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https://www.readbyqxmd.com/read/28222150/polymorphisms-and-features-of-cytomegalovirus-ul144-and-ul146-in-congenitally-infected-neonates-with-hepatic-involvement
#1
Gangqiang Guo, Liang Zhang, Sisi Ye, Yingying Hu, Baoqing Li, Xiangwei Sun, Chenchen Mao, Jianfeng Xu, Yiping Chen, Lifang Zhang, Xiangyang Xue
Human cytomegalovirus is a significant agent of hepatic involvement in neonates. In this study, we investigated the polymorphisms and features of the viral genes UL144 and UL146 as well as their significance to congenital hepatic involvement. In 79 neonates with congenital cytomegalovirus infection and hepatic involvement, full length UL144 and UL146 were successfully amplified in 73.42% and 60.76% of cases, respectively. Sequencing indicated that both genes were hypervariable. Notably, UL144 genotype B was highly associated with aspartate aminotransferase (P = 0...
2017: PloS One
https://www.readbyqxmd.com/read/28222092/the-genetic-basis-of-resistance-and-matching-allele-interactions-of-a-host-parasite-system-the-daphnia-magna-pasteuria-ramosa-model
#2
Gilberto Bento, Jarkko Routtu, Peter D Fields, Yann Bourgeois, Louis Du Pasquier, Dieter Ebert
Negative frequency-dependent selection (NFDS) is an evolutionary mechanism suggested to govern host-parasite coevolution and the maintenance of genetic diversity at host resistance loci, such as the vertebrate MHC and R-genes in plants. Matching-allele interactions of hosts and parasites that prevent the emergence of host and parasite genotypes that are universally resistant and infective are a genetic mechanism predicted to underpin NFDS. The underlying genetics of matching-allele interactions are unknown even in host-parasite systems with empirical support for coevolution by NFDS, as is the case for the planktonic crustacean Daphnia magna and the bacterial pathogen Pasteuria ramosa...
February 21, 2017: PLoS Genetics
https://www.readbyqxmd.com/read/28221927/characterization-of-extended-spectrum-%C3%AE-lactamase-producing-escherichia-coli-isolates-from-pigs-and-farm-workers
#3
Hongna Zhang, Zhenzhen Zhai, Qing Li, Linghong Liu, Shuyuan Guo, Qimeng Li, Lingling Yang, Chaoqun Ye, Weishan Chang, Jing Zhai
Food-producing animals can serve as reservoirs for extended-spectrum β-lactamase (ESBL)-producing Escherichia coli . The present study aimed to characterize and compare ESBL-carrying E. coli isolates from both pigs and farm workers. Rectal swabs were obtained from 60 pigs on four pig-fattening farms (15 samples per farm), and rectal swabs were taken from 40 farm workers on these farms (10 samples per farm). ESBL-carrying E. coli isolates from the workers and pigs were characterized by ESBL genotype, antibiotic susceptibility, enterobacterial repetitive intergenic consensus type, and multilocus sequence type...
September 2016: Journal of Food Protection
https://www.readbyqxmd.com/read/28220547/identification-and-molecular-epidemiology-of-dermatophyte-isolates-by-repetitive-sequence-pcr-based-dna-fingerprinting-using-the-diversilab-system-in-turkey
#4
A Nedret Koc, Mustafa A Atalay, Melek Inci, Fatma M Sariguzel, Hafize Sav
Dermatophyte species, isolation and identification in clinical samples are still difficult and take a long time. The identification and molecular epidemiology of dermatophytes commonly isolated in a clinical laboratory in Turkey by repetitive sequence-based PCR (rep-PCR) were assessed by comparing the results with those of reference identification. A total of 44 dermatophytes isolated from various clinical specimens of 20 patients with superficial mycoses in Kayseri and 24 patients in Hatay were studied. The identification of dermatophyte isolates was based on the reference identification and rep-PCR using the DiversiLab System (BioMerieux)...
February 21, 2017: Mycoses
https://www.readbyqxmd.com/read/28220510/diverse-and-novel-rhd-variants-in-australian-blood-donors-with-a-weak-d-phenotype-implication-for-transfusion-management
#5
E C McGowan, G H Lopez, C M Knauth, Y-W Liew, J A Condon, L Ramadi, K Parsons, E M Turner, R L Flower, C A Hyland
BACKGROUND AND OBJECTIVES: Variant RHD genes associated with the weak D phenotype can result in complete or partial D-epitope expression on the red cell. This study examines the genetic classification in Australian blood donors with a weak D phenotype and correlates RHD variants associated with the weak D phenotype against D-epitope profile. MATERIALS AND METHODS: Following automated and manual serology, blood samples from donors reported as 'weak D' (n = 100) were RHD genotyped by a commercial SNP-typing platform and Sanger sequencing...
February 20, 2017: Vox Sanguinis
https://www.readbyqxmd.com/read/28220464/perspectives-and-challenges-of-pluripotent-stem-cells-in-cardiac-arrhythmia-research
#6
REVIEW
Alexander Goedel, Ilaria My, Daniel Sinnecker, Alessandra Moretti
PURPOSE OF REVIEW: The promises of human-induced pluripotent stem cells (hiPSCs) for modeling arrhythmogenic disease, but also for drug discovery and toxicity tests, are straightforward and exciting. However, the full potential of this new technology has not been fully realized yet. The purpose of this review is to provide an overview of the state-of-the-art research in arrhythmogenic disease modeling and drug discovery and an outlook of what can be expected from the second decade of hiPSC-based arrhythmia research...
March 2017: Current Cardiology Reports
https://www.readbyqxmd.com/read/28220206/a-user-guide-to-the-brassica-60k-illumina-infinium%C3%A2-snp-genotyping-array
#7
REVIEW
Annaliese S Mason, Erin E Higgins, Rod J Snowdon, Jacqueline Batley, Anna Stein, Christian Werner, Isobel A P Parkin
The Brassica napus 60K Illumina Infinium™ SNP array has had huge international uptake in the rapeseed community due to the revolutionary speed of acquisition and ease of analysis of this high-throughput genotyping data, particularly when coupled with the newly available reference genome sequence. However, further utilization of this valuable resource can be optimized by better understanding the promises and pitfalls of SNP arrays. We outline how best to analyze Brassica SNP marker array data for diverse applications, including linkage and association mapping, genetic diversity and genomic introgression studies...
February 20, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28220203/acinetobacter-halotolerans-sp-nov-a-novel-halotolerant-alkalitolerant-and-hydrocarbon-degrading-bacterium-isolated-from-soil
#8
Ram Hari Dahal, Dhiraj Kumar Chaudhary, Jaisoo Kim
A novel aerobic, non-motile, halotolerant, alkalitolerant, hydrocarbon degrading, and rod shaped bacterium, designated strain R160(T), was isolated from soil in South Korea. Cells were Gram-staining-negative, catalase-positive, and oxidase-negative. This strain grew up to 7% of NaCl and in the pH range of 6-11 (optimum 7.0-10.0). The isolate degraded 51.7 ± 1.3% of hydrocarbon components (C-18, C-20, and C-22) and 45.8 ± 1.4% oil components (kerosene, diesel, and gasoline). Phylogenetic analysis based on 16 S rRNA gene sequences revealed that strain R160(T) formed a lineage within the genus Acinetobacter, and was closely related to 'Acinetobacter oleivorans' DR1(T) (97...
February 20, 2017: Archives of Microbiology
https://www.readbyqxmd.com/read/28220139/genome-wide-single-nucleotide-polymorphism-discovery-and-the-construction-of-a-high-density-genetic-map-for-melon-cucumis-melo-l-using-genotyping-by-sequencing
#9
Che-Wei Chang, Yu-Hua Wang, Chih-Wei Tung
Although genotyping-by-sequencing (GBS) enables the efficient and low-cost generation of large numbers of markers, the utility of resultant genotypes are limited, because they are enormously error-prone and contain high proportions of missing data. In this study, we generated single nucleotide polymorphism (SNP) markers for 109 recombinant inbred lines of melon (Cucumis melo L.) using the GBS approach and ordered them according to their physical position on the draft double haploid line DHL92 genome. Next, by investigating associations between these SNPs, we discovered that some segments on the physical map conflict with linkage relationships...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28220132/identification-of-marker-trait-associations-for-lint-traits-in-cotton
#10
Muhammad A Iqbal, Mehboob-Ur- Rahman
Harvesting high quality lint, a long-awaited breeding goal-accomplished partly, can be achieved by identifying DNA markers which could be used for diagnosing cotton plants containing the desired traits. In the present studies, a total of 185 cotton genotypes exhibiting diversity for lint traits were selected from a set of 546 genotypes evaluated for fiber traits in 2009. These genotypes were extensively studied for three consecutive years (2011-2013) at three different locations. Significant genetic variations were found for average boll weight, ginning out turn (GOT), micronaire value, staple length, fiber bundle strength, and uniformity index...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28220115/spread-of-the-blaoxa-23-containing-tn2008-in-carbapenem-resistant-acinetobacter-baumannii-isolates-grouped-in-cc92-from-china
#11
Yisheng Chen, Jing Gao, Haomin Zhang, Chunmei Ying
The rapid expansion of carbapenem-resistant Acinetobacter baumannii (CRAB) clinical isolates is a big issue. We investigated the antibiotic susceptibility, molecular epidemiology and resistance gene of A. baumannii collected at two hospitals in Shanghai, China. Besides, the A. baumannii PCR-based replicon typing method (AB-PBRT) was conducted to categorize the plasmids into homogeneous groups on the basis of replicase genes. Most CRAB isolates showed high-level resistance to almost all antibiotics but retain susceptibility to colistin and tigecycline...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28220103/hippocampal-damage-and-atrophy-secondary-to-status-epilepticus-in-a-patient-with-schizophrenia
#12
Elaine Keiko Fujisao, Nathalia Raquel Cristaldo, Aline Marques da Silva Braga, Paulina Rodrigues Cunha, Seizo Yamashita, Luiz Eduardo Betting
A 59-year-old man was admitted with respiratory tract infection, compromised conscience and generalized tonic-clonic seizures. His medical history included schizophrenia diagnosis, for which he had been being treated since he was 27 years old. EEG disclosed non-convulsive status epilepticus. A magnetic resonance image (MRI) acquired 3 days later showed increased left hippocampal volume with hyperintensity on T2-weighted and FLAIR sequences. After being treated with antibiotics and antiepileptic medications, the patient's condition improved...
2017: Frontiers in Neurology
https://www.readbyqxmd.com/read/28219832/the-role-of-single-nucleotide-polymorphisms-contained-in-proinflammatory-cytokine-genes-in-the-development-of-congenital-infection-with-human-cytomegalovirus-in-fetuses-and-neonates
#13
Wioletta Wujcicka, Jan Wilczyński, Dorota Nowakowska
PURPOSE: The research project targeted the distribution of genotypes, alleles and haplotypes in single nucleotide polymorphisms (SNPs) within the interleukin (IL) 1A, IL1B, IL6, IL12B and TNFA genes, in fetuses and neonates, congenitally infected with human cytomegalovirus (HCMV), and among uninfected controls. METHODS: The study included 20 fetuses and neonates with congenital HCMV infection and 31 control individuals. The presence and amount of viral DNA was determined by real-time PCR assay for UL55 gene...
February 17, 2017: Microbial Pathogenesis
https://www.readbyqxmd.com/read/28219831/expression-and-characterization-of-the-major-capsid-protein-derived-from-a-gii-6-norovirus-strain-isolated-in-china
#14
Yuqi Huo, Lijun Zheng, Xuhui Chen, Lili Ge, Yumei Wang
The objective of this study was to express and characterize the major capsid protein (VP1) of a GII.6 Norovirus (NoV)strain isolated in China. The newly identified GII.6 NoV strain was isolated from a five-year old boy presenting acute gastroenteritis. The genome of the GII.6 strain was 7550 nucleotides in length, excluding the poly-adenylation tail. Multiple sequence alignment and phylogenetic analysis based on deduced VP1 amino acid sequences from different genotypes indicated close relationship between GII...
February 17, 2017: Microbial Pathogenesis
https://www.readbyqxmd.com/read/28219812/detection-and-molecular-diversity-of-giardia-duodenalis-and-cryptosporidium-spp-in-sheltered-dogs-and-cats-in-northern-spain
#15
Horacio Gil, Lourdes Cano, Aida de Lucio, Begoña Bailo, Marta Hernández de Mingo, Guillermo A Cardona, José A Fernández-Basterra, Juan Aramburu-Aguirre, Nuria López-Molina, David Carmena
Domestic dogs and cats may act as natural reservoirs of a large number of zoonotic pathogens, including the enteric parasites Giardia duodenalis and Cryptosporidium spp., the most relevant protozoan species causing gastrointestinal disease worldwide. A cross-sectional epidemiological study aiming to assess the prevalence and molecular diversity of G. duodenalis and Cryptosporidium spp. was conducted in an animal rescue centre in the province of Álava (Northern Spain). A total of 194 and 65 faecal dropping samples from individual dogs and cats, respectively, were collected between November 2013 and June 2016...
February 17, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28219761/development-and-validation-of-a-real-time-reverse-transcription-pcr-assay-for-rapid-and-low-cost-genotyping-of-hepatitis-c-virus-genotypes-1a-1b-2-and-3a
#16
Andrea D Olmstead, Tracy D Lee, Ron Chow, Kingsley Gunadasa, Brian Auk, Mel Krajden, Agatha N Jassem
Hepatitis C virus (HCV) infection affects millions of people and leads to liver fibrosis, cirrhosis, and hepatocellular carcinoma. Treatment regimen selection requires HCV genotype (Gt) and Gt 1 subtype determination. Use of a laboratory developed, reverse transcription (RT)-PCR assay was explored as a low-cost, high-throughput screening approach for the major HCV genotypes and subtypes in North America. A commercial line probe assay (LiPA) was used for comparison. Sequencing and/or an alternative PCR assay were used for discordant analyses...
February 17, 2017: Journal of Virological Methods
https://www.readbyqxmd.com/read/28219668/outbreak-of-dengue-virus-type-3-in-malakand-pakistan-2015-a-laboratory-perspective
#17
Muhammad Suleman, Rani Faryal, Muhammad Masroor Alam, Adnan Khurshid, Salmaan Sharif, Shahzad Shaukat, Mehar Angez, Massab Umair, Mian Muhammad Sufian, Yasir Arshad, Tanveer Inam, Syed Sohail Zahoor Zaidi
An outbreak of dengue fever was reported in Malakand district, Khyber Pakhtunkhwa (KP) province of Pakistan during 2015. Detection of viral RNA by real-time PCR confirmed dengue virus serotype-3 (DENV-3) to be the causative agent causing the outbreak. Phylogenetic analysis based on partial E-NS1 gene sequences showed that the DENV-3 viruses belonged to genotype III with maximum homology with the dengue-3 strains previously reported from Pakistan and India. Our current report provides updated information on molecular epidemiology and phylogenetic analysis of dengue virus serotypes responsible for 2015 outbreak in KP...
February 17, 2017: Acta Tropica
https://www.readbyqxmd.com/read/28219444/a-functional-snp-associated-with-atopic-dermatitis-controls-cell-type-specific-methylation-of-the-vstm1-gene-locus
#18
Dilip Kumar, Kia Joo Puan, Anand Kumar Andiappan, Bernett Lee, Geertje H A Westerlaken, Doreen Haase, Rossella Melchiotti, Zhuang Li, Nurhashikin Yusof, Josephine Lum, Geraldine Koh, Shihui Foo, Joe Yeong, Alexessander Couto Alves, Juha Pekkanen, Liang Dan Sun, Astrid Irwanto, Benjamin P Fairfax, Vivek Naranbhai, John E A Common, Mark Tang, Chin Keh Chuang, Marjo-Riitta Jarvelin, Julian C Knight, Xuejun Zhang, Fook Tim Chew, Shyam Prabhakar, Liu Jianjun, De Yun Wang, Francesca Zolezzi, Michael Poidinger, E Birgitte Lane, Linde Meyaard, Olaf Rötzschke
BACKGROUND: Expression quantitative trait loci (eQTL) databases represent a valuable resource to link disease-associated SNPs to specific candidate genes whose gene expression is significantly modulated by the SNP under investigation. We previously identified signal inhibitory receptor on leukocytes-1 (SIRL-1) as a powerful regulator of human innate immune cell function. While it is constitutively high expressed on neutrophils, on monocytes the SIRL-1 surface expression varies strongly between individuals...
February 20, 2017: Genome Medicine
https://www.readbyqxmd.com/read/28219415/genotyping-and-investigating-capsular-polysaccharide-synthesis-gene-loci-of-non-serotypeable-streptococcus-suis-isolated-from-diseased-pigs-in-canada
#19
Han Zheng, Xiaotong Qiu, David Roy, Mariela Segura, Pengchen Du, Jianguo Xu, Marcelo Gottschalk
Streptococcus suis (S. suis) is an important swine pathogen and an emerging zoonotic agent. Most clinical S. suis strains express capsular polysaccharides (CPS), which can be typed by antisera using the coagglutination test. In this study, 79 S. suis strains recovered from diseased pigs in Canada and which could not be typed using antisera were further characterized by capsular gene typing and sequencing. Four patterns of cps locus were observed: (1) fifteen strains were grouped into previously reported serotypes but presented several mutations in their cps loci, when compared to available data from reference strains; (2) seven strains presented a complete deletion of the cps locus, which would result in an inability to synthesize capsule; (3) forty-seven strains were classified in recently described novel cps loci (NCLs); and (4) ten strains carried novel NCLs not previously described...
February 20, 2017: Veterinary Research
https://www.readbyqxmd.com/read/28219347/aquaculture-genomics-genetics-and-breeding-in-the-united-states-current-status-challenges-and-priorities-for-future-research
#20
EDITORIAL
Hisham Abdelrahman, Mohamed ElHady, Acacia Alcivar-Warren, Standish Allen, Rafet Al-Tobasei, Lisui Bao, Ben Beck, Harvey Blackburn, Brian Bosworth, John Buchanan, Jesse Chappell, William Daniels, Sheng Dong, Rex Dunham, Evan Durland, Ahmed Elaswad, Marta Gomez-Chiarri, Kamal Gosh, Ximing Guo, Perry Hackett, Terry Hanson, Dennis Hedgecock, Tiffany Howard, Leigh Holland, Molly Jackson, Yulin Jin, Karim Kahlil, Thomas Kocher, Tim Leeds, Ning Li, Lauren Lindsey, Shikai Liu, Zhanjiang Liu, Kyle Martin, Romi Novriadi, Ramjie Odin, Yniv Palti, Eric Peatman, Dina Proestou, Guyu Qin, Benjamin Reading, Caird Rexroad, Steven Roberts, Mohamed Salem, Andrew Severin, Huitong Shi, Craig Shoemaker, Sheila Stiles, Suxu Tan, Kathy F J Tang, Wilawan Thongda, Terrence Tiersch, Joseph Tomasso, Wendy Tri Prabowo, Roger Vallejo, Hein van der Steen, Khoi Vo, Geoff Waldbieser, Hanping Wang, Xiaozhu Wang, Jianhai Xiang, Yujia Yang, Roger Yant, Zihao Yuan, Qifan Zeng, Tao Zhou
Advancing the production efficiency and profitability of aquaculture is dependent upon the ability to utilize a diverse array of genetic resources. The ultimate goals of aquaculture genomics, genetics and breeding research are to enhance aquaculture production efficiency, sustainability, product quality, and profitability in support of the commercial sector and for the benefit of consumers. In order to achieve these goals, it is important to understand the genomic structure and organization of aquaculture species, and their genomic and phenomic variations, as well as the genetic basis of traits and their interrelationships...
February 20, 2017: BMC Genomics
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