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https://www.readbyqxmd.com/read/28931059/whole-genome-sequencing-of-mutants-with-increased-resistance-against-the-two-peptide-bacteriocin-plantaricin-jk-reveals-a-putative-receptor-and-potential-docking-site
#1
Bie Ekblad, Jon Nissen-Meyer, Tom Kristensen
By whole-genome sequencing of resistant mutants, a putative receptor for plantaricin JK, a two-peptide bacteriocin produced by some Lactobacillus plantarum strains, was identified in Lactobacillus plantarum NCFB 965 and Weissella viridescens NCFB 1655. The receptors of the two species had 66% identical amino acid sequences and belong to the amino acid-polyamine-organocation (APC) transporter protein family. The resistant mutants contained point mutations in the protein-encoding gene resulting in either premature stop codons, leading to truncated versions of the protein, or single amino acid substitutions...
2017: PloS One
https://www.readbyqxmd.com/read/28931025/the-clinical-and-microbiological-characteristics-of-enteric-fever-in-cambodia-2008-2015
#2
Laura M F Kuijpers, Thong Phe, Chhun H Veng, Kruy Lim, Sovann Ieng, Chun Kham, Nizar Fawal, Laetitia Fabre, Simon Le Hello, Erika Vlieghe, François-Xavier Weill, Jan Jacobs, Willy E Peetermans
BACKGROUND: Enteric fever remains a major public health problem in low resource settings and antibiotic resistance is increasing. In Asia, an increasing proportion of infections is caused by Salmonella enterica serovar Paratyphi A, which for a long time was assumed to cause a milder clinical syndrome compared to Salmonella enterica serovar Typhi. METHODOLOGY: A retrospective chart review study was conducted of 254 unique cases of blood culture confirmed enteric fever who presented at a referral adult hospital in Phnom Penh, Cambodia between 2008 and 2015...
September 20, 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28930017/carbapenemase-vcc-1-producing-vibrio-cholerae-in-coastal-waters-of-germany
#3
Jens A Hammerl, Claudia Jäckel, Valeria Bortolaia, Keike Schwartz, Nadja Bier, Rene S Hendriksen, Beatriz Guerra, Eckhard Strauch
During antimicrobial drug resistance testing for Vibrio spp. from coastal waters of Germany, we identified 4 nontoxigenic, carbapenem-resistant V. cholerae isolates. We used whole-genome sequencing to identify the carbapenemase gene blaVCC-1. In addition, a molecular survey showed that more blaVCC-1-harboring isolates are present in coastal waters of Germany.
October 2017: Emerging Infectious Diseases
https://www.readbyqxmd.com/read/28928212/population-and-whole-genome-sequence-based-characterization-of-invasive-group-a-streptococci-recovered-in-the-united-states-during-2015
#4
Sopio Chochua, Ben J Metcalf, Zhongya Li, Joy Rivers, Saundra Mathis, Delois Jackson, Robert E Gertz, Velusamy Srinivasan, Ruth Lynfield, Chris Van Beneden, Lesley McGee, Bernard Beall
Group A streptococci (GAS) are genetically diverse. Determination of strain features can reveal associations with disease and resistance and assist in vaccine formulation. We employed whole-genome sequence (WGS)-based characterization of 1,454 invasive GAS isolates recovered in 2015 by Active Bacterial Core Surveillance and performed conventional antimicrobial susceptibility testing. Predictions were made for genotype, GAS carbohydrate, antimicrobial resistance, surface proteins (M family, fibronectin binding, T, R28), secreted virulence proteins (Sda1, Sic, exotoxins), hyaluronate capsule, and an upregulated nga operon (encodes NADase and streptolysin O) promoter (Pnga3)...
September 19, 2017: MBio
https://www.readbyqxmd.com/read/28926571/whole-genome-sequencing-illuminates-the-evolution-and-spread-of-multidrug-resistant-tuberculosis-in-southwest-nigeria
#5
Madikay Senghore, Jacob Otu, Adam Witney, Florian Gehre, Emma L Doughty, Gemma L Kay, Phillip Butcher, Kayode Salako, Aderemi Kehinde, Nneka Onyejepu, Emmanuel Idigbe, Tumani Corrah, Bouke de Jong, Mark J Pallen, Martin Antonio
Nigeria has an emerging problem with multidrug-resistant tuberculosis (MDR-TB). Whole-genome sequencing was used to understand the epidemiology of tuberculosis and genetics of multi-drug resistance among patients from two tertiary referral centers in Southwest Nigeria. In line with previous molecular epidemiology studies, most isolates of Mycobacterium tuberculosis from this dataset belonged to the Cameroon clade within the Euro-American lineage. Phylogenetic analysis showed this clade was undergoing clonal expansion in this region, and suggests that it was involved in community transmission of sensitive and multidrug-resistant tuberculosis...
2017: PloS One
https://www.readbyqxmd.com/read/28925528/relatedness-of-wildlife-and-livestock-avian-isolates-of-the-nosocomial-pathogen-acinetobacter-baumannii-to-lineages-spread-in-hospitals-worldwide
#6
Gottfried Wilharm, Evelyn Skiebe, Paul G Higgins, Marie T Poppel, Ulrike Blaschke, Sarah Leser, Christine Heider, Magdalena Heindorf, Paul Brauner, Udo Jäckel, Karin Böhland, Christiane Cuny, Andżelina Łopińska, Piotr Kaminski, Mariusz Kasprzak, Marcin Bochenski, Olaf Ciebiera, Marcin Tobółka, Katarzyna M Żołnierowicz, Joachim Siekiera, Harald Seifert, Stéphanie Gagné, Suzana P Salcedo, Michael Kaatz, Franziska Layer, Jennifer K Bender, Stephan Fuchs, Torsten Semmler, Yvonne Pfeifer, Leszek Jerzak
The natural habitats and potential reservoirs of the nosocomial pathogen Acinetobacter baumannii are poorly defined. Here, we put forth and tested the hypothesis of avian reservoirs of A. baumannii. We screened tracheal and rectal swab samples from livestock (chicken, geese) and wild birds (white stork nestlings) and isolated A. baumannii from 3% of sampled chicken (n=220), 8% of geese (n=40) and 25% of white stork nestlings (n=661). Virulence of selected avian A. baumannii isolates was comparable to that of clinical isolates in the Galleria mellonella infection model...
September 19, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28922838/comparative-genomics-of-a-drug-resistant-pseudomonas-aeruginosa-panel-and-the-challenges-of-antimicrobial-resistance-prediction-from-genomes
#7
J Jeukens, I Kukavica-Ibrulj, J G Emond-Rheault, L Freschi, R C Levesque
Antimicrobial resistance (AMR) is now recognized as a global threat to human health. The accessibility of microbial whole-genome sequencing offers an invaluable opportunity for resistance surveillance via the resistome, i.e. the genes and mutations underlying AMR. Unfortunately, AMR prediction from genomic data remains extremely challenging, especially for species with a large pan-genome. One such organism, for which multidrug-resistant (MDR) isolates are frequently encountered in the clinic, is Pseudomonas aeruginosa...
October 2, 2017: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/28916321/analysis-of-resistance-genes-in-pan-resistant-myroides-odoratimimus-clinical-strain-pr63039-using-whole-genome-sequencing
#8
Desong Ming, Qing-Qing Chen, Xiao-Tin Chen
To clarify the antibiotic resistance mechanisms of Myroides odoratimimus, pan-resistant M. odoratimimus strain PR63039 was isolated and its genome sequenced and analyzed. Antimicrobial susceptibility testing was conducted using the Kirby-Bauer disk diffusion method, and the Phoenix-100 Automated Microbiology System with a NMIC/ID-4 panel including aminoglycosides, β-lactams, polypeptides, quinolones, sulfonamides, chloramphenicols, and tetracyclines. Single-molecule real-time whole genome sequencing was conducted using the PacBio RSII system, and genome annotation was performed using RAST and IMG ER...
September 12, 2017: Microbial Pathogenesis
https://www.readbyqxmd.com/read/28912837/carbuncle-due-to-salmonella-enteritidis-a-novel-presentation
#9
Wadha Alfouzan, Dieter Bulach, Hidemasa Izumiya, Khaled AlBassam, Simin Sheikh, Nasser Alrubai'aan, M John Albert
BACKGROUND: Salmonella Enteritidis causes intestinal and extra-intestinal infections, but rarely cutaneous infections. It has never been reported to cause carbuncle (a collection of interconnected furuncles with multiple pustular openings). We report a case of carbuncle due to S. Enteritidis. CASE PRESENTATION: An adult Bangladeshi patient with type 2 diabetes presented with a carbuncle on the left-side of his neck. A pure culture of S. Enteritidis was grown from the pus of the carbuncle...
2017: Gut Pathogens
https://www.readbyqxmd.com/read/28911187/genome-analysis-of-food-processing-stressful-resistant-probiotic-bifidobacterium-animalis-subsp-lactis-bf052-and-its-potential-application-in-fermented-soymilk
#10
Pattra Charnchai, Sirima Suvarnakuta Jantama, Kaemwich Jantama
In this study, Bifidobacterium animalis subsp. lactis BF052 was demonstrated the growth capability in soymilk and could be thus supplemented as a probiotic starter that employed soymilk as one of its food vehicles. The complete genome sequence of BF052 was therefore determined to understand the genetic basis of BF052 as a technological and functional probiotic starter. The whole genome sequence of BF052 consists of a circular genome of 1938 624 bp with a G+C content of 60.50%. This research highlights relevant genes involving in its adaptive responses to industrial and/or environmental stresses and utilization of α-galacto-oligosaccharides in BF052 strain compared with other representative bifidobacterial genomes...
September 15, 2017: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/28904649/harnessing-whole-genome-sequencing-in-medical-mycology
#11
REVIEW
Christina A Cuomo
PURPOSE OF REVIEW: Comparative genome sequencing studies of human fungal pathogens enable identification of genes and variants associated with virulence and drug resistance. This review describes current approaches, resources, and advances in applying whole genome sequencing to study clinically important fungal pathogens. RECENT FINDINGS: Genomes for some important fungal pathogens were only recently assembled, revealing gene family expansions in many species and extreme gene loss in one obligate species...
2017: Current Fungal Infection Reports
https://www.readbyqxmd.com/read/28902847/first-insights-in-the-variability-of-borrelia-recurrentis-genomes
#12
Durdica Marosevic, Gabriele Margos, Reinhard Wallich, Andreas Wieser, Andreas Sing, Volker Fingerle
BACKGROUND: Borrelia recurrentis is the causative agent of louse-borne relapsing fever, endemic to the Horn of Africa. New attention was raised in Europe, with the highest number of cases (n = 45) reported among migrants in 2015 in Germany and sporadically from other European countries. So far only one genome was sequenced, hindering the development of specific molecular diagnostic and typing tools. Here we report on modified culture conditions for B. recurrentis and the intraspecies genome variability of six isolates isolated and cultured in different years in order to explore the possibility to identify new targets for typing and examine the molecular epidemiology of the pathogen...
September 13, 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28899807/tn2008-driven-carbapenem-resistance-in-acinetobacter-baumannii-isolates-from-a-period-of-increased-incidence-of-infections-in-a-southwest-virginia-hospital
#13
Jayasimha Rao, Dwi Susanti, Johnathon C Childress, Michael C Mitkos, Joshua K Brima, Anthony W Baffoe-Bonnie, Samuel N Pearce, Dale Grgurich, Maria Jose Fernandez-Cotarelo, Thomas M Kerkering, Biswarup Mukhopadhyay
OBJECTIVES: The objectives of this study were to determine the genetic basis for carbapenem resistance in multidrug-resistant Acinetobacter baumannii strains isolated from patients affected by a sudden increase in the incidence of infections by such organisms in a tertiary care hospital in Virginia, USA, in 2009-2010 and to examine whether such strains are commonly encountered in the hospital setting. METHODS: The whole genomes of one outbreak strain, one carbapenem-resistant strain and one carbapenem-sensitive strain from sporadic infections in 2010-2012 were sequenced and analyzed...
September 9, 2017: Journal of Global Antimicrobial Resistance
https://www.readbyqxmd.com/read/28893788/genomic-and-molecular-characterization-of-clinical-isolates-of-enterobacteriaceae-harboring-mcr-1-in-colombia-2002-2016
#14
Sandra Yamile Saavedra, Lorena Diaz, Magdalena Wiesner, Adriana Correa, Stefany Alejandra Arévalo, Jinnethe Reyes, Andrea Melissa Hidalgo, Elsa de la Cadena, Marcela Perenguez, Lucy Angeline Montaño, Javier Ardila, Rafael Ríos, María Victoria Ovalle, Paula Díaz, Paola Porras, Maria V Villegas, Cesar A Arias, Mauricio Beltrán, Carolina Duarte
Polymyxins are last resort antimicrobial agents used to treat infections caused by carbapenem-resistant Enterobacteriaceae Due to the worldwide dissemination of polymyxin resistance in animal and human isolates, we aimed to characterize polymyxin resistance associated with the presence of mcr-1 in Enterobacteriaceae and nonfermenter Gram-negative bacilli, in isolates collected retrospectively in Colombia from 2002 to 2016. A total of 5,887 Gram-negative clinical isolates were studied and 513 were found to be resistant to the polymyxins...
September 11, 2017: Antimicrobial Agents and Chemotherapy
https://www.readbyqxmd.com/read/28893775/a-nosocomial-outbreak-of-extensively-drug-resistant-xdr-acinetobacter-baumannii-isolates-containing-blaoxa-237-encoded-on-a-plasmid
#15
Andrea M Hujer, Paul G Higgins, Susan D Rudin, Genevieve L Buser, Steven H Marshall, Kyriaki Xanthopoulou, Harald Seifert, Laura J Rojas, T Nicholas Domitrovic, P Maureen Cassidy, Margaret C Cunningham, Robert Vega, Jon P Furuno, Christopher D Pfeiffer, Zintars G Beldavs, Meredith S Wright, Michael R Jacobs, Mark D Adams, Robert A Bonomo
Carbapenem antibiotics are among the mainstay for treating infections caused by Acinetobacter baumannii, especially in the Northwest United States where carbapenem resistant A. baumannii remain relatively rare. However, between June 2012 and October 2014, an outbreak of carbapenem-resistant A. baumannii occurred in 16 patients from 5 healthcare facilities in the state of Oregon. All isolates were defined as extensively-drug resistant (XDR). MLST revealed that the isolates belonged to sequence type 2 (international clone 2, IC2), and were greater than 95% similar by rep-PCR analysis...
September 11, 2017: Antimicrobial Agents and Chemotherapy
https://www.readbyqxmd.com/read/28893688/whole-genome-sequencing-identification-of-a-multidrug-resistant-salmonella-enterica-serovar-typhimurium-strain-carrying-blandm-5-from-guangdong-china
#16
Xiaoyan Li, Yan Jiang, Kuihai Wu, Yong Zhou, Ruike Liu, Yan Cao, Aiwu Wu, Yurong Qiu
A carbapenem-resistant Salmonella enterica serovar Typhimurium (sequence type 34 [ST34]) strain was isolated from a fecal specimen from a child with acute diarrhea. Whole-genome sequencing revealed that the 84.5-kb IncFII plasmid pST41-NDM carrying the NDM-5 carbapenemase gene possesses a structure identical to that of the IncFII-type plasmid backbone. However, the blaNDM-5 flanking sequence found in this plasmid is identical to the blaNDM-5-positive IncX3 plasmids carried by 10 strains of Enterobacteriaceae identified in the same hospital...
September 8, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28893646/whole-genome-sequence-of-a-carbapenem-resistant-hypermucoviscous-klebsiella-pneumoniae-isolate-swu01-with-capsular-serotype-k47-that-belongs-to-st11-from-a-patient-in-china
#17
Luhua Zhang, Ying Li, Wei Shen, Guangxi Wang, Yingshun Zhou
OBJECTIVES: In recent years, Klebsiella pneumoniae is emerging as a leading cause of nosocomial infection due to the rapid prevalence of multidrug resistant strains, particularly the carbapenem resistant isolates. In this study, we completed the genome sequence of a carbapenem-resistant K. pneumoniae SWU01. METHODS: Antimicrobial susceptibilities and hypermucoviscous phenotype were determined by the disk diffusion method and a positive string test, respectively...
September 8, 2017: Journal of Global Antimicrobial Resistance
https://www.readbyqxmd.com/read/28891138/epidemiology-of-helicobacter-pylori-infection
#18
REVIEW
Christophe Burucoa, Anthony Axon
The study of Helicobacter pylori genetic variability brought us interesting data on the history of mankind. Based on multilocus sequence typing and more recently on whole-genome sequencing, paleomicrobiology still attracts the attention of global researchers in relation to its ancestor roots and coexistence with humans. Three studies determining the prevalence of virulence factors illustrates the controversial results obtained since 30 years by studies trying to associate prevalence of different virulence markers and clinical outcomes of H...
September 2017: Helicobacter
https://www.readbyqxmd.com/read/28888050/significance-of-perivascular-tumour-cells-defined-by-cd109-expression-in-progression-of-glioma
#19
Yukihiro Shiraki, Shinji Mii, Atsushi Enomoto, Hiroyuki Momota, Yi-Peng Han, Takuya Kato, Kaori Ushida, Akira Kato, Naoya Asai, Yoshiki Murakumo, Kosuke Aoki, Hiromichi Suzuki, Fumiharu Ohka, Toshihiko Wakabayashi, Tomoki Todo, Seishi Ogawa, Atsushi Natsume, Masahide Takahashi
In the progression of glioma, tumour cells often exploit the perivascular microenvironment to promote their survival and resistance to conventional therapies. Some of these cells are considered to be brain tumour stem cells (BTSCs); however, the molecular nature of perivascular tumour cells has not been specifically clarified because of the complexity of glioma. Here, we identified CD109, a glycosylphosphatidylinositol- anchored protein and regulator of multiple signalling pathways, as a critical regulator of the progression of lower-grade glioma (World Health Organization grade II/III) by clinicopathological and whole genome sequencing analysis of tissues from human glioma...
September 9, 2017: Journal of Pathology
https://www.readbyqxmd.com/read/28887657/fine-mapping-of-the-soybean-aphid-resistance-genes-rag6-and-rag3c-from-glycine-soja-85-32
#20
Shichen Zhang, Zhongnan Zhang, Zixiang Wen, Cuihua Gu, Yong-Qiang Charles An, Carmille Bales, Chris DiFonzo, Qijian Song, Dechun Wang
Rag6 and Rag3c were delimited to a 49-kb interval on chromosome 8 and a 150-kb interval on chromosome 16, respectively. Structural variants in the exons of candidate genes were identified. The soybean aphid, an invasive species, has significantly threatened soybean production in North America since 2000. Host-plant resistance is known as an ideal management strategy for aphids. Two novel aphid-resistance loci, Rag6 and Rag3c, from Glycine soja 85-32, were previously detected in a 10.5-cM interval on chromosome 8 and a 7...
September 8, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
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