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Infection, Genetics and Evolution

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https://www.readbyqxmd.com/read/28642159/identification-and-comparison-of-rcmv-all-03-open-reading-frame-orf-among-several-different-strains-of-cytomegalovirus-worldwide
#1
Krishnan Nair Balakrishnan, Ashwaq Ahmed Abdullah, JamiluAbubakar Bala, Yusuf Abba, Siti Aimi Sarah, Faez Firdaus Abdullah Jesse, Zeenatul Allaudin Nazariah, Noordin Mohamed Mustapha, Mohd-Azmi Mohd Lila
BACKGROUND: Rat cytomegalovirus ALL-03 (Malaysian strain) which was isolated from a placenta and uterus of a house rat, Rattus rattus diardii has the ability to cross the placenta and infecting the fetus. To further elucidate the pathogenesis of the Malaysian strain of Rat Cytomegalovirus ALL-03 (RCMV ALL-03), detailed analysis on the viral genome sequence is crucial. METHODS: Genome sequencing of RCMV ALL-03 was carried out in order to identify the open reading frame (ORF), homology comparison of ORF with other strains of CMV, phylogenetic analysis, classifying ORF with its corresponding conserved genes, and determination of functional proteins and grouping of gene families in order to obtain fundamental knowledge of the genome...
June 19, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28642158/genetic-diversity-of-environmental-vibrio-cholerae-o1-strains-isolated-in-northern-vietnam
#2
Taichiro Takemura, Kazunori Murase, Fumito Maruyama, Tran Thi Luong, Atsushi Ota, Ichiro Nakagawa, Nguyen Dong Tu, Ngo Tu Cuong, Nguyen Thi Hang, Asako Tokizawa, Masatomo Morita, Makoto Ohnishi, Nguyen Binh Minh, Tetsu Yamashiro
Cholera epidemics have been recorded periodically in Vietnam during the seventh cholera pandemic. Since cholera is a water-borne disease, systematic monitoring of environmental waters for Vibrio cholerae presence is important for predicting and preventing cholera epidemics. We conducted monitoring, isolation, and genetic characterization of V. cholerae strains in Nam Dinh province of Northern Vietnam from Jul 2013 to Feb 2015. In this study, four V. cholerae O1 strains were detected and isolated from 110 analyzed water samples (3...
June 19, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28642157/genome-comparisons-of-two-taiwanese-community-associated-methicillin-resistant-staphylococcus-aureus-st59-clones-support-the-multi-origin-theory-of-ca-mrsa
#3
Ye Feng, Hsiu-Ling Chen, Chih-Jung Chen, Chyi-Liang Chen, Cheng-Hsun Chiu
Sequence type (ST) 59 is an epidemic lineage of community-associated methicillin-resistant Staphylococcus aureus (CA-MRSA) in Asia. Two ST59 clones are prevalent in Taiwan: the Taiwan clone (TW) causes severe infections, whereas the Asian-Pacific clone (AP) is usually commensal. In this study, we sequenced the genome and transcriptome of the representative strains of these two clones and found their differences to focus on three mobile genetic elements: TW carries SCCmec Type VT, Panton-Valentine leucocidin (PVL)-encoding prophage ΦSa2, whereas AP carries SCCmec Type IV and staphylokinase (SAK)-encoding prophage ΦSa3...
June 19, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28634106/biology-evolution-and-medical-importance-of-polyomaviruses-an-update
#4
REVIEW
Ugo Moens, Andi Krumbholz, Bernhard Ehlers, Roland Zell, Reimar Johne, Sébastien Calvignac-Spencer, Chris Lauber
The family Polyomaviridae encompasses non-enveloped viruses with a circular dsDNA genome that is typically approximately 5000bp in length. Originally isolated from mammals, polyomavirus sequences have now been detected in invertebrates, fish, amphibians, reptiles and birds, although it remains to be determined whether all these animals are genuine hosts. The genomes of all polyomaviruses encode at least two regulatory proteins (large and small tumour antigen) and two structural proteins (capsid proteins VP1 and VP2) whose functions have been defined...
June 17, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28634105/genetic-diversity-in-the-c-terminus-of-merozoite-surface-protein-1-among-plasmodium-knowlesi-isolates-from-selangor-and-sabah-borneo-malaysia
#5
Nan Jiun Yap, Xiang Ting Goh, Anson V Koehler, Timothy William, Tsin Wen Yeo, Indra Vythilingam, Robin B Gasser, Yvonne A L Lim
Plasmodium knowlesi, a malaria parasite of macaques, has emerged as an important parasite of humans. Despite the significance of P. knowlesi malaria in parts of Southeast Asia, very little is known about the genetic variation in this parasite. Our aim here was to explore sequence variation in a molecule called the 42kDa merozoite surface protein-1 (MSP-1), which is found on the surface of blood stages of Plasmodium spp. and plays a key role in erythrocyte invasion. Several studies of P. falciparum have reported that the C-terminus (a 42kDa fragment) of merozoite surface protein-1 (MSP-142; consisting of MSP-119 and MSP-133) is a potential candidate for a malaria vaccine...
June 17, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28629740/seasonal-dynamics-spatial-distribution-and-genetic-analysis-of-anaplasma-species-infecting-small-ruminants-from-northern-tunisia
#6
Hanène Belkahia, Mourad Ben Said, Narjesse El Mabrouk, Mariem Saidani, Chayma Cherni, Mariem Ben Hassen, Ali Bouattour, Lilia Messadi
To date, there have been no reports on seasonal variations of Anaplasma spp. in South Mediterranean small ruminants. In this longitudinal field study, single and mixed Anaplasma spp. infections in small ruminants from five different governorates belonging to three bioclimatic zones from the North of Tunisia were evaluated according to seasons. A total of 1685 blood small ruminant samples were collected in spring (355 sheep and 241 goats), summer (249 sheep and 202 goats), autumn (236 sheep and 186 goats) and winter (132 sheep and 84 goats)...
June 16, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28625543/characterization-of-vibrio-cholerae-o1-strains-that-trace-the-origin-of-haitian-like-genetic-traits
#7
Priyanka Ghosh, Dhirendra Kumar, Goutam Chowdhury, Puneeta Singh, Prosenjit Samanta, Shanta Dutta, T Ramamurthy, N C Sharma, Preety Sinha, Yogendra Prasad, Sumio Shinoda, Asish K Mukhopadhyay
Vibrio cholerae O1 is the etiological agent of the severe diarrheal disease cholera. The bacterium has recently been causing outbreaks in Haiti with catastrophic effects. Numerous mutations have been reported in V. cholerae O1 strains associated with the Haitian outbreak. These mutations encompass among other the genes encoding virulence factors such as the pilin subunit of the toxin-co-regulated pilus (tcpA), cholera toxin B subunit (ctxB), repeat in toxins (rtxA), and other genes such as the quinolone resistance-determining region (QRDR) of gyrase A (gyrA), rstB of RS element along with the alteration in the number of repeat sequences at the promoter region of ctxAB...
June 15, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28625542/analysis-of-the-codon-usage-of-the-orf2-gene-of-feline-calicivirus
#8
Minghui Zang, Wanting He, Fanshu Du, Gongjian Wu, Bohao Wu, Zhenlei Zhou
Feline calicivirus (FCV) is a highly prevalent pathogen of the domestic cat that causes acute infections of the oral and upper respiratory tract. The E region of the ORF2 protein is responsible for the induction of virus-neutralizing antibodies, thus it is important to understand the codon usage of this gene. Here, analysed 90 coding sequences of ORF2 and show that it undergoes a low codon usage bias. In addition, although mutational bias is one of the factors shaping the codon usage bias of this gene, natural selection plays a more significant role...
June 15, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28625541/plant-derived-antifungal-compounds-trigger-a-common-transcriptional-response
#9
Zhe Wang
Understanding the mechanism of action of antifungal drugs is vital for better control of mycosis, which kills >1.3 million lives every year thus remains a major health problem worldwide. In this study, we investigate the activities of three different categories of plant-derived antifungal compounds (resveratrol, honokiol and osthole) via transcriptomics and bioinformatics analysis, with the goal of discovering the common Mode-of-Action (MoA) at molecular level. The result shows that a common transcriptional response (72 gene are up-regulated while 10 genes are down-regulated, commonly) are triggered by above representative antifungal compounds in Schizosaccharomyces pombe (S...
June 15, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28624550/comparative-genome-analysis-of-fish-pathogen-flavobacterium-columnare-reveals-extensive-sequence-diversity-within-the-species
#10
Pattanapon Kayansamruaj, Ha Thanh Dong, Ikuo Hirono, Hidehiro Kondo, Saengchan Senapin, Channarong Rodkhum
Flavobacterium columnare is one of the deadliest fish pathogens causing devastating mortality in various freshwater fish species globally. To gain an insight into bacterial genomic contents and structures, comparative genome analyses were performed using the reference and newly sequenced genomes of F. columnare including genomovar I, II and I/II strains isolated from Thailand, Europe and the USA. Bacterial genomes varied in size from 3.09 to 3.39Mb (2714 to 3101 CDSs). The pan-genome analysis revealed open pan-genome nature of F...
June 15, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28624549/evaluation-of-a-new-trilocus-sequence-based-multiplex-pcr-to-detect-major-acinetobacter-baumannii-clonal-complexes-circulating-in-brazil
#11
Francielli Mahnic de Vasconcellos, Monique Ribeiro Tiba Casas, Laís Calissi Brisolla Tavares, William Vaz de Sousa, Doroti de Oliveira Garcia, Carlos Henrique Camargo
Dissemination of carbapenem-resistant Acinetobacter baumannii (CRAB) is mainly due to the spread of clonal lineages, particularly those included into the clonal complexes (CC) CC1, CC2, CC15, CC25, and CC79. We evaluated the usefulness of a recently modified PCR-based trilocus sequence-based typing (m3LST) in comparison with the standard multilocus sequence typing (MSLT) of 7 housekeeping genes as per the Institute Pasteur Scheme to assign the clonal complexes in CRAB. A collection of 78 CRAB isolated from 67 different Brazilian health institutions was submitted to both methodologies, and concordance rate was calculated...
June 14, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28602802/synonymous-codon-usage-analysis-of-hand-foot-and-mouth-disease-viruses-a-comparative-study-on-coxsackievirus-a6-a10-a16-and-enterovirus-71-from-2008-to-2015
#12
Weiheng Su, Xue Li, Meili Chen, Wenwen Dai, Shiyang Sun, Shuai Wang, Xin Sheng, Shixiang Sun, Chen Gao, Ali Hou, Yan Zhou, Bo Sun, Feng Gao, Jingfa Xiao, Zhewen Zhang, Chunlai Jiang
Enterovirus 71 (EV71) and coxsackievirus A16 (CVA16) have been considered major pathogens of hand, foot and mouth disease (HFMD) throughout the world for decades. In recent years, coxsackievirus A6 (CVA6) and coxsackievirus A10 (CVA10) have raised attention as two other serious pathogens of HFMD. The present study focused on the synonymous codon usage of four viruses isolated from 2008 to 2015, with particular attention on P1 (encoding capsid proteins) and P2-P3 regions (both encoding non-structural proteins) in the genomic RNA...
June 14, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28627467/time-to-review-the-gold-standard-for-genotyping-vancomycin-resistant-enterococci-in-epidemiology-comparing-whole-genome-sequencing-with-pfge-and-mlst-in-three-suspected-outbreaks-in-sweden-during-2013-2015
#13
Birgitta Lytsy, Lars Engstrand, Åke Gustafsson, Rene Kaden
Vancomycin-resistant enterococci (VRE) are a challenge to the health-care system regarding transmission rate and treatment of infections. VRE outbreaks have to be controlled from the first cases which means that appropriate and sensitive genotyping methods are needed. The aim of this study was to investigate the applicability of whole genome sequencing based analysis compared to Pulsed-Field Gel Electrophoresis (PFGE) and Multi-Locus Sequence Typing (MLST) in epidemiological investigations as well as the development of a user friendly method for daily laboratory use...
June 13, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28603021/detection-of-uncommon-g3p-3-rotavirus-a-rva-strain-in-rat-possessing-a-human-rva-like-vp6-and-a-novel-nsp2-genotype
#14
Giovanni Ianiro, Ilaria Di Bartolo, Luca De Sabato, Guglielmo Pampiglione, Franco M Ruggeri, Fabio Ostanello
Rotavirus is one of the leading causes of acute gastroenteritis in infants and young children. RVAs infect not only humans but also a wide range of mammals including rats, which represent a reservoir of several other zoonotic pathogens. Due to the segmented nature of the RVA genome, animal RVA strains can easily adapt to the human host by reassortment with co-infecting human viruses. This study aims to detect and characterize RVA in the intestinal content of Italian sinantropic rats (Rattus rattus). Out of 40 samples examined following molecular approach, one resulted positive for RVA...
June 8, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28603022/variation-analysis-of-norovirus-among-children-with-diarrhea-in-rural-hebei-province-north-of-china
#15
Niu Qiao, Song-Mei Wang, Jin-Xia Wang, Bin Kang, Shan-Shan Zhen, Xin-Jiang Zhang, Zhi-Yong Hao, Jing-Chen Ma, Chao Qiu, Yu-Liang Zhao, Lei Liu, Xuan-Yi Wang
To understand the distribution of genotyping, as well as evolution of norovirus circulating among children<5yrs., a population-based diarrhea surveillance targeted children<5yrs. was conducted in rural Zhengding County, Hebei Province, China between October 2011 and March 2012. RT-PCR was used to amplify the capsid-encoding region of GI and GII norovirus to identify norovirus infection. All PCR products were sequenced and analyzed for genotyping and constructing phylogenetic tree. Dynamic distribution network was constructed by TempNet to illustrate the genetic relationships at two different time points...
June 7, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28600216/molecular-epidemiology-and-antibiotic-resistance-of-methicillin-resistant-staphylococcus-aureus-circulating-in-the-russian-federation
#16
Vladimir Gostev, Alexander Kruglov, Olga Kalinogorskaya, Olga Dmitrenko, Olga Khokhlova, Tatsuo Yamamoto, Yuri Lobzin, Irina Ryabchenko, Sergey Sidorenko
The aim of this study was to investigate the patterns of antimicrobial resistance and molecular features of methicillin-resistant Staphylococcus aureus (MRSA) isolates in Russia. Isolates recovered from hospital patients (n=480), healthy medical personnel (n=25), and healthy carriers (n=13) were included in the study. Hospital-acquired MRSA (HA-MRSA) demonstrated high resistance to ciprofloxacin, gentamicin, and chloramphenicol (76%-92%), moderate - to tetracycline, erythromycin, clindamycin, and rifampicin (38%-54%), and low - to fusidic acid, co-trimoxazole, mupirocin, and daptomycin (2%-7%)...
June 7, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28600217/limited-genetic-diversity-in-the-global-plasmodium-vivax-cell-traversal-protein-of-ookinetes-and-sporozoites-celtos-sequences-implications-for-pvceltos-based-vaccine-development
#17
Akram Abouie Mehrizi, Fatemeh Torabi, Sedigheh Zakeri, Navid Dinparast Djadid
Cell traversal protein of Ookinetes and Sporozoites (CelTOS) is a new malaria vaccine candidate antigen. Since one of the main challenges in malaria vaccine development is the extensive antigenic diversity of this parasite, local and global gene diversity analysis is of particular importance. Therefore, in this study, the genetic diversity of pvceltos gene was investigated among Iranian P. vivax isolates (n=46) and compared with available worldwide pvceltos sequences. One synonymous (C109A) and three amino acid replacements (V118L, K178T, and G179R) were observed in Iranian pvceltos sequences in compare with Sal-1 sequence leading to five haplotypes including PvCelt-A (GSVKGL, 13%), PvCelt-B (GSLKGL, 50%), PvCelt-C (GSLTGL, 17...
June 6, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28583867/geographical-distribution-of-toxoplasma-gondii-genotypes-in-asia-a-link-with-neighboring-continents
#18
REVIEW
P Chaichan, A Mercier, L Galal, A Mahittikorn, F Ariey, S Morand, F Boumédiène, R Udonsom, A Hamidovic, J B Murat, Y Sukthana, M L Dardé
Defining the pattern of genetic diversity of Toxoplasma gondii is important to understand its worldwide distribution. During the last decades, a large number of studies have been published on Toxoplasma genotypes circulating in Europe, in North and South America. Two continents are still largely unexplored, Africa and, to a less extent, Asia. In this last continent, an increasing number of publications reported genotypes circulating in diverse provinces of China, but very few data are available for other Asian countries...
June 3, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28579527/role-of-il28b-genotype-in-the-liver-stiffness-increase-in-untreated-patients-with-chronic-hepatitis-c
#19
Lucio Boglione, Jessica Cusato, Giuseppe Cariti, Giovanni Di Perri, Antonio D'Avolio
The role of interleukin (IL)28B has been deepened in the treatment response to pegylated-interferon in patients affected by chronic hepatitis C (CHC). However, recently the IL28B genotypes were also related to hepatic fibrosis progression in untreated patients, using the liver biopsy. The aim of this prospective and longitudinal study was to assess the role of different IL28B genotypes in the liver stiffness progression in a cohort of untreated subjects affected by CHC. We included in this analysis all untreated patients affected by CHC and followed for at least 5years with the annual evaluation of liver stiffness using Fibroscan®...
June 1, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28579526/overview-of-human-genetic-susceptibility-to-malaria-from-parasitemia-control-to-severe-disease
#20
Sandrine Marquet
Malaria is a life-threatening blood disease caused by the protozoan Plasmodium. Infection may lead to several different patterns of symptoms in the host: asymptomatic state, uncomplicated disease or severe disease. Severe malaria occurs mostly in young children and is a major cause of death. Disease is thought to result from the sequestration of parasites in the small blood vessels of the brain and the deregulation of key immune system elements. The cellular and molecular regulatory mechanisms underlying the pathogenesis of disease are however not fully understood...
June 1, 2017: Infection, Genetics and Evolution
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