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Cheng-Tai Huang, Kuan-Ting Hish, Chun-Neng Wang, Chi-Te Liu, Wen-Yuan Kao
In this study, the genetic diversity and identification of Bradyrhizobium symbionts of Crotalaria zanzibarica, the most widely-distributed invasive legume in Taiwan, and other sympatric legume species growing along riverbanks of Taiwan were evaluated for the first time. In total, 59 and 54 Bradyrhizobium isolates were obtained from C. zanzibarica and its coexisting legume species, respectively. Based on the multilocus sequence analysis (MLSA) of concatenated four housekeeping genes (dnaK-glnII-recA-rpoB gene sequences, 1901bp), the 113 isolates displayed 53 unique haplotypes and grouped into 21 clades...
May 7, 2018: Systematic and Applied Microbiology
Sara Zaidi, Amar Bouam, Amina Bessas, Djamila Hezil, Hicham Ghaoui, Khatima Ait-Oudhia, Michel Drancourt, Idir Bitam
BACKGROUND: Leptospirosis is an important worldwide zoonosis. This disease is caused by pathogenic species of the genus Leptospira which are maintained in the environment via chronic renal infection of carrier animals which can be asymptomatic excretors of the organisms in their urines and become a source of infection for humans and other hosts. The prevalence of animal leptospirosis in Algiers, Algeria, is unknown. METHODOLOGY/PRINCIPAL FINDINGS: Real-time PCR and standard PCR and sequencing were used to detect pathogenic Leptospira organisms in the urines of stray dogs and cats in Algiers...
2018: PloS One
Chih-Cheng Lai, Chi-Chung Chen, Ying-Chen Lu, Yin-Ching Chuang, Hung-Jen Tang
Background: The aim of this study was to investigate the genotypic differences between different sequence type MRSA isolates, especially focusing on silent rpoB 474 mutations and the relationship between such mutations and ciprofloxacin resistance. Methods: Seventy-nine MRSA isolates were obtained for antibiotic susceptibility tests and molecular study. Results: Among these isolates, we found that the MIC50 , MIC90 , and minimum inhibitory concentration (MIC) range of ciprofloxacin were much higher for the isolates without the rpoB 474 mutation than for isolates with the rpoB 474 mutation...
2018: Infection and Drug Resistance
Osama Sammra, Jörg Rau, Jörn Wickhorst, Mazen Alssahen, Abdulwahed Ahmed Hassan, Christoph Lämmler, Ellen Prenger-Berninghoff, Amir Abdulmawjood
The newly described type strains Arcanobacterium pinnipediorum DSM 28752T and Arcanobacterium wilhelmae DSM 102162T , initially isolated from an anal swab of a harbor seal (Sammra et al. Int J Syst Evol Microbiol 65:4539-4543, 2015) and the genital tract of a rhinoceros (Sammra et al. Int J Syst Evol Microbiol 67:2093-2097, 2017), could be further characterized by matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) and Fourier transform infrared (FT-IR) spectroscopy and by sequencing the genomic targets 16S-23S rDNA intergenic spacer region (ISR) and the genes rpoB, gap, and tuf...
May 13, 2018: Folia Microbiologica
Jessica Baleiro Okado, Juliana Sposto Avaca-Crusca, Alexandre Lima Oliveira, Andrei Nicoli Gebieluca Dabul, Ilana Lopes Baratella da Cunha Camargo
INTRODUCTION: Methicillin-resistant Staphylococcus aureus (MRSA) is a threat to clinical treatment. Besides high resistance, presence of heterogeneous vancomycin intermediate S. aureus (hVISA) and heterogeneous daptomycin non-susceptible S. aureus (hDNSSA) in the hospital environment are underestimated and associated with treatment failure. OBJECTIVES: To investigate a MRSA dissemination in a Brazilian hospital and to evaluate the efficacy of some treatment options in vitro...
May 9, 2018: Journal of Global Antimicrobial Resistance
Ewa M Furmanczyk, Michal A Kaminski, Leszek Lipinski, Andrzej Dziembowski, Adam Sobczak
Pseudomonas are known from their flexible degradation capabilities and their engagement in xenobiotic biotransformation and bioremediation in habitats like soil, active sludge, plant surfaces, and freshwater or marine environments. Here we present taxonomic characterization of three efficient sodium dodecyl sulfate degrading strains: AP3_10, AP3_20 and AP3_22T belonging to the genus Pseudomonas, recently isolated from peaty soil used in a biological wastewater treatment plant. Sequence analyses of 16S rRNA and housekeeping genes: gyrB, rpoD and rpoB showed that the three closely related isolates classify within the Pseudomonas jessenii subgroup...
April 11, 2018: Systematic and Applied Microbiology
A Müller, F Soto, M Sepúlveda, P Bittencourt, J L Benevenute, P Ikeda, R Z Machado, M R André
This study aimed to molecularly survey Bartonella in dogs from Chile. Quantitative real-time PCR (qPCR) for Bartonella spp. based on nuoG gene was performed in 139 blood samples taken from dogs belonging to rural localities of the Valdivia Province, Los Ríos region, southern Chile. nuoG qPCR-positive samples were submitted to conventional PCR assays for ftsZ, gltA, rpoB and nuoG genes and sequencing for speciation and phylogenetic analysis. Based upon qPCR results, Bartonella spp. occurrence in dogs was 4...
May 6, 2018: Epidemiology and Infection
Xiao-Yun Yu, Jing-Yu Zhai, Chen Wu, Chong-Ya Zhang, Jie-Ying Shi, Lin-Xian Ding, Min Wu
A Gram-stain-negative, aerobic, rod-shaped bacterial strain, designated ZYSR67-ZT , was isolated from a pharmaceutical wastewater sample collected from a chemical factory in Zhejiang, China. The strain was motile by a single polar flagellum and grew at 4-42 °C (optimum, 35 °C), pH 5.0-9.0 (optimum, 6.0) and 0-5.0% (w/v) NaCl (optimum, 2.0%). Based on multilocus sequence analysis using 16S rRNA, gyrB, rpoB and rpoD, the strain ZYSR67-ZT formed a distinct phylogenetic group in the genus Pseudomonas. The average nucleotide identity values between strain ZYSR67-ZT and the closely related 10 type strains of the Pseudomonas species were 75...
May 3, 2018: Current Microbiology
Lina Niu, Shoukui Hu, Shan Lu, Xin-He Lai, Jing Yang, Dong Jin, Langyu Rao, Gang Lu, Jianguo Xu
Two bacterial strains were individually isolated from Marmota himalayana respiratory tracts; the animals were from the Tibet-Qinghai Plateau, PR China. The isolates were Gram-stain-positive, catalase-negative, coccus-shaped, chain-forming organisms. Analysis of 16S rRNA gene sequences indicated that the type strain HTS25T shared 98.0, 97.4, 97.2 and 97.1 % similarity with Streptococcus cuniculi, Streptococcus acidominimus, Streptococcus marmotae and Streptococcus himalayensis respectively. Sequence analysis of the sodA and rpoB genes indicated that HTS25T was closely related to S...
May 2, 2018: International Journal of Systematic and Evolutionary Microbiology
Ebrahim Osdaghi, S Mohsen Taghavi, Silvia Calamai, Carola Biancalani, Matteo Cerboneschi, Stefania Tegli, Robert Harveson
A multi-phasic approach was used to decipher the phenotypic features, genetic diversity, and phylogenetic position of 46 Curtobacterium spp. strains isolated from dry beans and other annual crops in Iran and Spain. Pathogenicity tests, resistance to arsenic compounds, plasmid profiling and BOX-PCR were performed on the strains. Multilocus sequence analysis (MLSA) was also performed on five housekeeping genes (i.e. atpD, gyrB, ppk, recA, and rpoB) of all the strains, as well as five pathotype strains of the species...
May 1, 2018: Phytopathology
Myo T Zaw, Nor A Emran, Zaw Lin
BACKGROUND: Rifampicin (RIF) plays a pivotal role in the treatment of tuberculosis due to its bactericidal effects. Because the action of RIF is on rpoB gene encoding RNA polymerase β subunit, 95% of RIF resistant mutations are present in rpoB gene. The majority of the mutations in rpoB gene are found within an 81bp RIF-resistance determining region (RRDR). METHODOLOGY: Literatures on RIF resistant mutations published between 2010 and 2016 were thoroughly reviewed...
April 26, 2018: Journal of Infection and Public Health
Véronique Bernier Gosselin, Jessica Lovstad, Simon Dufour, Pamela R F Adkins, John R Middleton
The most common pathogens causing intramammary infections (IMI) in dairy goats are staphylococci. Gene sequencing has been the reference method for identification of staphylococcal species, but MALDI-TOF mass spectrometry could represent a rapid and cost-effective alternative method. The objectives were to evaluate the typeability and accuracy of partial gene sequencing and MALDI-TOF for identifying staphylococci isolated from caprine milk samples, and to evaluate the relationship between staphylococcal species IMI, milk somatic cell score (SCS), and milk yield (MY)...
April 25, 2018: Journal of Dairy Science
Nicholaus Peter Mnyambwa, Dong-Jin Kim, Esther Ngadaya, Jongsik Chun, Sung-Min Ha, Pammla Petrucka, Kennedy Kwasi Addo, Rudovick R Kazwala, Sayoki G Mfinanga
BACKGROUND: Mycobacterium yongonense is a recently described novel species belonging to Mycobacterium avium complex which is the most prevalent etiology of non-tuberculous mycobacteria associated with pulmonary infections, and posing tuberculosis diagnostic challenges in high-burden, resource-constrained settings. METHODS: We used whole genome shotgun sequencing and comparative microbial genomic analyses to characterize the isolate from a patient diagnosed with multi-drug resistant tuberculosis (MDR-TB) after relapse...
April 24, 2018: International Journal of Infectious Diseases: IJID
Zhuo-Li Zhao, Hong Ming, Wei-Li Ji, Thi-Nhan Khieu, Son Chu-Ky, Li-Jiao Cheng, Xiao-Lin Meng, Wen-Jun Li, Guo-Xing Nie
A Gram-stain-positive, aerobic, motile with peritrichous flagella, rod-shaped bacterium, designated CFH S0170T , was isolated from a soil sample collected from Catba island in Ha Long Bay, Hai Phong City, Vietnam. Comparison of the 16S rRNA gene sequences showed that strain CFH S0170T belonged to the genus Paenibacillus and showed closest relationship with Paenibacillus vulneris CCUG 53270T (98.1 % similarity). Phylogenetic analysis demonstrated that the novel candidate formed a coherent branch with P. vulneris CCUG 53270T and Paenibacillus yunnanensis YN2T ...
April 27, 2018: International Journal of Systematic and Evolutionary Microbiology
Zhangcheng Li, Fangjun Cheng, Shimei Lan, Jianhua Guo, Wei Liu, Xiaoyan Li, Zeli Luo, Manli Zhang, Juan Wu, Yang Shi
Fowl cholera caused by Pasteurella multocida has always been a disease of global importance for poultry production. The aim of this study was to obtain more information about the epidemiology of avian P. multocida infection in southwest China and the genetic characteristics of clinical isolates. P. multocida isolates were characterized by biochemical and molecular-biological methods. The distributions of the capsular serogroups, the phenotypic antimicrobial resistance profiles, lipopolysaccharide (LPS) genotyping and the presence of 19 virulence genes were investigated in 45 isolates of P...
April 25, 2018: Journal of Veterinary Medical Science
U Garza-Ramos, H Barrios-Camacho, S Moreno-Domínguez, J Toribio-Jiménez, D Jardón-Pineda, J Cuevas-Peña, A Sánchez-Pérez, J Duran-Bedolla, J Olguín-Rodriguez, A Román-Román
Klebsiella spp. isolates from community-acquired infections were characterized. A total of 39 Klebsiella spp. isolates were obtained from outpatients at four rural hospitals in Mexico (2013-2014). The biochemical tests identified all as being K. pneumoniae . The molecular multiplex-PCR test identified 36 (92.4%) K. pneumoniae isolates and one (2.5%) K. variicola isolate, and phylogenetic analysis of the rpoB gene identified two isolates (5.1%) belonging to K. quasipneumoniae subsp. quasipneumoniae and K...
May 2018: New Microbes and New Infections
Esperanza Martínez-Romero, Nadia Rodríguez-Medina, Marilu Beltrán-Rojel, Jesús Silva-Sánchez, Humberto Barrios-Camacho, Ernesto Pérez-Rueda, Ulises Garza-Ramos
OBJECTIVE: Due to the fact that K. variicola, K. quasipneumoniae and K. pneumoniae are closely related bacterial species, misclassification can occur due to mistakes either in normal biochemical tests or during submission to public databases. The objective of this work was to identify K. variicola and K. quasipneumoniae genomes misclassified in GenBank database. MATERIALS AND METHODS: Both rpoB phylogenies and average nucleotide identity (ANI) were used to identify a significant number of misclassified Klebsiella spp...
January 2018: Salud Pública de México
Masanori Saito, Noriko Shinozaki-Kuwahara, Osamu Tsudukibashi, Tomomi Hashizume-Takizawa, Ryoki Kobayashi, Tomoko Kurita-Ochiai
Strain SK-1T is a novel Gram stain-positive, pleomorphic, rod-shaped, non-spore forming, and non-motile organism, designated SK-1T , isolated from human gingival sulcus that produces acetic acid, propionic acid, lactic acid, and succinic acid as end products of glucose fermentation. Strain SK-1T had the closest relatedness to Pseudopropionibacterium (Propionibacterium) propionicum with sequence homologies of the 16S rRNA and RNA polymerase β subunit (rpoB) genes of 96.6% and 93.1%, respectively. The genomic DNA G + C content of the isolate was 61...
April 24, 2018: Microbiology and Immunology
O Zewdie, A Mihret, T Abebe, A Kebede, K Desta, A Worku, G Ameni
Multidrug-resistant tuberculosis (MDR-TB) has emerged as a major public health problem. Drug-resistance surveillance data show that 3.9% of new and 21% of previously treated TB cases were estimated to have had rifampicin/ multidrug-resistant tuberculosis (MDR/RR-TB) in 2015. This implies that the MDR-TB is increasing alarmingly. Hence, a better understanding of drug resistance mechanisms and genotypes associated with multidrug resistance in M. tuberculosis is crucial for improving diagnostic and therapeutic methods to treat individuals with MDR-TB...
January 2018: New Microbes and New Infections
Alejandra Miranda-Carrazco, Juan M Vigueras-Cortés, Lourdes Villa-Tanaca, César Hernández-Rodríguez
Mine tailings and wastewater generate man-made environments with several selective pressures, including the presence of heavy metals, arsenic and high cyanide concentrations, but severe nutritional limitations. Some oligotrophic and pioneer bacteria can colonise and grow in mine wastes containing a low concentration of organic matter and combined nitrogen sources. In this study, Pseudomonas mendocina P6115 was isolated from mine tailings in Durango, Mexico, and identified through a phylogenetic approach of 16S rRNA, gyrB, rpoB, and rpoD genes...
April 11, 2018: Archives of Microbiology
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