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    Molecular cloning and functional analysis of tumor necrosis factor receptor-associated factor 6 (TRAF6) in Crossastrea gigas.
    Fish Shellfish Immunol 2017 Jun 22. Epub 2017 Jun 22.
    Key Laboratory of Tropical Marine Bio-resources and Ecology and Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Science, Guangzhou 510301, China; South China Sea Bio-Resource Exploitation and Utilization Collaborative Innovation Center, Guangzhou 510275, China. Electronic address:
    Tumor necrosis factor receptor-associated factor 6 (TRAF6) has been demonstrated to be a key signaling molecule involved in adaptive and innate immunity. In this study, we obtained the full length CgTRAF6 cDNA and analyzed the characteristics of the ORF and the peptide sequence in Crassostrea gigas. The deduced protein sequence of CgTRAF6 includes a conserved C-terminal TRAF domain following the RING and the zinc finger domain. Read More

    Genetic determinant of Bacillus pumilus lipase lethality and its application as positive selection cloning vector in Escherichia coli.
    Protein Expr Purif 2017 Jun 22. Epub 2017 Jun 22.
    Department of Microbial, Biochemical and Food Biotechnology, University of the Free State, P.O. Box 339, Bloemfontein, 9300, South Africa; CSIR Biosciences, P.O. Box 395, Pretoria, 0001, South Africa; Onderstepoort Biological Products SOC Ltd, Private Bag X07, Onderstepoort, 0110, South Africa. Electronic address:
    Positive selection vectors carry genes that upon expression produce proteins that cause host cell deaths. Insertion of foreign DNA fragments within the ORF of the gene disrupts the lethal effect of the expressed protein. This study described the cloning of Family I. Read More

    Isogenic mutations in the Moraxella catarrhalis CydDC system display pleiotropic phenotypes and reveal the role of a palindrome sequence in its transcriptional regulation.
    Microbiol Res 2017 Sep 9;202:71-79. Epub 2017 Jun 9.
    Department of Microbiology and Immunology, Faculty of Pharmacy, Cairo University, Cairo, 11562, Egypt. Electronic address:
    Moraxella catarrhalis is becoming an important human respiratory tract pathogen affecting significant proportions from the population. However, still little is known about its physiology and molecular regulation. To this end, the CydDC, which is a heterodimeric ATP binding cassette transporter that has been shown to contribute to the maintenance of the redox homeostasis across the periplasm in other Gram-negative bacteria, is studied here. Read More

    Fluorescence-Based Reporters for Detection of Mutagenesis in E. coli.
    Methods Enzymol 2017 9;591:159-186. Epub 2017 Jun 9.
    University of California-Santa Cruz, Santa Cruz, CA, United States. Electronic address:
    Mutagenesis in model organisms following exposure to chemicals is used as an indicator of genotoxicity. Mutagenesis assays are also used to study mechanisms of DNA homeostasis. This chapter focuses on detection of mutagenesis in prokaryotes, which boils down to two approaches: reporter inactivation (forward mutation assay) and reversion of an inactivating mutation (reversion mutation assay). Read More

    Identification and comparison of RCMV ALL 03 open reading frame (ORF) among several different strains of cytomegalovirus worldwide.
    Infect Genet Evol 2017 Jun 19;54:81-90. Epub 2017 Jun 19.
    Department of Pathology and Microbiology, Faculty of Veterinary Medicine, Universiti Putra Malaysia, 43400 Serdang, Selangor D.E, Malaysia; Institute of Bioscience, University Putra, 43400 Serdang, Selangor D.E, Malaysia. Electronic address:
    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. Read More

    Specific Increase of Protein Levels by Enhancing Translation Using Antisense Oligonucleotides Targeting Upstream Open Frames.
    Adv Exp Med Biol 2017 ;983:129-146
    Department of Core Antisense Research, Ionis Pharmaceuticals, Inc., 2855 Gazelle Court, Carlsbad, CA, 92010, USA.
    A number of diseases are caused by low levels of key proteins; therefore, increasing the amount of specific proteins in human bodies is of therapeutic interest. Protein expression is downregulated by some structural or sequence elements present in the 5' UTR of mRNAs, such as upstream open reading frames (uORF). Translation initiation from uORF(s) reduces translation from the downstream primary ORF encoding the main protein product in the same mRNA, leading to a less efficient protein expression. Read More

    Isolation and Abiotic Stress Resistance Analyses of a Catalase Gene from Ipomoea batatas (L.) Lam.
    Biomed Res Int 2017 30;2017:6847532. Epub 2017 May 30.
    College of Life Sciences, Sichuan Normal University, Chengdu, Sichuan 610101, China.
    As an indicator of the antioxidant capability of plants, catalase can detoxify reactive oxygen species (ROS) generated by environmental stresses. Sweet potato is one of the top six most important crops in the world. However, its catalases remain largely unknown. Read More

    Systemic interferon alfa injections for the treatment of a giant orf.
    Cutis 2017 May;99(5):E19-E21
    Department of Dermatology, Istanbul Training and Research Hospital, Turkey.
    Orf is a zoonotic infection caused by a parapoxvirus and is endemic in sheep and goats. It may be transmitted to humans by direct contact with infected animals. We report a case of a giant orf in a patient with chronic lymphocytic leukemia (CLL), which proliferated dramatically after surgical excision and resolved after systemic interferon alfa-2a injections. Read More

    A 32 kDa viral attachment protein of lymphocystis disease virus (LCDV) specifically interacts with a 27.8 kDa cellular receptor from flounder (Paralichthys olivaceus).
    J Gen Virol 2017 Jun 20. Epub 2017 Jun 20.
    1​Laboratory of Pathology and Immunology of Aquatic Animals, KLM, Ocean University of China, 5 Yushan Road, Qingdao 266003, PR China.
    The 27.8 kDa protein in flounder gill (FG) cells was previously proved to be a receptor specific for lymphocystis disease virus (LCDV) entry and infection. In this paper, a 32 kDa viral attachment protein (VAP) of LCDV specifically binding to the 27. Read More

    Molecular Characterisation of a Novel Isoform of Hepatic Antimicrobial Peptide, Hepcidin (Le-Hepc), from Leiognathus equulus and Analysis of Its Functional Properties In Silico.
    Probiotics Antimicrob Proteins 2017 Jun 19. Epub 2017 Jun 19.
    Department of Marine Biology, Microbiology and Biochemistry, School of Marine Sciences, Cochin University of Science and Technology, Fine Arts Avenue, Kochi, Kerala, 682016, India.
    Hepcidin represents a family of cysteine-rich antimicrobial peptides that are mainly expressed in the liver of living organisms. In this study, we have identified and characterised a novel isoform of hepcidin from the common pony fish, Leiognathus equulus (Le-Hepc). A 261-bp fragment cDNA coding for 86 amino acids was obtained. Read More

    Characterization of an orf virus isolate from an outbreak in Heilongjiang province, China.
    Arch Virol 2017 Jun 19. Epub 2017 Jun 19.
    Virology Laboratory, College of Biological Science and Technology, Heilongjiang Bayi Agricultural University, 2 Xinyang road, Daqing, 163319, China.
    Contagious ecthyma, caused by orf virus (ORFV), is an epitheliotrophic contagious disease with zoonotic implications that mainly affects sheep, goats, wild ruminants, and humans. Recently, a novel ORFV strain, OV/HLJ/04, was successfully isolated from the skin and mucosal lesions of a goat with severe clinical sore mouth symptoms in Heilongjiang province of China. The OV/HLJ/04 isolate was characterized by electron microscopy, serological tests, and experimental reproduction of disease. Read More

    A prokaryotic viral sequence is expressed and conserved in mammalian brain.
    Proc Natl Acad Sci U S A 2017 Jun 19. Epub 2017 Jun 19.
    Section of Neuropathology, Yale University Medical School, New Haven, CT 06510
    A natural and permanent transfer of prokaryotic viral sequences to mammals has not been reported by others. Circular "SPHINX" DNAs <5 kb were previously isolated from nuclease-protected cytoplasmic particles in rodent neuronal cell lines and brain. Two of these DNAs were sequenced after Φ29 polymerase amplification, and they revealed significant but imperfect homology to segments of commensal Acinetobacter phage viruses. Read More

    Small proteins encoded by unannotated ORFs are rising stars of the proteome, confirming shortcomings in genome annotations and current vision of an mRNA.
    Proteomics 2017 Jun 19. Epub 2017 Jun 19.
    Department of Biochemistry, Université de Sherbrooke, Quebec, Canada.
    Short ORF-encoded peptides and small proteins in eukaryotes have been hiding in the shadow of large proteins for a long time. Recently, improved identifications in MS-based proteomics and ribosome profiling resulted in the detection of large numbers of small proteins. The variety of functions of small proteins is also emerging. Read More

    The Irr and RirA proteins participate in a complex regulatory circuit and act in concert to modulate bacterioferritin expression in Ensifer meliloti 1021.
    Appl Environ Microbiol 2017 Jun 16. Epub 2017 Jun 16.
    Biochemical and Microbial Genomics Department, Instituto de Investigaciones Biológicas Clemente Estable, MEC, Montevideo, Uruguay
    In this work we found that the bfr gene of the rhizobial species Ensifer meliloti, encoding a bacterioferritin iron storage protein, is involved in iron homeostasis and oxidative stress response. This gene is located downstream and overlapping the smc03787 ORF. No well predicted RirA or Irr boxes were found in the region immediately upstream the bfr gene although two presumptive RirA boxes and one presumptive Irr box were present in the putative promoter of smc03787 We demonstrate that bfr gene expression is enhanced under iron sufficient condition and that Irr and RirA modulate this expression. Read More

    Periplasmic Nicotine Dehydrogenase NdhAB Utilizes Pseudoazurin as Its Physiological Electron Acceptor in Agrobacterium tumefaciens S33.
    Appl Environ Microbiol 2017 Jun 16. Epub 2017 Jun 16.
    State Key Laboratory of Microbial Technology, School of Life Science, Shandong University, Jinan, People's Republic of China,
    Agrobacterium tumefaciens S33 can grow with nicotine as the sole source of carbon, nitrogen, and energy via a novel hybrid of the pyridine pathway and the pyrollidine pathway. Characterization of the enzymes involved in the hybrid pathway is important for understanding its biochemical mechanism. Here we report that the molybdenum-containing nicotine dehydrogenase (NdhAB), which catalyzes the initial step of nicotine degradation, is located in the periplasm of strain S33, while the 6-hydroxynicotine oxidase and 6-hydroxypseudooxynicoine oxidase are in the cytoplasm. Read More

    Expression analyses of salinity stress- associated ESTs in Aeluropus littoralis.
    Gene Expr Patterns 2017 Jun 15;25-26:76-84. Epub 2017 Jun 15.
    Department of Genetics and Evolution, School of Biological Sciences, The University of Adelaide, Adelaide, Australia; Institute of Biotechnology, Shiraz University, Shiraz, Iran. Electronic address:
    Salinity is among the most important abiotic stresses affecting crop production throughout the earth. Halophyte plants can sustain high salinity levels, therefore elucidating molecular mechanisms underlying their salinity resistance is beneficial for crop improvement. Aeluropus littoralis, a halophyte weed, is a great genetic resource for this purpose. Read More

    Molecular identification and characterization of haptoglobin in teleosts revealed an important role on fish viral infections.
    Dev Comp Immunol 2017 Jun 16;76:189-199. Epub 2017 Jun 16.
    Fish Innate Immune System Group, Department of Cell Biology and Histology, Faculty of Biology, Regional Campus of International Excellence "Campus Mare Nostrum", University of Murcia, Murcia 30100, Spain. Electronic address:
    Haptoglobin (Hp) molecule has been cloned and characterized in two marine teleosts (gilthead seabream and European sea bass), obtaining putative proteins of 319 residues encoded by an ORF of 960 bp in both species. However, the matrix of similarity revealed low identities among bony fish species 78.9% (seabream-sea bass), 43% (seabream/seabass-zebrafish) and lower than 20% with sharks and human. Read More

    A novel immune-related gene HDD1 of silkworm Bombyx mori is involved in bacterial response.
    Mol Immunol 2017 Jun 14;88:106-115. Epub 2017 Jun 14.
    State Key Laboratory of Silkworm Genome Biology, The Institute of Sericulture and Systems Biology, Southwest University, Chongqing 400716, China. Electronic address:
    Insects have evolved an effective immune system to respond to various challenges. In this study, a novel immune-related gene, called BmHDD1, was first charactered in silkworm, Bombyx mori. BmHDD1 contained an ORF of 837bp and encoding a deduced protein of 278 amino acids. Read More

    Yeast One- and Two-Hybrid High-Throughput Screenings Using Arrayed Libraries.
    Methods Mol Biol 2017 ;1629:47-65
    Centro de Biotecnología y Genómica de Plantas (UPM-INIA), Universidad Politécnica de Madrid, Campus de Montegancedo, Pozuelo de Alarcón, 28223, Madrid, Spain.
    Since their original description more than 25 years ago, the yeast one- and two-hybrid systems (Y1H/Y2H) have been used by many laboratories to detect DNA-protein (Y1H) and protein-protein interactions (Y2H). These systems use yeast cells (Saccharomyces cerevisiae) as a eukaryotic "test tube" and are amenable for most labs in the world. The development of highly efficient cloning methods has fostered the generation of large collections of open reading frames (ORFs) for several organisms that have been used for yeast screenings. Read More

    Diagnosis and phylogenetic analysis of a multifocal cutaneous orf virus with mixed bacterial infection outbreak in goats in Fujian province, China.
    Arch Virol 2017 Jun 16. Epub 2017 Jun 16.
    Department of Laboratory Medicine, School of Stomatology and Medicine, Foshan University, Foshan, 528000, Guangdong, People's Republic of China.
    Outbreaks of orf virus on goat farms are common in China. In this study, we investigated a severe multifocal cutaneous orf virus outbreak with a correlative mixed bacterial infection which persisted for up to 6 months, and which had a high morbidity (93.7%) and mortality (15%) among kids in a herd of crossbreed goats in Fujian province in China. Read More

    Cyclophilin B facilitates the replication of Orf virus.
    Virol J 2017 Jun 15;14(1):114. Epub 2017 Jun 15.
    College of Veterinary Medicine, Jilin University, 5333 Xi'an Road, Changchun, 130062, China.
    Background: Viruses interact with host cellular factors to construct a more favourable environment for their efficient replication. Expression of cyclophilin B (CypB), a cellular peptidyl-prolyl cis-trans isomerase (PPIase), was found to be significantly up-regulated. Recently, a number of studies have shown that CypB is important in the replication of several viruses, including Japanese encephalitis virus (JEV), hepatitis C virus (HCV) and human papillomavirus type 16 (HPV 16). Read More

    Molecular cloning and analysis of a C-type lectin from silkworm Bombyx mori.
    Arch Insect Biochem Physiol 2017 Jul 15;95(3). Epub 2017 Jun 15.
    School of Plant Protection, Anhui Agricultural University, Hefei, China.
    C-type lectins (CTLs) play a variety of roles in plants and animals. They are involved in animal development, pathogen recognition, and the activation of immune responses. CTLs carry one or more non-catalytic carbohydrate-recognition domains (CRDs) to bind specific carbohydrates reversibly. Read More

    Lactobacillus futsaii CS3, a New GABA-Producing Strain Isolated from Thai Fermented Shrimp (Kung-Som).
    Indian J Microbiol 2017 Jun 22;57(2):211-217. Epub 2016 Nov 22.
    Biotechnology for Bioresource Utilization Laboratory, Department of Industrial Biotechnology, Faculty of Agro-Industry, Prince of Songkla University, Hat Yai, Songkhla 90112 Thailand.
    Kung-Som is a popular traditional Thai fermented shrimp product. It is rich in glutamic acid, which is the major substrate for the biosynthesis of gamma-aminobutyric acid (GABA) by lactic acid bacteria (LAB). In the present study, LAB from Kung-Som were isolated, screened for GABA formation, and the two isolates that transform glutamic acid most efficiently into GABA were identified. Read More

    Transcriptional response of a novel HpCDPK1 kinase gene from Hippeastrum x hybr. to wounding and fungal infection.
    J Plant Physiol 2017 Jun 1;216:108-117. Epub 2017 Jun 1.
    Nicolas Copernicus University, Chair of Plant Physiology and Biotechnology, Lwowska St. 1, PL 87-100 Torun, Poland. Electronic address:
    Calcium dependent protein kinases (CDPK) are well established plant sensor and effectors for calcium ions and participate in regulation of multiple abiotic and biotic stress responses in plant cells. Here we present the identification and characterization of a new CDPK kinase gene from bulbous plant Hippeastrum x hybr. and examine the role of this kinase in stress responses leading to phytoalexin (PA) production in plant tissues. Read More

    The molecular characterizations of Cu/ZnSOD and MnSOD and its responses of mRNA expression and enzyme activity to Aeromonas hydrophila or lipopolysaccharide challenge in Qihe crucian carp Carassius auratus.
    Fish Shellfish Immunol 2017 Jun 10;67:429-440. Epub 2017 Jun 10.
    College of Life Science, Henan Normal University, Henan province, PR China.
    Superoxide dismutases (SODs), as the prime antioxidant enzymes, present the first line of defense against oxidative stress caused by excessive reactive oxygen species (ROS) in organism. In the study, two distinct members of SOD family were cloned and analyzed in Qihe crucian carp Carassius auratus (designated as CaCu/ZnSOD and CaMnSOD, respectively). The full-length cDNA of CaCu/ZnSOD is 759 bp, containing a 5' -untranslated region (UTR) of 39 bp, a ORF (including stop codon, TAG) of 465 bp and a 3'-UTR of 255 bp. Read More

    Molecular cloning, characterization and expression analysis of (B-cell lymphoma-2) Bcl-2 in the orange-spotted grouper (Epinephelus coioides).
    Dev Comp Immunol 2017 Jun 9;76:150-162. Epub 2017 Jun 9.
    Hebei Wisdom Technology Development Co., Ltd., PR China; Division of Immunology, Beckman Research Institute of the City of Hope, Duarte, CA 91010, USA.
    Bcl-2 is a pro-survival member of Bcl-2 like superfamily, playing an important role in regulating the apoptotic process. In this study, the full-length Bcl-2 (EcBcl-2) was obtained, consisting of a 5'UTR of 290 bp, an ORF of 699 bp and a 3'UTR of 920 bp. EcBcl-2 gene encoded a polypeptide of 232 amino acids with an estimated molecular mass of 26. Read More

    Molecular detection and genome analysis of circoviruses of European eel (Anguilla anguilla) and sichel (Pelecus cultratus).
    Acta Vet Hung 2017 Jun;65(2):262-277
    Institute for Veterinary Medical Research, Centre for Agricultural Research, Hungarian Academy of Sciences , P.O. Box 18, H-1581 Budapest , Hungary.
    The prevalence and distribution of piscine circoviruses (CVs) were tested in a routine virus monitoring programme in Lake Balaton, Hungary. A high prevalence of European eel CV (EeCV) was found in the apparently healthy eel population (35.5%). Read More

    The first report of prion-related protein gene (PRNT) polymorphisms in goat.
    Acta Vet Hung 2017 Jun;65(2):291-300
    Korea Zoonosis Research Institute, Chonbuk National University , 820-120, Hana-ro, Iksan, Jeonbuk 570-390 , Republic of Korea.
    Prion protein is encoded by the prion protein gene (PRNP). Polymorphisms of several members of the prion gene family have shown association with prion diseases in several species. Recent studies on a novel member of the prion gene family in rams have shown that prion-related protein gene (PRNT) has a linkage with codon 26 of prion-like protein (PRND). Read More

    FRI-2 carbapenemase-producing Enterobacter cloacae complex in the UK.
    J Antimicrob Chemother 2017 Jun 10. Epub 2017 Jun 10.
    Antimicrobial Resistance and Healthcare Associated Infections (AMRHAI) Reference Unit, National Infection Service, Public Health England, London, UK.
    Objectives: Detection of rarer carbapenemases is challenging, as it requires molecular assays with comprehensive coverage or the use of phenotypic methods for the detection of carbapenemase activity. We describe a new class A carbapenemase, FRI-2, in an Enterobacter cloacae complex isolate following implementation of an in-house multiplex PCR for the detection of 'rare' class A carbapenemases.

    Methods: MICs were determined by agar dilution. Read More

    Adaptive region-growing with maximum curvature strategy for tumor segmentation in (18)F-FDG PET.
    Phys Med Biol 2017 Jul 12;62(13):5383-5402. Epub 2017 Jun 12.
    Key Laboratory of Image Processing and Intelligent Control of Ministry of Education of China, School of Automation, Huazhong University of Science and Technology, Wuhan 430074, People's Republic of China. Department of Radiation Oncology, University of Maryland School of Medicine, Baltimore, Maryland 21201, United States of America.
    Accurate tumor segmentation in PET is crucial in many oncology applications. We developed an adaptive region-growing (ARG) algorithm with a maximum curvature strategy (ARG_MC) for tumor segmentation in PET. The ARG_MC repeatedly applied a confidence connected region-growing algorithm with increasing relaxing factor f. Read More

    Construction and Screening of a Lentiviral Secretome Library.
    Cell Chem Biol 2017 Jun 9;24(6):767-771.e3. Epub 2017 Jun 9.
    Department of Chemistry and the Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037, USA. Electronic address:
    Over 2,000 human proteins are predicted to be secreted, but the biological function of the many of these proteins is still unknown. Moreover, a number of these proteins may act as new therapeutic agents or be targets for the development of therapeutic antibodies. To further explore the extracellular proteome, we have developed a secretome-enriched open reading frame (ORF) library that can be readily screened for autocrine activity in cell-based phenotypic or reporter assays. Read More

    A C-type lectin, Nattectin-like protein (CaNTC) in Qihe crucian carp Carassius auratus: Binding ability with LPS, PGN and various bacteria, and agglutinating activity against bacteria.
    Fish Shellfish Immunol 2017 Jun 6;67:382-392. Epub 2017 Jun 6.
    College of Fisheries, Henan Normal University, Henan province, PR China.
    C-type lectins (CTLs), as the members of pattern-recognition receptors (PRRs), play the significant roles in innate immunity through binding with pathogen-associated molecular patterns (PAMPs) on the surface of microbe. In the present study, a novel CTL, Nattectin-like protein (named as CaNTC), was investigated in Qihe crucian carp Carassius auratus. The full-length cDNA of CaNTC was composed of 776 bp, with a 152 bp 5'-untranslated region (UTR), a 492 bp ORF encoding a 163-aa protein, and a 132 bp 3'-UTR with a polyadenylation signal sequence AATAAA and a poly(A) tail. Read More

    Identification and expression analysis of two pro-inflammatory cytokines, TNF-α and IL-8, in cobia (Rachycentron canadum L.) in response to Streptococcus dysgalactiae infection.
    Fish Shellfish Immunol 2017 Jun 11;67:159-171. Epub 2017 Jun 11.
    Department of Veterinary Medicine, College of Veterinary Medicine, National Pingtung University of Science and Technology, No. 1, Shuefu Road, Neipu, Pingtung 91201, Taiwan; International Degree Program of Ornamental Fish Science and Technology, International College, National Pingtung University of Science and Technology, No. 1, Shuefu Road, Neipu, Pingtung 91201, Taiwan. Electronic address:
    Tumor necrosis factor-alpha (TNF-α) and interleukin-8 (IL-8/CXCL8) play pivotal roles in mediating inflammatory responses to invading pathogens. In this study, we identified and analyzed expressions of cobia TNF-α and IL-8 during Streptococcus dysgalactiae infection. The cloned cDNA transcript of cobia TNF-α comprised of 1281 base pairs (bp), with a 774 bp open reading frame (ORF) encoding 257 amino acids. Read More

    Molecular cloning and expression analysis of major intrinsic protein gene in Chlamydomonas sp. ICE-L from Antarctica.
    Extremophiles 2017 Jul 8;21(4):817-827. Epub 2017 Jun 8.
    Key Laboratory of Marine Bioactive Substances, First Institute of Oceanography, State Oceanic Administration, Xianxialing Road 6th, Qingdao, 266061, China.
    Major intrinsic proteins (MIPs) form channels facilitating the passive transport of water and other small polar molecules across membranes. In this study, the complete open reading frame (ORF) of CiMIP1 (GenBank ID KY316061) encoding one kind of MIPs in the Antarctic ice microalga Chlamydomonas sp. ICE-L is successfully cloned using RACE. Read More

    Molecular basis of function and the unusual antioxidant activity of a cyanobacterial cysteine desulfurase.
    Biochem J 2017 Jun 7. Epub 2017 Jun 7.
    Molecular Biology Division, Bhabha Atomic Research Centre, Trombay, Anushakti nagar, Mumbai, 900085, India.
    Cysteine desulfurases, which supply sulfur for iron-sulfur cluster biogenesis, are broadly distributed in all phyla including cyanobacteria, the progenitors of plant chloroplasts. The SUF (sulfur utilization factor) system is responsible for Fe-S cluster biosynthesis under stress. The suf operon from cyanobacterium, Anabaena PCC 7120, showed the presence of a cysteine desulfurase, sufS ( alr2495 ) but not the accessory sulfur accepting protein (SufE). Read More

    Mapping of transcription termination within the S segment of SFTS phlebovirus facilitated the generation of NSs-deletant viruses.
    J Virol 2017 Jun 7. Epub 2017 Jun 7.
    MRC-University of Glasgow Centre for Virus Research, Glasgow, Scotland, United Kingdom.
    SFTS phlebovirus (severe fever with thrombocytopenia syndrome virus; SFTSV) is an emerging tick-borne bunyavirus that was first reported in China in 2009. Here we report the generation of a recombinant SFTSV (rHB29NSsKO) that cannot express the viral non-structural protein (NSs) upon infection of cells in culture. We show that rHB29NSsKO replication kinetics are greater in interferon (IFN)-incompetent cells and that the virus is unable to suppress IFN induced in response to viral replication. Read More

    Voltage-dependent anion channel 1 interacts with ribonucleoprotein complexes to enhance infectious bursal disease virus polymerase activity.
    J Virol 2017 Jun 7. Epub 2017 Jun 7.
    Division of Avian Infectious Diseases, State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, 150069, China
    Infectious bursal disease virus (IBDV) is a double-stranded RNA virus. Segment A contains two overlapping open reading frames (ORFs), which encode viral proteins VP2, VP3, VP4, and VP5. Segment B contains one ORF and encodes the viral RNA-dependent RNA polymerase, VP1. Read More

    Characterization of badnaviruses infecting Dioscorea spp. in the Pacific reveals two putative novel species and the first report of dioscorea bacilliform RT virus 2.
    Virus Res 2017 Jun 4;238:29-34. Epub 2017 Jun 4.
    Centre for Tropical Crops and Biocommodities, Queensland University of Technology (QUT), 2 George St, Brisbane, 4001, Australia. Electronic address:
    The complete genome sequences of three new badnaviruses associated with yam (Dioscorea spp.) originating from Fiji, Papua New Guinea and Samoa were determined following rolling circle amplification of the virus genomes. The full-length genomes consisted of a single molecule of circular double-stranded DNA of 8106bp for isolate FJ14, 7871bp for isolate PNG10 and 7426bp for isolate SAM01. Read More

    The 5' and 3' Untranslated Regions of the Flaviviral Genome.
    Viruses 2017 Jun 6;9(6). Epub 2017 Jun 6.
    Programme in Emerging Infectious Diseases, Duke-National University of Singapore Medical School, Singapore 169857, Singapore.
    Flaviviruses are enveloped arthropod-borne viruses with a single-stranded, positive-sense RNA genome that can cause serious illness in humans and animals. The 11 kb 5' capped RNA genome consists of a single open reading frame (ORF), and is flanked by 5' and 3' untranslated regions (UTR). The ORF is a polyprotein that is processed into three structural and seven non-structural proteins. Read More

    Polymer-Chlorosome Nanocomposites Consisting of Non-Native Combinations of Self-Assembling Bacteriochlorophylls.
    Langmuir 2017 Jun 15;33(25):6427-6438. Epub 2017 Jun 15.
    Center for Integrated Nanotechnologies, Los Alamos National Laboratory , Los Alamos, New Mexico 87545, United States.
    Chlorosomes are one of the characteristic light-harvesting antennas from green sulfur bacteria. These complexes represent a unique paradigm: self-assembly of bacteriochlorophyll pigments within a lipid monolayer without the influence of protein. Because of their large size and reduced complexity, they have been targeted as models for the development of bioinspired light-harvesting arrays. Read More

    Molecular Cloning, Expression Profiling, and Marker Validation of the Chicken Myoz3 Gene.
    Biomed Res Int 2017 11;2017:5930918. Epub 2017 May 11.
    Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu Campus, Chengdu, China.
    Myozenin3 (Myoz3) has been reported to bind multiple Z-disc proteins and hence play a key role in signal transduction and muscle fiber type differentiation. The purpose of current study is to better understand the basic characteristics of Myoz3. Firstly, we cloned the ORF (open reading frame) of the Myoz3 gene. Read More

    In silico Prediction, in vitro Antibacterial Spectrum, and Physicochemical Properties of a Putative Bacteriocin Produced by Lactobacillus rhamnosus Strain L156.4.
    Front Microbiol 2017 19;8:876. Epub 2017 May 19.
    Departamento de Microbiologia, Instituto de Ciências Biológicas, Universidade Federal de Minas GeraisBelo Horizonte, Brazil.
    A bacteriocinogenic Lactobacillus rhamnosus L156.4 strain isolated from the feces of NIH mice was identified by 16S rRNA gene sequencing and MALDI-TOF mass spectrometry. The entire genome was sequenced using Illumina, annotated in the PGAAP, and RAST servers, and deposited. Read More

    Evolutionary conserved mechanisms pervade structure and transcriptional modulation of allograft inflammatory factor-1 from sea anemone Anemonia viridis.
    Fish Shellfish Immunol 2017 Jun 1;67:86-94. Epub 2017 Jun 1.
    National Research Council-Institute for Marine and Coastal Environment (IAMC-CNR), Laboratory of Molecular Ecology and Biotechnology, Detached Unit of Capo Granitola, Via mare del Sud, 3, 91021, Torretta Granitola (TP), Sicily, Italy. Electronic address:
    Gene family encoding allograft inflammatory factor-1 (AIF-1) is well conserved among organisms; however, there is limited knowledge in lower organisms. In this study, the first AIF-1 homologue from cnidarians was identified and characterised in the sea anemone Anemonia viridis. The full-length cDNA of AvAIF-1 was of 913 bp with a 5' -untranslated region (UTR) of 148 bp, a 3'-UTR of 315 and an open reading frame (ORF) of 450 bp encoding a polypeptide with149 amino acid residues and predicted molecular weight of about 17 kDa. Read More

    Transcriptome-wide measurement of translation by ribosome profiling.
    Methods 2017 Jun 1. Epub 2017 Jun 1.
    Department of Molecular and Cell Biology, Center for RNA Systems Biology, California Institute for Quantitative Biosciences, University of California, Berkeley, 16 Barker Hall # 3202, Berkeley, CA 94720-3202, USA. Electronic address:
    Translation is one of the fundamental processes of life. It comprises the assembly of polypeptides whose amino acid sequence corresponds to the codon sequence of an mRNA's ORF. Translation is performed by the ribosome; therefore, in order to understand translation and its regulation we must be able to determine the numbers and locations of ribosomes on mRNAs in vivo. Read More

    Shrimp TAB1 interacts with TAK1 and p38 and activates the host innate immune response to bacterial infection.
    Mol Immunol 2017 May 31;88:10-19. Epub 2017 May 31.
    State Key Laboratory for Biocontrol, School of Life Sciences, Sun Yat-sen University, Guangzhou, PR China; Guangdong Province Key Laboratory of Improved Variety Reproduction in Aquatic Economic Animals, Sun Yat-sen University, PR China; Guangdong Provincial Key Laboratory of Marine Resources and Coastal Engineering, PR China; School of Marine Sciences, Sun Yat-sen University, Guangzhou, PR China; South China Sea Resource Exploitation and Protection Collaborative Innovation Center (SCS-REPIC), PR China. Electronic address:
    Mammalian TAB1 has been previously identified as transforming growth factor-β (TGF-β)-activated kinase 1 (TAK1) binding protein, which functions as the activator of TAK1 and p38. This report, for the first time, identified and characterized the homolog of TAB1 in shrimp, to be specific, the homolog gene from Litopenaeus vannamei, containing a 1560-bp open reading frame (ORF) that encoded a putative protein of 519 amino acids with the conserved PP2Cc (Serine/threonine phosphatases, family 2C, catalytic) domain in N-terminal and a TAK1 binding motif in C-terminus, has been cloned and named LvTAB1. LvTAB1 was most abundant in gills and its expression could respond significantly to a series of stimuli, including LPS, Vibrio parahemolyticus and Staphylococcus aureus. Read More

    Giant reverse transcriptase-encoding transposable elements at telomeres.
    Mol Biol Evol 2017 May 30. Epub 2017 May 30.
    Transposable elements are omnipresent in eukaryotic genomes and have a profound impact on chromosome structure, function and evolution. Their structural and functional diversity is thought to be reasonably well-understood, especially in retroelements, which transpose via an RNA intermediate copied into cDNA by the element-encoded reverse transcriptase, and are characterized by a compact structure. Here we report a novel type of expandable eukaryotic retroelements, which we call Terminons. Read More

    An Overview of Orf Virus Infection in Humans and Animals.
    Recent Pat Antiinfect Drug Discov 2017 Jun 1. Epub 2017 Jun 1.
    Erciyes University Faculty of Medicine - Department of Infectious Diseases and Clinical Microbiology Kayseri, 38039. Turkey.
    Background: Orf virus is a DNA virus that belongs to the Parapoxvirus genus. The virus is a causative agent of orf in humans or contagious ecthyma in animals which is mostly seen in sheep, goat and cattle.

    Discussion: Orf is an emerging zoonosis with an increasing number of worldwide outbreaks that have been reported. Read More

    Transcriptome analysis of Phytophthora litchii reveals pathogenicity arsenals and confirms taxonomic status.
    PLoS One 2017 1;12(6):e0178245. Epub 2017 Jun 1.
    The Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, PR China.
    Litchi downy blight, caused by Peronophythora litchii, is one of the major diseases of litchi and has caused severe economic losses. P. litchii has the unique ability to produce downy mildew like sporangiophores under artificial culture. Read More

    The SAT protein of porcine parvovirus accelerates viral spreading through irreversible ER stress induction.
    J Virol 2017 May 31. Epub 2017 May 31.
    Institute for Veterinary Medical Research, Centre for Agricultural Research, Hungarian Academy of Sciences, Budapest, Hungary.
    The SAT protein of porcine parvovirus (PPV) accumulates in the endoplasmic reticulum (ER) and SAT deletion induces "slow spreading" phenotype. The in vitro comparison of the wild type Kresse strain and its SAT(-) knockout mutant revealed that prolonged cell integrity and late viral release are responsible for the slower spreading of the SAT(-) virus. During PPV infection, regardless of the presence or absence of SATp, the expression of downstream ER stress response proteins (Xbp1 and CHOP) was induced. Read More

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