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https://www.readbyqxmd.com/read/29149287/genomic-and-epigenomic-immunity-in-common-bean-the-unusual-features-of-nb-lrr-gene-family
#1
Manon M S Richard, Ariane Gratias, Vincent Thareau, Kyung Do Kim, Sandrine Balzergue, Johann Joets, Scott A Jackson, Valérie Geffroy
In plants, a key class of genes comprising most of disease resistance (R) genes encodes Nucleotide-binding leucine-rich repeat (NL) proteins. Access to common bean (Phaseolus vulgaris) genome sequence provides unparalleled insight into the organization and evolution of this large gene family (∼400 NL) in this important crop. As observed in other plant species, most common bean NL are organized in cluster of genes. However, a particularity of common bean is that these clusters are often located in subtelomeric regions close to terminal knobs containing the satellite DNA khipu...
November 15, 2017: DNA Research: An International Journal for Rapid Publication of Reports on Genes and Genomes
https://www.readbyqxmd.com/read/29146858/whole-genome-shotgun-sequences-of-three-multidrug-resistant-mycobacterium-tuberculosis-strains-isolated-from-morocco
#2
Lamiaa Lahlou, Nadia El Mrimar, Meriem Laamarti, Tarek Alouane, Mohammed A Bendahou, Fatna Bssaibis, Yassine Ben Lahlou, Adil Zegmout, N El Hafidi, Rachid ElJaoudi, Mohammed Frikh, Abdelhay Lemnouar, Mostafa Elouennass, Azeddine Ibrahimi
Tuberculosis is a contagious disease that usually attacks the lungs but sometimes attacks other parts of the body, such as the kidneys, glands, and bones. It is an endemic and major public health problem in Morocco. Tuberculosis is transmitted through the airways via the inhalation of microdroplets containing Mycobacterium tuberculosis We present here the whole-genome shotgun sequences of three multidrug-resistant M. tuberculosis strains isolated from Morocco.
November 16, 2017: Genome Announcements
https://www.readbyqxmd.com/read/29141346/-etiologic-characteristics-of-shigella-sonnei-strains-isolated-from-some-areas-of-guangdong-province-and-guangxi-zhuang-autonomous-region-of-china-2014-2016
#3
B S Li, L J Chen, B X Ke, J M Lin, L Q Xu, H L Tan, D M He, Y H Liang, C W Ke, Y H Zhang
Objective: To investigated the etiologic characteristics of Shigella (S.) sonnei strains causing outbreaks and sporadic cases in some areas of Guangdong province and Guangxi Zhuang Autonomous Region during 2014-2016. Methods: Fourteen S. sonnei strains isolated from outbreaks and 6 S. sonnei strains from sporadic cases from Guangdong and Liuzhou of Guangxi Zhuang Autonomous Region were tested for antimicrobial resistance and analyzed by pulsed-field gel electrophoresis (PFGE). Six typical strains were selected for whole genome sequencing typing and compared with 51 strains isolated both at home and abroad from NCBI genome database...
November 10, 2017: Zhonghua Liu Xing Bing Xue za Zhi, Zhonghua Liuxingbingxue Zazhi
https://www.readbyqxmd.com/read/29141051/molecular-and-epidemiological-characterization-of-carbapenemase-producing-enterobacteriaceae-in-norway-2007-to-2014
#4
Ørjan Samuelsen, Søren Overballe-Petersen, Jørgen Vildershøj Bjørnholt, Sylvain Brisse, Michel Doumith, Neil Woodford, Katie L Hopkins, Bettina Aasnæs, Bjørg Haldorsen, Arnfinn Sundsfjord
The prevalence of carbapenemase-producing Enterobacteriaceae (CPE) is increasing worldwide. Here we present associated patient data and molecular, epidemiological and phenotypic characteristics of all CPE isolates in Norway from 2007 to 2014 confirmed at the Norwegian National Advisory Unit on Detection of Antimicrobial Resistance. All confirmed CPE isolates were characterized pheno- and genotypically, including by whole genome sequencing (WGS). Patient data were reviewed retrospectively. In total 59 CPE isolates were identified from 53 patients...
2017: PloS One
https://www.readbyqxmd.com/read/29140103/salmonella-gallinarum-field-isolates-and-its-relationship-to-vaccine-strain-sg9r
#5
P K V Koerich, B B Fonseca, E Balestrin, V Tagliari, P G Hoepers, C Ueira-Vieira, I Oldoni, R H Rauber, L Ruschel, V P Do Nascimento
1. The aim of the present study was to determine if the 9R-strain of the Salmonella gallinarum live vaccine was responsible for having fowl typhoid outbreaks in chicken flocks from both chicken and turkey breeders as well as to verify the antimicrobial resistance of the isolates from the outbreaks. 2. The triplex polymerase chain reaction (PCR), standard antimicrobial test, beta-lactamase genes identification and Ion Torrent PMG whole genome sequence were used in the field isolates and in the vaccine strain of S...
November 15, 2017: British Poultry Science
https://www.readbyqxmd.com/read/29138903/next-generation-sequencing-to-identify-candidate-genes-and-develop-diagnostic-markers-for-a-novel-phytophthora-resistance-gene-rpshc18-in-soybean
#6
Chao Zhong, Suli Sun, Yinping Li, Canxing Duan, Zhendong Zhu
A novel Phytophthora sojae resistance gene RpsHC18 was identified and finely mapped on soybean chromosome 3. Two NBS-LRR candidate genes were identified and two diagnostic markers of RpsHC18 were developed. Phytophthora root rot caused by Phytophthora sojae is a destructive disease of soybean. The most effective disease-control strategy is to deploy resistant cultivars carrying Phytophthora-resistant Rps genes. The soybean cultivar Huachun 18 has a broad and distinct resistance spectrum to 12 P. sojae isolates...
November 14, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/29137647/new-eight-genes-identified-at-the-clinical-multidrug-resistant-acinetobacter-baumannii-dms06669-strain-in-a-vietnam-hospital
#7
Nguyen Si-Tuan, Hua My Ngoc, Pham Thi Thu Hang, Cuong Nguyen, Pham Hung Van, Nguyen Thuy Huong
BACKGROUND: Acinetobacter baumannii is an important nosocomial pathogen that can develop multidrug resistance. In this study, we characterized the genome of the A. baumannii strain DMS06669 (isolated from the sputum of a male patient with hospital-acquired pneumonia) and focused on identification of genes relevant to antibiotic resistance. METHODS: Whole genome analysis of A. baumannii DMS06669 from hospital-acquired pneumonia patients included de novo assembly; gene prediction; functional annotation to public databases; phylogenetics tree construction and antibiotics genes identification...
November 14, 2017: Annals of Clinical Microbiology and Antimicrobials
https://www.readbyqxmd.com/read/29137188/physical-localization-of-a-locus-from-agropyron-cristatum-conferring-resistance-to-stripe-rust-in-common-wheat
#8
Zhi Zhang, Liqiang Song, Haiming Han, Shenghui Zhou, Jinpeng Zhang, Xinming Yang, Xiuquan Li, Weihua Liu, Lihui Li
Stripe rust, caused by Puccinia striiformis f. sp. tritici (Pst), is one of the most destructive diseases of wheat (Triticum aestivum L.) worldwide. Agropyron cristatum (L.) Gaertn. (2n = 28, PPPP), one of the wild relatives of wheat, exhibits resistance to stripe rust. In this study, wheat-A. cristatum 6P disomic addition line 4844-12 also exhibited resistance to stripe rust. To identify the stripe rust resistance locus from A. cristatum 6P, ten translocation lines, five deletion lines and the BC₂F₂ and BC₃F₂ populations of two wheat-A...
November 13, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29134117/identification-of-nonserotypeable-shigella-spp-using-genome-sequencing-a-step-forward
#9
Muthuirulandi Sethuvel Dhiviya Prabaa, Devanga Ragupathi Naveen Kumar, Inbanathan Francis Yesurajan, Shalini Anandan, Walia Kamini, Veeraraghavan Balaji
Aim: Sequencing technology has replaced conventional methods in identifying and characterizing bacterial pathogens. We characterized 23 nonserotypeable Shigella that biochemically resembled Shigella spp. using whole genome sequencing. Materials & methods: Genome sequences were analyzed using online tools based on 16S rRNA, k-mer, gyrB sequences and analysis of O-antigen arrangement was done using PATRIC database for species identification. Sequence types, plasmid types, antimicrobial resistance and virulence genes were also investigated...
November 2017: Future Science OA
https://www.readbyqxmd.com/read/29133554/what-is-resistance-impact-of-phenotypic-versus-molecular-drug-resistance-testing-on-multi-and-extensively-drug-resistant-tuberculosis-therapy
#10
Jan Heyckendorf, Sönke Andres, Claudio U Köser, Ioana D Olaru, Thomas Schön, Erik Sturegård, Patrick Beckert, Viola Schleusener, Thomas A Kohl, Doris Hillemann, Danesh Moradigaravand, Julian Parkhill, Sharon J Peacock, Stefan Niemann, Christoph Lange, Matthias Merker
Rapid and accurate drug-susceptibility testing (DST) is essential for the treatment of multi- and extensively drug-resistant tuberculosis (M/XDR-TB). We compared the utility of genotypic DST assays with phenotypic DST (pDST) using BACTEC 960 MGIT or Löwenstein-Jensen to construct M/XDR-TB treatment regimens for a cohort of 25 consecutive M/XDR-TB patients and 15 possible anti-TB drugs.Genotypic DST results from Cepheid GeneXpert MTB/RIF (Xpert) and line probe assays (LPAs: Hain GenoType MTBDRplus 2.0 and MTBDRsl 2...
November 13, 2017: Antimicrobial Agents and Chemotherapy
https://www.readbyqxmd.com/read/29127051/genomic-analysis-of-in-vivo-acquired-resistance-to-colistin-and-rifampin-in-acinetobacter-baumannii
#11
Nadia Jaidane, Thierry Naas, Wejdene Mansour, Bechir Ben Radhia, Sofiene Jerbi, Noureddine Boujaafar, Olfa Bouallegue, Rémy A Bonnin
Acinetobacter baumannii is an opportunistic pathogen in health-care facilities responsible for nosocomial infections mostly in immune-compromised patients. Colistin resistance is increasingly reported worldwide in that species. We describe here in vivo selection of colistin and rifampin resistance in a carbapenem-resistant A. baumannii (Ab). Antimicrobial susceptibility testing, plasmid analysis, and Whole Genome Sequencing (WGS) were performed to fully characterize the resistome of AbS1 and AbS2 clinical isolates...
November 7, 2017: International Journal of Antimicrobial Agents
https://www.readbyqxmd.com/read/29126409/genomic-determinants-of-long-term-cardiometabolic-complications-in-childhood-acute-lymphoblastic-leukemia-survivors
#12
Jade England, Simon Drouin, Patrick Beaulieu, Pascal St-Onge, Maja Krajinovic, Caroline Laverdière, Emile Levy, Valérie Marcil, Daniel Sinnett
BACKGROUND: While cure rates for childhood acute lymphoblastic leukemia (cALL) now exceed 80%, over 60% of survivors will face treatment-related long-term sequelae, including cardiometabolic complications such as obesity, insulin resistance, dyslipidemia and hypertension. Although genetic susceptibility contributes to the development of these problems, there are very few studies that have so far addressed this issue in a cALL survivorship context. METHODS: In this study, we aimed at evaluating the associations between common and rare genetic variants and long-term cardiometabolic complications in survivors of cALL...
November 10, 2017: BMC Cancer
https://www.readbyqxmd.com/read/29126393/genomic-characterisation-of-clinical-and-environmental-pseudomonas-putida-group-strains-and-determination-of-their-role-in-the-transfer-of-antimicrobial-resistance-genes-to-pseudomonas-aeruginosa
#13
Silke Peter, Philipp Oberhettinger, Leonard Schuele, Ariane Dinkelacker, Wichard Vogel, Daniela Dörfel, Daniela Bezdan, Stephan Ossowski, Matthias Marschal, Jan Liese, Matthias Willmann
BACKGROUND: Pseudomonas putida is a Gram-negative, non-fermenting bacterium frequently encountered in various environmental niches. P. putida rarely causes disease in humans, though serious infections and outbreaks have been reported from time to time. Some have suggested that P. putida functions as an exchange platform for antibiotic resistance genes (ARG), and thus represents a serious concern in the spread of ARGs to more pathogenic organisms within a hospital. Though poorly understood, the frequency of ARG exchange between P...
November 10, 2017: BMC Genomics
https://www.readbyqxmd.com/read/29123510/upregulation-of-the-patab-transporter-confers-fluoroquinolone-resistance-to-streptococcus-pseudopneumoniae
#14
María Alvarado, Antonio J Martín-Galiano, María J Ferrándiz, Ángel Zaballos, Adela G de la Campa
We characterized the mechanism of fluoroquinolone-resistance in two isolates of Streptococcus pseudopneumoniae having fluoroquinolone-efflux as unique mechanism of resistance. Whole genome sequencing and genetic transformation experiments were performed together with phenotypic determinations of the efflux mechanism. The PatAB pump was identified as responsible for efflux of ciprofloxacin (MIC of 4 μg/ml), ethidium bromide (MICs of 8-16 μg/ml) and acriflavine (MICs of 4-8 μg/ml) in both isolates. These MICs were at least 8-fold lower in the presence of the efflux inhibitor reserpine...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29122883/whole-genome-sequencing-of-lactobacillus-species-from-two-commercial-probiotic-products
#15
Anna Colavecchio, Victoria Leo, Sophia Zaccheo, Julie Jeukens, Jean-Guillaume Emond-Rheault, Jérémie Hamel, Irena Kukavica-Ibrulj, Roger C Levesque, Lawrence Goodridge
Eight Lactobacillus strains, each intrinsically resistant to an antibiotic, were isolated from two commercial probiotic products. Whole-genome sequencing identified two efflux transporters, a multidrug and extrusion protein (MATE) efflux transporter, and LmrCD, which may contribute to their intrinsic antibiotic resistance and may therefore facilitate their survival in the intestinal microbiota following antibiotic therapy.
November 9, 2017: Genome Announcements
https://www.readbyqxmd.com/read/29122873/draft-genome-sequences-of-ciprofloxacin-resistant-salmonella-enterica-strains-with-multiple-antibiotic-resistance-isolated-from-imported-foods
#16
Ashraf A Khan, Bijay K Khajanchi, Sana A Khan, Christopher A Elkins, Steven L Foley
We report here the draft genome sequences of 15 ciprofloxacin-resistant Salmonella enterica strains with resistance to multiple other antibiotics, including aminoglycosides, β-lactams, sulfonamides, tetracycline, and trimethoprim, isolated from different imported foods. Three strains (NCTR75, NCTR281, and NCTR350) showed a high level of ciprofloxacin resistance compared to that of the other isolates. The whole-genome sequencing data provide a better understanding of the antibiotic resistance mechanisms and virulence properties of these isolates...
November 9, 2017: Genome Announcements
https://www.readbyqxmd.com/read/29122867/draft-genome-sequence-of-a-methicillin-resistant-sequence-type-39-staphylococcal-isolate-obtained-from-seafood
#17
G K Sivaraman, Deesha Vanik, S Visnuvinayagam, Mothadaka Mukteswar Prasad, V Murugadas, Ranjit Kumar Nadella, C N Ravishankar
The draft genome sequence of a methicillin-resistant Staphylococcus aureus (MRSA) sequence type 39 (ST 39) isolate obtained from the dried ribbonfish of Gujarat, India, is reported here. Staphylococcus-specific genes were present in this MRSA isolate. The whole-genome sequence of this strain contains 2,693 protein-coding genes and 70 RNAs within the 2.82-Mb genome.
November 9, 2017: Genome Announcements
https://www.readbyqxmd.com/read/29122729/draft-genome-sequence-of-enterobacter-cloacae-st128-a-clinical-strain-coproducing-kpc-2-and-ndm-1-carbapenemases
#18
Xi Li, Yongze Zhu, Mengyuan Shen, Jing Du, Lei Zhang, Dairong Wang
OBJECTIVES: Enterobacter cloacae is one of the major pathogens responsible for a variety of human infections. Here, we report the draft genome sequence of a multidrug-resistant E. cloacae strain HBY that was isolated from a female in China. METHODS: Whole-genomic DNA of E. cloacae strain HBY was extracted and was sequenced using an Illumina-Hiseq™ 2000 platform. The generated sequence reads were assembled using CLC Genomics Workbench. The draft genome was annotated using Rapid Annotation using Subsystem Technology and the presence of antimicrobial resistance genes was identified...
November 6, 2017: Journal of Global Antimicrobial Resistance
https://www.readbyqxmd.com/read/29119434/recovery-and-characterization-of-bacteria-resisting-infection-by-lytic-bacteriophage
#19
Libera Latino, Christine Pourcel
Bacteria and bacteriophages coexist and coevolve, bacteriophages being obligatory predators exerting an evolutionary pressure on their prey. Mechanisms in action vary depending on the bacterial genomic content and on the regulation of the bacteriophage cycle. To assess the multiplicity of bacterial genes involved in resistance as well as the changes in the bacteriophage interactions with the bacteria, it is necessary to isolate and investigate large numbers of independent resistant variants. Here we describe protocols that have been applied to the study of Pseudomonas aeruginosa and four of its virulent bacteriophages belonging to the Podoviridae and Myoviridae bacteriophage families...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29118748/remarkable-diversity-of-escherichia-coli-carrying-mcr-1-from-hospital-sewage-with-the-identification-of-two-new-mcr-1-variants
#20
Feifei Zhao, Yu Feng, Xiaoju Lü, Alan McNally, Zhiyong Zong
The plasmid-borne colistin-resistant gene mcr-1 has rapidly become a worldwide public health concern. This study aims to determine the host bacterial strains, plasmids, and genetic contexts of mcr-1 in hospital sewage. A 1-ml hospital sewage sample was cultured. Colistin-resistant bacterial colonies were selected on agar plates and were subjected to whole genome sequencing and subsequent analysis. The transfer of mcr-1 between bacterial strains was tested using conjugation. New variants of mcr-1 were cloned to test the impact of variations on the function of mcr-1...
2017: Frontiers in Microbiology
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