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Zika mutate

Jonathan S Gootenberg, Omar O Abudayyeh, Max J Kellner, Julia Joung, James J Collins, Feng Zhang
Rapid detection of nucleic acids is integral for clinical diagnostics and biotechnological applications. We recently developed a platform termed SHERLOCK (<u>S</u>pecific<u>H</u>igh Sensitivity<u>E</u>nzymatic<u>R</u>eporter Un<u>LOCK</u>ing) that combines isothermal pre-amplification with Cas13 to detect single molecules of RNA or DNA. Through characterization of CRISPR enzymology and application development, we report here four advances integrated into SHERLOCKv2: 1) 4-channel single reaction multiplexing using orthogonal CRISPR enzymes; 2) quantitative measurement of input down to 2 aM; 3) 3...
February 15, 2018: Science
Dechun Lin, Liqiang Li, Tian Xie, Qingqing Yin, Nitin Saksena, Rangke Wu, Wanyu Li, Geyang Dai, Jinmin Ma, Xiaohong Zhou, Xiao-Guang Chen
A comprehensive demonstration of Zika virus (ZIKV) molecular evolution is essential for understanding its adaptation and expansion in its recent pandemics. Despite several studies on mutations and codon usage in ZIKVs, the variations in codon usage patterns across individual genes and their biological implication remains unclear. Here, we performed a gene-by-gene comparison of the codon usage variation in ZIKVs of the African and Asian lineages. We found that besides the evidence of positive selection (Ka/Ks > 1) in the Asian lineage of the ZIKV genome, codon usage patterns were gene-specific and codon usage variation of ZIKV genes, was possibly constrained by their individual functional features, such as transmembrane domains, or antigenicity...
February 8, 2018: Virus Research
Andres Moreira-Soto, Maria Celeste Torres, Marcos Cesar Lima de Mendonça, Maria Angelica Mares-Guia, Cintia Damasceno Dos Santos Rodrigues, Allison Fabri, Carolina Cardoso Dos Santos, Eliane Saraiva Machado Araújo, Carlo Fischer, Rita Maria Ribeiro Nogueira, Christian Drosten, Patricia Carvalho Sequeira, Jan Felix Drexler, Ana Maria Bispo de Filippis
OBJECTIVE: Since December 2016, Brazil has experienced an unusually large outbreak of yellow fever (YF). Whether urban transmission may contribute to the extent of the outbreak is unclear. The objective of this study was to characterize yellow fever virus (YFV) genomes and to identify spatial patterns to determine the distribution and origin of YF cases in Minas Gerais, Espírito Santo and Rio de Janeiro, the most affected Brazilian states during the current YFV outbreak. METHODS: We characterized near-complete YFV genomes from 14 human cases and two non-human primates (NHP), sampled from February to April 2017, retrieved epidemiological data of cases and used a geographic information system to investigate geospatial spread of YFV...
February 7, 2018: Clinical Microbiology and Infection
Hongjie Xia, Huanle Luo, Chao Shan, Antonio E Muruato, Bruno T D Nunes, Daniele B A Medeiros, Jing Zou, Xuping Xie, Maria Isabel Giraldo, Pedro F C Vasconcelos, Scott C Weaver, Tian Wang, Ricardo Rajsbaum, Pei-Yong Shi
Virus-host interactions determine an infection outcome. The Asian lineage of Zika virus (ZIKV), responsible for the recent epidemics, has fixed a mutation in the NS1 gene after 2012 that enhances mosquito infection. Here we report that the same mutation confers NS1 to inhibit interferon-β induction. This mutation enables NS1 binding to TBK1 and reduces TBK1 phosphorylation. Engineering the mutation into a pre-epidemic ZIKV strain debilitates the virus for interferon-β induction; reversing the mutation in an epidemic ZIKV strain invigorates the virus for interferon-β induction; these mutational effects are lost in IRF3-knockout cells...
January 29, 2018: Nature Communications
Hongjie Xia, Xuping Xie, Chao Shan, Pei-Yong Shi
A number of mechanisms have driven the explosive epidemics and severe diseases of Zika virus since 2007. Here, we comment on how herd immunity, heterologous flavivirus preimmunity, and viral mutations could enhance the epidemic potential and disease severity of Zika virus in humans.
January 22, 2018: ACS Infectious Diseases
Jason R Miller, Sergey Koren, Kari A Dilley, Vinita Puri, David M Brown, Derek M Harkins, Françoise Thibaud-Nissen, Benjamin Rosen, Xiao-Guang Chen, Zhijian Tu, Igor V Sharakhov, Maria V Sharakhova, Robert Sebra, Timothy B Stockwell, Nicholas H Bergman, Granger G Sutton, Adam M Phillippy, Peter M Piermarini, Reed S Shabman
Background: The 50-year old Aedes albopictus C6/36 cell line is a resource for the detection, amplification, and analysis of mosquito-borne viruses including Zika, dengue, and chikungunya. The cell line is derived from an unknown number of larvae from an unspecified strain of Aedes albopictus mosquitoes. Toward improved utility of the cell line for research in virus transmission, we present an annotated assembly of the C6/36 genome. Results: The C6/36 genome assembly has the largest contig N50 (3...
January 10, 2018: GigaScience
Yiji Li, Jiabao Xu, Daibin Zhong, Hong Zhang, Wenqiang Yang, Guofa Zhou, Xinghua Su, Yang Wu, Kun Wu, Songwu Cai, Guiyun Yan, Xiao-Guang Chen
BACKGROUND: Aedes albopictus (Skuse) is an invasive mosquito that has become an important vector of chikungunya, dengue and Zika viruses. In the absence of specific antiviral therapy or a vaccine, vector management is the sole method available for reducing Aedes-induced disease morbidity. Determining the resistance status of Ae. albopictus to insecticides and exploring the resistance mechanisms is essential for future vector control planning. METHODS: Aedes albopictus larvae and pupae were sampled from six sites (two sites each from urban, suburban and rural) in Guangzhou...
January 3, 2018: Parasites & Vectors
Se-Ran Jun, Trudy M Wassenaar, Visanu Wanchai, Preecha Patumcharoenpol, Intawat Nookaew, David W Ussery
BACKGROUND: Zika virus (ZIKV) is an emerging human pathogen. Since its arrival in the Western hemisphere, from Africa via Asia, it has become a serious threat to pregnant women, causing microcephaly and other neuropathies in developing fetuses. The mechanisms behind these teratogenic effects are unknown, although epidemiological evidence suggests that microcephaly is not associated with the original, African lineage of ZIKV. The sequences of 196 published ZIKV genomes were used to assess whether recently proposed mechanistic explanations for microcephaly are supported by molecular level changes that may have increased its virulence since the virus left Africa...
December 28, 2017: BMC Bioinformatics
Hiroki Ozawa, Shigeru Tajima, Eri Nakayama, Kengo Kato, Akifumi Yamashita, Tsuyoshi Sekizuka, Makoto Kuroda, Shuzo Usuku
  Zika virus (ZIKV) infection has been documented within Central and South America, Asia, and Africa. Here we report the isolation of virus from a patient infected with ZIKV returning to Japan from the Dominican Republic. The ZIKV strain was imaged by electron microscopy and its complete genome sequence was analyzed. Phylogenetic analysis and molecular characterization revealed that the strain was of the Asian lineage, and carried two unique mutations in its NS5 region. These mutations are characteristic of strains that originated in the Dominican Republic and the USA in 2016...
December 26, 2017: Japanese Journal of Infectious Diseases
Farhadul Islam, Vinod Gopalan, Alfred King-Yin Lam
FAM134B (family with sequence similarity 134, member B)/RETREG1 and its functional roles are relatively new in human diseases. This review aimed to summarize various functions of FAM134B since our first discovery of the gene in 2001. The protein encoded by FAM134B is a reticulophagy receptor that regulates turnover of the endoplasmic reticulum (ER) by selective phagocytosis. Absence or non-functional expression of FAM134B protein impairs ER-turnover and thereby is involved in the pathogenesis of some human diseases...
June 2018: Journal of Cellular Physiology
Kei Sato, Naoko Misawa, Junko S Takeuchi, Tomoko Kobayashi, Taisuke Izumi, Hirofumi Aso, Shumpei Nagaoka, Keisuke Yamamoto, Izumi Kimura, Yoriyuki Konno, Yusuke Nakano, Yoshio Koyanagi
Human immunodeficiency virus type 1 (HIV-1), the causative agent of AIDS, originated from simian immunodeficiency virus from chimpanzees (SIVcpz), the precursor of the human virus, approximately 100 years ago. This indicates that HIV-1 has emerged through the cross-species transmission of SIVcpz from chimpanzees to humans. However, it remains unclear how SIVcpz has evolved into pandemic HIV-1 in humans. To address this question, we inoculated three SIVcpz strains (MB897, EK505, and MT145), four pandemic HIV-1 strains (NL4-3, NLCSFV3, JRCSF, and AD8), and two nonpandemic HIV-1 strains (YBF30 and DJO0131)...
February 15, 2018: Journal of Virology
Siddiq Ur Rahman, Xiaoting Yao, Xiangchen Li, Dekun Chen, Shiheng Tao
Crimean-Congo hemorrhagic fever virus (CCHFV) is a negative-sense, single stranded RNA virus with a three-segmented genome that belongs to the genus Nairovirus within the family Bunyaviridae. CCHFV uses Hyalomma ticks as a vector to infect humans with a wide range of clinical signs, from asymptomatic to Zika-like syndrome. Despite significant progress in genomic analyses, the influences of viral relationships with different hosts on overall viral fitness, survival, and evading the host's immune systems remain unknown...
March 2018: Infection, Genetics and Evolution
Charlotte Ridler
No abstract text is available yet for this article.
January 2018: Nature Reviews. Neurology
Fumihiro Kato, Shigeru Tajima, Eri Nakayama, Yasuhiro Kawai, Satoshi Taniguchi, Kenichi Shibasaki, Masakatsu Taira, Takahiro Maeki, Chang Kweng Lim, Tomohiko Takasaki, Masayuki Saijo
An Asian/American lineage Zika virus (ZIKV) strain ZIKV/Hu/S36/Chiba/2016 formed 2 types in plaque size, large and small. Genomic analysis of the plaque-forming clones obtained from the isolate indicated that the clones forming small plaques commonly had an adenine nucleotide at position 796 (230Gln in the amino acid sequence), while clones forming large plaques had a guanine nucleotide (230Arg ) at the same position, suggesting that this position was associated with the difference in plaque size. Growth kinetics of a large-plaque clone was faster than that of a small-plaque clone in Vero cells...
November 23, 2017: Scientific Reports
Alexandra Rockstroh, Beyene Moges, Luisa Barzon, Alessandro Sinigaglia, Giorgio Palù, Widuranga Kumbukgolla, Jonas Schmidt-Chanasit, Manoel Sarno, Carlos Brites, Andres Moreira-Soto, Jan Felix Drexler, Orlando C Ferreira, Sebastian Ulbert
Detection of antibodies is widely used for the diagnosis of infections with arthropod-borne flaviviruses including dengue (DENV) and Zika virus (ZIKV). Due to the emergence of ZIKV in areas endemic for DENV, massive co-circulation is observed and methods to specifically diagnose these infections and differentiate them from each other are mandatory. However, serological assays for flaviviruses in general, and for DENV and ZIKV in particular, are compromised by the high degree of similarities in their proteins which can lead to cross-reacting antibodies and false-positive test results...
November 8, 2017: Emerging Microbes & Infections
Basile Kamgang, Aurelie P Yougang, Micareme Tchoupo, Jacob M Riveron, Charles Wondji
BACKGROUND: Aedes aegypti and Ae. albopictus are the major epidemic vectors of several arbovirus diseases such as yellow fever, dengue, Zika and chikungunya worldwide. Both Aedes vectors are presents in Cameroon; however, knowledge on the dynamic of the distribution of these species across cities and their resistance profile to insecticide are limited. Here, we assessed the current distribution of Ae. aegypti and Ae. albopictus in Yaoundé, the Capital City, established the resistance profile to insecticides and explored the resistance mechanisms involved...
October 10, 2017: Parasites & Vectors
Diogo M Magnani, Thomas F Rogers, Nathan Beutler, Michael J Ricciardi, Varian K Bailey, Lucas Gonzalez-Nieto, Bryan Briney, Devin Sok, Khoa Le, Alexander Strubel, Martin J Gutman, Núria Pedreño-Lopez, Nathan D Grubaugh, Cassia G T Silveira, Helen S Maxwell, Aline Domingues, Mauricio A Martins, David E Lee, Erica E Okwuazi, Sherrie Jean, Elizabeth A Strobert, Ann Chahroudi, Guido Silvestri, Thomas H Vanderford, Esper G Kallas, Ronald C Desrosiers, Myrna C Bonaldo, Stephen S Whitehead, Dennis R Burton, David I Watkins
Therapies to prevent maternal Zika virus (ZIKV) infection and its subsequent fetal developmental complications are urgently required. We isolated three potent ZIKV-neutralizing monoclonal antibodies (nmAbs) from the plasmablasts of a ZIKV-infected patient-SMZAb1, SMZAb2, and SMZAb5-directed against two different domains of the virus. We engineered these nmAbs with Fc LALA mutations that abrogate Fcγ receptor binding, thus eliminating potential therapy-mediated antibody-dependent enhancement. We administered a cocktail of these three nmAbs to nonhuman primates 1 day before challenge with ZIKV and demonstrated that the nmAbs completely prevented viremia in serum after challenge...
October 4, 2017: Science Translational Medicine
Ling Yuan, Xing-Yao Huang, Zhong-Yu Liu, Feng Zhang, Xing-Liang Zhu, Jiu-Yang Yu, Xue Ji, Yan-Peng Xu, Guanghui Li, Cui Li, Hong-Jiang Wang, Yong-Qiang Deng, Menghua Wu, Meng-Li Cheng, Qing Ye, Dong-Yang Xie, Xiao-Feng Li, Xiangxi Wang, Weifeng Shi, Baoyang Hu, Pei-Yong Shi, Zhiheng Xu, Cheng-Feng Qin
Zika virus (ZIKV) has evolved into a global health threat because of its unexpected causal link to microcephaly. Phylogenetic analysis reveals that contemporary epidemic strains have accumulated multiple substitutions from their Asian ancestor. Here we show that a single serine-to-asparagine substitution [Ser139→Asn139 (S139N)] in the viral polyprotein substantially increased ZIKV infectivity in both human and mouse neural progenitor cells (NPCs) and led to more severe microcephaly in the mouse fetus, as well as higher mortality rates in neonatal mice...
November 17, 2017: Science
Akane Urakami, Mya Myat Ngwe Tun, Meng Ling Moi, Atsuko Sakurai, Momoko Ishikawa, Sachiko Kuno, Ryuji Ueno, Kouichi Morita, Wataru Akahata
Dengue viruses (DENV) infect 50 to 100 million people each year. The spread of DENV-associated infections is one of the most serious public health problems worldwide, as there is no widely available vaccine or specific therapeutic for DENV infections. To address this, we developed a novel tetravalent dengue vaccine by utilizing virus-like particles (VLPs). We created recombinant DENV1 to -4 (DENV1-4) VLPs by coexpressing precursor membrane (prM) and envelope (E) proteins, with an F108A mutation in the fusion loop structure of E to increase the production of VLPs in mammalian cells...
December 1, 2017: Journal of Virology
Arun S Annamalai, Aryamav Pattnaik, Bikash R Sahoo, Ezhumalai Muthukrishnan, Sathish Kumar Natarajan, David Steffen, Hiep L X Vu, Gustavo Delhon, Fernando A Osorio, Thomas M Petro, Shi-Hua Xiang, Asit K Pattnaik
Zika virus (ZIKV), a mosquito-transmitted flavivirus, responsible for sporadic outbreaks of mild and febrile illness in Africa and Asia, re-emerged in the last decade causing serious human diseases including microcephaly, congenital malformations, and Guillain-Barré syndrome. Although genomic and phylogenetic analyses suggest that genetic evolution may have led to enhanced virulence of ZIKV, experimental evidence supporting the role of specific genetic changes in virulence is currently outstanding. One sequence motif, VNDT, containing an N-linked glycosylation site in the envelope (E) protein, is polymorphic, being absent in many of the African isolates while present in all isolates from the recent outbreaks...
September 20, 2017: Journal of Virology
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