Read by QxMD icon Read


Habteab Habtom, Sandrine Demanèche, Lorna Dawson, Chen Azulay, Ofra Matan, Patrick Robe, Ron Gafny, Pascal Simonet, Edouard Jurkevitch, Zohar Pasternak
The ubiquity and transferability of soil makes it a resource for the forensic investigator, as it can provide a link between agents and scenes. However, the information contained in soils, such as chemical compounds, physical particles or biological entities, is seldom used in forensic investigations; due mainly to the associated costs, lack of available expertise, and the lack of soil databases. The microbial DNA in soil is relatively easy to access and analyse, having thus the potential to provide a powerful means for discriminating soil samples or linking them to a common origin...
October 6, 2016: Forensic Science International. Genetics
D Kušar, U Zajc, V Jenčič, M Ocepek, J Higgins, M Žolnir-Dovč, M Pate
Fish are commonly infected with non-tuberculous mycobacteria (NTM), which should be regarded as potential pathogens when handling aquarium fish and equipment. This study examined 107 aquarium fish from pet shops. Cultivation of the fish samples using different selective media was conducted for identification of NTM. Isolates were identified using the GenoType Mycobacterium common mycobacteria and additional species assays, sequencing of the 16S rRNA and rpoB genes, and real-time PCR assay for identification of Mycobacterium (M...
October 17, 2016: Journal of Fish Diseases
Stefanie P Glaeser, Swapnil Doijad, Muaz Hijazin, Trinad Chakraborty, Enevold Falsen, Val Hall, Peter Kämpfer
During the years 1994-2011 five strictly anaerobic, Gram-stain-positive, diphtheroid bacteria (strains CCUG 31793(T), CCUG 44221, CCUG 61255, CCUG 45114, and CCUG 44993) were isolated from different clinical samples in Sweden and the United Kingdom. Comparative analysis of 16S rRNA gene sequences showed that the five strains shared 99-100% 16S rRNA gene sequence similarity among each other and 98.3-98.6% sequence similarity to Varibaculum cambriense DSM 15806(T). Genomic fingerprint patterns generated with ERIC-, BOX-, and RAPD-PCR, and whole genome sequence (WGS) based comparison by in silico DNA-DNA hybridization (isDDH), average nucleotide identity (ANI) analysis and six housekeeping gene (atpA, rpoB, pgi, metG, gltA and gyrA) based multilocus sequence analysis (MLSA) showed that the strains could be differentiated from V...
September 20, 2016: Systematic and Applied Microbiology
Ado Van Assche, Sergio Álvarez-Pérez, Anna de Breij, Joseph De Brabanter, Kris A Willems, Lenie Dijkshoorn, Bart Lievens
A common belief is that the phylogeny of bacteria may reflect molecular functions and phenotypic characteristics, pointing towards phylogenetic conservatism of traits. Here, we tested this hypothesis for a large set of Acinetobacter strains. Members of the genus Acinetobacter are widespread in nature, demonstrate a high metabolic diversity and are resistant to several environmental stressors. Notably, some species are known to cause opportunistic human infections. A total of 133 strains belonging to 33 species with validly published names, two genomic species and species of an as-yet unknown taxonomic status were analyzed using the GENIII technology of Biolog, which allows high-throughput phenotyping...
October 12, 2016: Applied Microbiology and Biotechnology
Min-Seong Kyeon, Soo-Hyeong Son, Young-Hee Noh, Yong-Eon Kim, Hyok-In Lee, Jae-Soon Cha
In 2004, bacterial spot-causing xanthomonads (BSX) were reclassified into 4 species-Xanthomonas euvesicatoria, X. vesicatoria, X. perforans, and X. gardneri. Bacterial spot disease on pepper plant in Korea is known to be caused by both X. axonopodis pv. vesicatoria and X. vesicatoria. Here, we reidentified the pathogen causing bacterial spots on pepper plant based on the new classification. Accordingly, 72 pathogenic isolates were obtained from the lesions on pepper plants at 42 different locations. All isolates were negative for pectolytic activity...
October 2016: Plant Pathology Journal
María J Lorite, José David Flores-Félix, Álvaro Peix, Juan Sanjuán, Encarna Velázquez
In this study four Mesorhizobium strains isolated from Lotus corniculatus nodules in Granada (Spain) were characterized. Their 16S rRNA gene sequences were closely related to those of M. albiziae LMG 23507(T) and M. chacoense Pr5(T) showing 99.4 and 99.2% similarity values, respectively. The analysis of concatenated rpoB, recA, atpD and glnII genes showed they formed a cluster with internal similarities higher than 97%. The closest species also were M. albiziae LMG 23507(T) and M. chacoense Pr5(T) showing similarity values lower than 92% in rpoB, recA and glnII genes and lower than 96...
September 24, 2016: Systematic and Applied Microbiology
Camilo Beltrán-Alzate, Fernando López Díaz, Marcela Romero-Montoya, Rama Sakamuri, Wei Li, Miyako Kimura, Patrick Brennan, Nora Cardona-Castro
An active search for Mycobacterium leprae drug resistance was carried out, 243 multibacillary patients from endemic regions of Colombia were included from 2004 to 2013 in a surveillance program. This program was a World Health Organization initiative for drug resistance surveillance in leprosy, where Colombia is a sentinel country. M. leprae DNA from slit skin smear and/or skin biopsy samples was amplified and sequenced to identify mutations in the drug resistance determining region (DRDR) in rpoB, folP1, gyrA, and gyrB, the genes responsible for rifampicin, dapsone and ofloxacin drug-resistance, respectively...
October 2016: PLoS Neglected Tropical Diseases
Ivana Goic-Barisic, Jasna Hrenovic, Ana Kovacic, Martina Šeruga Musić
Six carbapenem-resistant isolates of Acinetobacter baumannii were recovered from untreated and treated municipal wastewater of the capital city of Zagreb, Croatia. Molecular identification of environmental isolates of A. baumannii was performed by amplification, sequencing, and phylogenetic analyses of rpoB gene. The presence of blaOXA genes encoding OXA-type carbapenemases (OXA-51-like, OXA-23, and OXA-40-like) was confirmed by multiplex PCR and sequencing. Phylogenetic analyses corroborated the affiliation of detected blaOXA genes to three different clusters and showed association of environmental OXAs with those described from clinical isolates...
October 2016: Microbial Drug Resistance: MDR: Mechanisms, Epidemiology, and Disease
Neha S Shah, S Y Grace Lin, Pennan M Barry, Yi-Ning Cheng, Gisela Schecter, Ed Desmond
Background.  Data from international settings suggest that isolates of Mycobacterium tuberculosis with rpoB mutations testing phenotypically susceptible to rifampin (RIF) may have clinical significance. We analyzed treatment outcomes of California patients with discordant molecular-phenotypic RIF results. Methods.  We included tuberculosis (TB) patients, during 2003-2013, whose specimens tested RIF susceptible phenotypically but had a rpoB mutation determined by pyrosequencing. Demographic data were abstracted from the California TB registry...
September 2016: Open Forum Infectious Diseases
Nicola Casali, Agnieszka Broda, Simon R Harris, Julian Parkhill, Timothy Brown, Francis Drobniewski
BACKGROUND: A large isoniazid-resistant tuberculosis outbreak centred on London, United Kingdom, has been ongoing since 1995. The aim of this study was to investigate the power and value of whole genome sequencing (WGS) to resolve the transmission network compared to current molecular strain typing approaches, including analysis of intra-host diversity within a specimen, across body sites, and over time, with identification of genetic factors underlying the epidemiological success of this cluster...
October 2016: PLoS Medicine
Lenka Radolfova-Krizova, Martina Maixnerova, Alexandr Nemec
A novel, taxonomically unique group of six strains of the genus Acinetobacter was discovered during an exploratory study on strains culturable from soil and water natural ecosystems in the Bohemian part of the Czech Republic. Based on the comparative analyses of the 16S rRNA gene, gyrB and rpoB sequences, these strains formed strongly supported and internally coherent clusters (intracluster identities of ≥99.9 %, ≥96.1 % and ≥97.3 %, respectively), which were clearly separated from all known Acinetobacter species (≤98...
September 26, 2016: International Journal of Systematic and Evolutionary Microbiology
Alexandr Nemec, Lenka Radolfova-Krizova
Two novel species names, Acinetobacter bohemicus and Acinetobacter pakistanensis, appeared on validation list no. 161 (January 2015) under priority numbers 26 and 28, respectively. As the published data suggested a high similarity of the organisms associated with these names, we aimed to define their taxonomic relationship. The study set included all strains used in the original nomenclatural proposals, i.e. 25 strains of A. bohemicus and one strain of A. pakistanensis. The average nucleotide identity values (ANIb = 95...
September 29, 2016: International Journal of Systematic and Evolutionary Microbiology
Roberta Lecis, Fabio Secci, Lucio Mandas, Marco Muzzeddu, Marco Pittau, Alberti Alberti
Mycoplasma spp. have been detected in birds of prey, but their prevalence in free living raptors and their significance to birds' health need further investigation. Molecular techniques have been increasingly used to identify mycoplasmas in various avian species, due to the fastidious nature of these pathogens hampering traditional bacteriologic tests. This study reports the identification of 23 novel mycoplasma sequences during the monitoring of 62 birds of prey on admission to wildlife centers in Sardinia, Italy...
September 2016: Journal of Zoo and Wildlife Medicine: Official Publication of the American Association of Zoo Veterinarians
Cheng-Tai Huang, Chi-Te Liu, Shiang-Jiuun Chen, Wen-Yuan Kao
Crotalaria zanzibarica is an exotic and widely distributed leguminous plant in Taiwan. The relationship between C. zanzibarica and its rhizobial symbionts has been suggested to contribute to its successful invasion. A rhizobial strain (designed as CzR2) isolated from the root nodules of C. zanzibarica and cultivated in standard YEM medium displayed pleomorphism, with cells ranging between 2 and 10 μm in length and some branching. In the present study, we identified this rhizobial strain, investigated the causes of pleomorphism, and examined the nodules formed...
September 29, 2016: Microbes and Environments
Parviz Mohajeri, Laya Yazdani, Abdolrazagh Hashemi Shahraki, Amirhoshang Alvandi, Sara Atashi, Abbas Farahani, Ali Almasi, Mansour Rezaei
BACKGROUND: Nontuberculous mycobacteria are habitants of environment, especially in aquatic systems. Some of them cause problems in immunodeficient patients. Over the last decade, 16S rRNA gene sequencing was established in 45 novel species of nontuberculous mycobacteria. Experiences revealed that this method underestimates the diversity, but does not distinguish between some of mycobacterium subsp. To recognize emerging rapidly growing mycobacteria and identify their subsp, rpoB gene sequencing has been developed...
September 26, 2016: Microbial Drug Resistance: MDR: Mechanisms, Epidemiology, and Disease
Cláudia Gomes, Sandra Martínez-Puchol, Lidia Ruiz-Roldán, Maria J Pons, Juana Del Valle Mendoza, Joaquim Ruiz
The objective was to develop and characterise in vitro Bartonella bacilliformis antibiotic resistant mutants. Three B. bacilliformis strains were plated 35 or 40 times with azithromycin, chloramphenicol, ciprofloxacin or rifampicin discs. Resistance-stability was assessed performing 5 serial passages without antibiotic pressure. MICs were determined with/without Phe-Arg-β-Napthylamide and artesunate. Target alterations were screened in the 23S rRNA, rplD, rplV, gyrA, gyrB, parC, parE and rpoB genes. Chloramphenicol and ciprofloxacin resistance were the most difficult and easiest (>37...
September 26, 2016: Scientific Reports
Zhongyang Sun, Jia Deng, Haizhen Wu, Qiyao Wang, Yuanxing Zhang
Edwardsiella tarda is a Gram-negative pathogenic bacterium in aquaculture which can cause hemorrhagic septicemia in fish. Many secreted proteins have been identified as virulent factors of E. tarda. While the virulent phenotype is based on the expression regulation of the virulent genes. It is important to understand the expression profile of the virulent genes. Quantitative RT-PCR is one of the preferred methods for determining different gene expressions. It is important to select the most stable gene as a reference in E...
September 23, 2016: Journal of Microbiology and Biotechnology
Mustapha Dahmani, Bernard Davoust, Frédéric Rousseau, Didier Raoult, Florence Fenollar, Oleg Mediannikov
Rhipicephalus bursa is one of 79 species of the genus Rhipicephalus in the family of Ixodidae. In this study, we investigated Anaplasmataceae bacteria associated with R. bursa collected after an epizootic outbreak of ovine anaplasmosis. 76 adult ticks, (60 male and 16 female ticks), were removed from sheep in two farms and all identified as R. bursa, all females were partially engorged. We found that 50% of the ticks were positive in the initial Anaplasmataceae qPCR screening. Bacterial species was identified by analyzing the sequences of amplicons of 23S rRNA, groEL and rpoB genes...
September 19, 2016: Ticks and Tick-borne Diseases
Emmanuel Andre, Léonie Goeminne, Andrea M Cabibbe, Patrick Beckert, Benoît Kabamba Mukadi, Vanessa Mathys, Sébastien Gagneux, Stefan Niemann, Jakko Van Ingen, Emmanuelle Cambau
The rpoB gene codes for the RNA polymerase β subunit, which is the target of rifampicin, an essential drug in the treatment of tuberculosis and other mycobacterial infections. This gene is present in all bacteria, but its length and nucleotide sequence vary between bacterial species, including mycobacteria Mutations in the rpoB gene alter the structure of this protein and cause drug resistance. To describe the resistance-associated mutations, the scientific and medical communities have been using since 1993, a numbering system based on the Escherichia coli sequence annotation...
September 21, 2016: Clinical Microbiology and Infection
Imen Zalila-Kolsi, Afif Ben Mahmoud, Hacina Ali, Sameh Sellami, Zina Nasfi, Slim Tounsi, Kaïs Jamoussi
Bacillus species are attractive due to their potential use in the biological control of fungal diseases. Bacillus amyloliquefaciens strain BLB369, Bacillus subtilis strain BLB277, and Paenibacillus polymyxa strain BLB267 were isolated and identified using biochemical and molecular (16S rDNA, gyrA, and rpoB) approaches. They could produce, respectively, (iturin and surfactin), (surfactin and fengycin), and (fusaricidin and polymyxin) exhibiting broad spectrum against several phytopathogenic fungi. In vivo examination of wheat seed germination, plant height, phenolic compounds, chlorophyll, and carotenoid contents proved the efficiency of the bacterial cells and the secreted antagonist activities to protect Tunisian durum wheat (Triticum turgidum L...
November 2016: Microbiological Research
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"