-mycotoxin-fusaric-acid-and-to-inhibit-fusarium-spp-growth
#2
Ester Simonetti, Irma N Roberts, Marcela S Montecchia, Flavio H Gutierrez-Boem, Federico M Gomez, Jimena A Ruiz
Fusaric acid (FA) is a fungal metabolite produced by several Fusarium species responsible for wilts and root rot diseases of a great variety of plants. Bacillus spp. and Pseudomonas spp. have been considered as promising biocontrol agents against phytopathogenic Fusarium spp., however it has been demonstrated that FA negatively affects growth and production of some antibiotics in these bacteria. Thus, the capability to degrade FA would be a desirable characteristic in bacterial biocontrol agents of Fusarium wilt...
January 2018: Microbiological Research
https://www.readbyqxmd.com/read/29143730/genetic-diversity-and-symbiotic-effectiveness-of-bradyrhizobium-strains-nodulating-selected-annual-grain-legumes-growing-in-ethiopia
#3
Tulu Degefu, Endalkachew Wolde-Meskel, Frank Rasche
Vigna unguiculata, Vigna radiata and Arachis hypogaea growing in Ethiopia are nodulated by a genetically diverse group of Bradyrhizobium strains. To determine the genetic identity and symbiotic effectiveness of these bacteria, a collection of 36 test strains originating from the root nodules of the three hosts was investigated using multilocus sequence analyses (MLSA) of core genes including 16S rRNA, recA, glnII, gyrB, atpD and dnaK. Sequence analysis of nodA and nifH genes along with tests for symbiotic effectiveness using δ(15)N analysis were also carried out...
November 16, 2017: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/29137652/characterization-of-streptococcus-pneumoniae-isolates-from-austrian-companion-animals-and-horses
#4
Maximilian Ginders, Michael Leschnik, Frank Künzel, Doris Kampner, Claudia Mikula, Georg Steindl, Inga Eichhorn, Andrea T Feßler, Stefan Schwarz, Joachim Spergser, Igor Loncaric
BACKGROUND: The aim of the present study was to investigate the genetic relatedness and the antimicrobial resistance profiles of a collection of Austrian Streptococcus pneumoniae isolates from companion animals and horses. A total of 12 non-repetitive isolates presumptively identified as S. pneumoniae were obtained during routinely diagnostic activities between March 2009 and January 2017. RESULTS: Isolates were confirmed as S. pneumoniae by bile solubility and optochin susceptibility testing, matrix-assisted laser desorption-ionization-time of flight (MALDI-TOF) mass spectrometry and sequence analysis of a part recA and the 16S rRNA genes...
November 14, 2017: Acta Veterinaria Scandinavica
https://www.readbyqxmd.com/read/29135920/environmental-burkholderia-cenocepacia-strain-enhances-fitness-by-serial-passages-during-long-term-chronic-airways-infection-in-mice
#5
Alessandra Bragonzi, Moira Paroni, Luisa Pirone, Ivan Coladarci, Fiorentina Ascenzioni, Annamaria Bevivino
Burkholderia cenocepacia is an important opportunistic pathogen in cystic fibrosis (CF) patients, and has also been isolated from natural environments. In previous work, we explored the virulence and pathogenic potential of environmental B. cenocepacia strains and demonstrated that they do not differ from clinical strains in some pathogenic traits. Here, we investigated the ability of the environmental B. cenocepacia Mex1 strain, isolated from the maize rhizosphere, to persist and increase its virulence after serial passages in a mouse model of chronic infection...
November 14, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29104981/mechanism-of-the-formation-of-the-reca-ssdna-nucleoprotein-filament-structure-a-coarse-grained-approach
#6
Goutam Mukherjee, Arumay Pal, Yaakov Levy
In prokaryotes, the RecA protein catalyzes the repair and strand exchange of double-stranded DNA. RecA binds to single-stranded DNA (ssDNA) and forms a presynaptic complex in which the protein polymerizes around the ssDNA to form a right-handed helical nucleoprotein filament structure. In the present work, the mechanism for the formation of the RecA-ssDNA filament structure is modeled using coarse-grained molecular dynamics simulations. Information from the X-ray structure was used to model the protein itself but not its interactions; the interactions between the protein and the ssDNA were modeled solely by electrostatic, aromatic, and repulsive energies...
November 6, 2017: Molecular BioSystems
https://www.readbyqxmd.com/read/29102065/molecular-phylogeny-of-bradyrhizobium-bacteria-isolated-from-root-nodules-of-tribe-genisteae-plants-growing-in-southeast-poland
#7
Michał Kalita, Wanda Małek
The phylogeny of 16 isolates from root nodules of Genista germanica, Genista tinctoria, Cytisus ratisbonensis, and Cytisus scoparius growing in southeast Poland was estimated by comparative sequence analysis of core (16S rDNA, atpD, glnII, recA) and symbiosis-related (nodC, nodZ, nifH) genes. All the sequences analyzed placed the studied rhizobia in the genus Bradyrhizobium. Phylogenetic analysis of individual and concatenated housekeeping genes showed that the Genisteae microsymbionts form a homogeneous group with Bradyrhizobium japonicum strains...
October 16, 2017: Systematic and Applied Microbiology
https://www.readbyqxmd.com/read/29101189/distribution-and-phylogeny-of-microsymbionts-associated-with-cowpea-vigna-unguiculata-nodulation-in-three-agro-ecological-regions-of-mozambique
#8
Ifeoma N Chidebe, Sanjay K Jaiswal, Felix D Dakora
Cowpea derives most of its N nutrition from biological nitrogen fixation (BNF) via symbiotic bacteroids in root nodules. In Sub-Saharan Africa, the diversity and biogeo-graphic distribution of bacterial microsymbionts nodulating cowpea and other indigenous legumes are not well understood, though needed for increased legume production. The aim of this study was to describe rhizobial distribution and their phylogenies at different agro-ecological regions of Mozambique using BOX-PCR, ITS-RFLP and sequence analysis of housekeeping genes...
November 3, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29100040/defects-in-recombination-activity-caused-by-somatic-and-germline-mutations-in-the-multimerization-brca2-binding-region-of-human-rad51-protein
#9
Michelle C Silva, Katie E Bryan, Milagros D Morrical, April M Averill, Julie Dragon, Adrian P Wiegmans, Scott W Morrical
The human RAD51 recombinase possesses DNA pairing and strand exchange activities that are essential for the error-free, homology-directed repair of DNA double-strand breaks. The recombination activities of RAD51 are activated upon its assembly into presynaptic filaments on single-stranded DNA at resected DSB ends. Defects in filament assembly caused by mutations in RAD51 or its regulators such as BRCA2 are associated with human cancer. Here we describe two novel RAD51 missense variants located in the multimerization/BRCA2 binding region of RAD51...
October 23, 2017: DNA Repair
https://www.readbyqxmd.com/read/29097773/stable-nuclei-of-nucleoprotein-filament-and-high-ssdna-binding-affinity-contribute-to-enhanced-reca-e38k-recombinase-activity
#10
Chih-Hao Lu, Ting-Tzu Chang, Chia-Chuan Cho, Hui-Cin Lin, Hung-Wen Li
RecA plays central roles in the homologous recombination to repair double-stranded DNA break damage in E. coli. A previously identified recA strain surviving high doses of UV radiation includes a dominant RecA E38K mutation. Using single-molecule experiments, we showed that the RecA E38K variant protein assembles nucleoprotein filaments more rapidly than the wild-type RecA. We also used a single-molecule fluorescence resonance energy transfer (smFRET) experiment to compare the nucleation cluster dynamics of wild-type RecA and RecA E38K mutants on various short ssDNA substrates...
November 2, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29095137/burkholderia-puraquae-sp-nov-a-novel-species-of-the-burkholderia-cepacia-complex-isolated-from-hospital-settings-and-agricultural-soils
#11
Pablo Martina, Mariana Leguizamon, Claudia I Prieto, Silvia A Sousa, Patricia Montanaro, Walter O Draghi, Maren Stämmler, Marisa Bettiol, Carla C C R de Carvalho, Juliana Palau, Cecilia Figoli, Florencia Alvarez, Silvina Benetti, Sergio Lejona, Cecilia Vescina, Julián Ferreras, Peter Lasch, Antonio Lagares, Angeles Zorreguieta, Jorge H Leitão, Osvaldo M Yantorno, Alejandra Bosch
Bacteria from the Burkholderia cepacia complex (Bcc) are capable of causing severe infections in patients with cystic fibrosis (CF). These opportunistic pathogens are also widely distributed in natural and man-made environments. After a 12-year epidemiological surveillance involving Bcc bacteria from respiratory secretions of Argentinean patients with CF and from hospital settings, we found six isolates of the Bcc with a concatenated species-specific allele sequence that differed by more than 3 % from those of the Bcc with validly published names...
November 2, 2017: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/29080074/bioconversion-of-%C3%AE-chitin-into-n-acetyl-glucosamine-using-chitinases-produced-by-marine-derived-aeromonas-caviae-isolates
#12
Flávio Augusto Cardozo, Juan Miguel Gonzalez, Valker Araujo Feitosa, Adalberto Pessoa, Irma Nelly Gutierrez Rivera
N-Acetyl-D-glucosamine (GlcNAc) is a monosaccharide with great application potential in the food, cosmetic, pharmaceutical, and biomaterial areas. GlcNAc is currently produced by chemical hydrolysis of chitin, but the current processes are environmentally unfriendly, have low yield and high cost. This study demonstrates the potential to produce GlcNAc from α-chitin using chitinases of ten marine-derived Aeromonas isolates as a sustainable alternative to the current chemical process. The isolates were characterized as Aeromonas caviae by multilocus sequence analysis (MLSA) using six housekeeping genes (gltA, groL, gyrB, metG, ppsA, and recA), not presented the virulence genes verified (alt, act, ast, ahh1, aer, aerA, hlyA, ascV and ascFG), but showed hemolytic activity on blood agar...
October 27, 2017: World Journal of Microbiology & Biotechnology
https://www.readbyqxmd.com/read/29072558/co-expression-and-purification-of-the-rada-recombinase-with-the-radb-paralog-from-haloferax-volcanii-yields-heteromeric-ring-like-structures
#13
Bushra B Patoli, Jody A Winter, Atif A Patoli, Robin M Delahay, Karen A Bunting
The study of archaeal proteins and the processes to which they contribute poses particular challenges due to the often extreme environments in which they function. DNA recombination, replication and repair proteins of the halophilic euryarchaeon, Haloferax volcanii (Hvo) are of particular interest as they tend to resemble eukaryotic counterparts in both structure and activity, and genetic tools are available to facilitate their analysis. In the present study, we show using bioinformatics approaches that the Hvo RecA-like protein RadA is structurally similar to other recombinases although is distinguished by a unique acidic insertion loop...
October 26, 2017: Microbiology
https://www.readbyqxmd.com/read/29070902/mycobacterium-smegmatis-pafbc-is-involved-in-regulation-of-dna-damage-response
#14
Begonia Fudrini Olivencia, Andreas U Müller, Bernd Roschitzki, Sibylle Burger, Eilika Weber-Ban, Frank Imkamp
Two genes, pafB and pafC, are organized in an operon with the Pup-ligase gene pafA, which is part of the Pup-proteasome system (PPS) present in mycobacteria and other actinobacteria. The PPS is crucial for Mycobacterium tuberculosis resistance towards reactive nitrogen intermediates (RNI). However, pafB and pafC apparently play only a minor role in RNI resistance. To characterize their function, we generated a pafBC deletion in Mycobacterium smegmatis (Msm). Proteome analysis of the mutant strain revealed decreased cellular levels of various proteins involved in DNA damage repair, including recombinase A (RecA)...
October 25, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29055510/prevalence-of-burkholderia-cepacia-complex-species-in-cystic-fibrosis-patients-in-argentina-during-the-period-2011-2015
#15
Lucía Cipolla, Florencia Rocca, Claudia Martinez, Lorena Aguerre, Rubén Barrios, Mónica Prieto
INTRODUCTION: Burkholderia cepacia (B. cepacia) complex is composed of 20 phylogenetically closely related bacterial species. Some species have emerged as opportunistic pathogens in immunocompromised patients and are responsible for nosocomial outbreaks. The B. cepacia complex is a recognized respiratory pathogen in patients with cystic fibrosis. Burkholderia cenocepacia and Burkholderia multivorans (B. multivorans) are the most prevalent species in the world, according to the literature...
October 18, 2017: Enfermedades Infecciosas y Microbiología Clínica
https://www.readbyqxmd.com/read/29046663/reclassification-of-paenibacillus-riograndensis-as-a-genomovar-of-paenibacillus-sonchi-genome-based-metrics-improve-bacterial-taxonomic-classification
#16
Fernando H Sant'Anna, Adriana Ambrosini, Rocheli de Souza, Gabriela de Carvalho Fernandes, Evelise Bach, Eduardo Balsanelli, Valter Baura, Luciana F Brito, Volker F Wendisch, Fábio de Oliveira Pedrosa, Emanuel M de Souza, Luciane M P Passaglia
Species from the genus Paenibacillus are widely studied due to their biotechnological relevance. Dozens of novel species descriptions of this genus were published in the last couple of years, but few utilized genomic data as classification criteria. Here, we demonstrate the importance of using genome-based metrics and phylogenetic analyses to identify and classify Paenibacillus strains. For this purpose, Paenibacillus riograndensis SBR5(T), Paenibacillus sonchi X19-5(T), and their close relatives were compared through phenotypic, genotypic, and genomic approaches...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29034855/bradyrhizobium-namibiense-sp-nov-a-symbiotic-nitrogen-fixing-bacterium-from-root-nodules-of-lablab-purpureus-hyacinth-bean-in-namibia
#17
Jann Lasse Grönemeyer, Wiebke Bünger, Barbara Reinhold-Hurek
Four strains of symbiotic bacteria from root nodules of hyacinth bean (Lablab purpureus (L.) Sweet) from Namibia were previously identified as a novel group within the genus Bradyrhizobium. To confirm their taxonomic status, these strains were further characterized by taking a polyphasic approach. The type strain possessed 16S rRNA gene sequences identical to Bradyrhizobium paxllaeri LMTR 21(T) and Bradyrhizobiumicense LMTR 13(T), the full-length sequences were identical to those retrieved from SAMN05230119 and SAMN05230120, respectively...
October 16, 2017: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/29034849/streptomyces-amphotericinicus-sp-nov-an-amphotericin-producing-actinomycete-isolated-from-the-head-of-an-ant-camponotus-japonicus-mayr
#18
Tingting Cao, Shan Mu, Chang Lu, Shanshan Zhao, Dongmei Li, Kai Yan, Wensheng Xiang, Chongxi Liu
A novel actinomycete, designated strain 1H-SSA8(T), was isolated from the head of an ant (Camponotus japonicus Mayr) and was found to produce amphotericin. A polyphasic approach was employed to determine the status of strain 1H-SSA8(T). Morphological and chemotaxonomic characteristics were consistent with those of members of the genus Streptomyces. The menaquinones detected were MK-9(H6), MK-9(H8) and MK-9(H4). The phospholipid profile consisted of diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine and phosphatidylinositol mannoside...
October 16, 2017: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/29033321/regulation-of-m-6-a-transcripts-by-the-3-%C3%A2-5-rna-helicase-ythdc2-is-essential-for-a-successful-meiotic-program-in-the-mammalian-germline
#19
Magdalena Natalia Wojtas, Radha Raman Pandey, Mateusz Mendel, David Homolka, Ravi Sachidanandam, Ramesh S Pillai
N(6)-methyladenosine (m(6)A) is an essential internal RNA modification that is critical for gene expression control in most organisms. Proteins with a YTH domain recognize m(6)A marks and are mediators of molecular functions like RNA splicing, mRNA decay, and translation control. Here we demonstrate that YTH domain-containing 2 (YTHDC2) is an m(6)A reader that is essential for male and female fertility in mice. High-throughput mapping of the m(6)A transcriptome and expression analysis in the Yhtdc2 mutant testes reveal an upregulation of m(6)A-enriched transcripts...
October 19, 2017: Molecular Cell
https://www.readbyqxmd.com/read/29032606/how-chi-sequence-modifies-recbcd-single-stranded-dna-translocase-activities
#20
Chia-Chuan Cho, Cinya Chung, Hung-Wen Li
E. coli RecBCD initiates homologous repair as well as degrades foreign DNA. Recognition of chi sequence (5'-GCTGGTGG-3') switches RecBCD from a destructive, nucleolytic mode into a repair-active one that promotes RecA-mediated recombination. It includes a 3'-to-5'ssDNA translocase in RecB subunit, a 5'-to-3' translocase in RecD, and a secondary translocase activity associated with RecBC. To understand how chi specifically affects each translocase activities, we directly visualized individual RecBCD translocating along DNA substrates containing a ssDNA gap of different polarities, with chi or not...
October 15, 2017: Chemphyschem: a European Journal of Chemical Physics and Physical Chemistry
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