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    Cloning and expression study of an IRF4a gene and its two transcript variants in turbot, Scophthalmus maximus.
    Fish Shellfish Immunol 2017 Oct 17. Epub 2017 Oct 17.
    College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China.
    Interferon regulatory factor 4 (IRF4) is known to be involved in antiviral response as well as regulation of functional and developmental processes in lymphomyeloid cell lineages in mammals. In this study, the gene of IRF4a and its two transcript variants (named IRF4a1 and -2) were cloned from turbot, Scophthalmus maximus, the tissue distributions and in vivo immune responsive expression patterns of the two transcripts were subsequently examined. The Scophthalmus maximus (Sm)IRF4a gene is 8367 nucleotide (nt) in length, consisting of eight exons and seven introns. Read More

    Characterization of a double WAP domain-containing protein from the red swamp crayfish Procambarus clarkii.
    Fish Shellfish Immunol 2017 Oct 17. Epub 2017 Oct 17.
    College of Life Science, Henan Normal University, Xinxiang, Henan 453007, China. Electronic address:
    Crustaceans express multiple whey acidic protein (WAP) domain containing proteins which are components of host immunity. In the present study, a new double WAP domain containing protein was identified from red swamp crayfish Procambarus clarkii, designated Pc-DWD. The ORF is 387 bp, encoding 128 amino acids consisting of signal peptide of 18 residues, and two tandem WAP domains of 38 and 44 residues. Read More

    Expression profile of Rhipicephalus microplus vitellogenin receptor during oogenesis.
    Ticks Tick Borne Dis 2017 Oct 16. Epub 2017 Oct 16.
    Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul, Av. Bento Gonçalves 9500, Prédio 43421, Campus do Vale, Caixa Postal 15005, Porto Alegre, RS, 91501-970, Brazil; Faculdade de Veterinária, Universidade Federal do Rio Grande do Sul, Av. Bento Gonçalves, 9090, Porto Alegre, RS, 91540-000, Brazil; Instituto Nacional de Ciência e Tecnologia em Entomologia Molecular, Rio de Janeiro, Brazil. Electronic address:
    The vitellogenin receptor (VgR), which belongs to the low-density lipoprotein receptors (LDLR) family, regulates the absorption of yolk protein accumulated in developing oocytes during oogenesis. In the present study, the full sequence of Rhipicephalus microplus VgR (RmVgR) and the partial sequence of Rhipicephalus appendiculatus VgR (RaVgR) ORF were determined and cloned. The RmVgR amino acid sequence contains the five highly conserved structural motifs characteristic of LDLR superfamily members, the same overall structure as observed in other species. Read More

    [Cloning and protein expression analysis of monoterpene synthase gene TwMS in Tripterygium wilfordii].
    Zhongguo Zhong Yao Za Zhi 2017 Apr;42(7):1312-1318
    State Key Laboratory of Dao-di Herbs, National Resource Center for Chinese Materia Medica, Chinese Academy of Chinese Medical Sciences, Beijing 100700, China.
    In this study, we cloned a monoterpene synthases, TwMS from Tripterygium wilfordii suspension cells. TwMS gene contained a 1 797 bp open reading frame (ORF), encoding a polypeptide of 579 amino acids, which deduced isoelectric point (pI) was 6.10 and the calculated molecular weight was 69. Read More

    LncRNAs: key players and novel insights into diabetes mellitus.
    Oncotarget 2017 Sep 4;8(41):71325-71341. Epub 2017 Aug 4.
    Department of Endocrinology, Affiliated Hospital of Guilin Medical University, Guilin 541001, China.
    Long non-coding RNAs (LncRNAs) are a class of endogenous RNA molecules, which have a transcribing length of over 200 nt, lack a complete functional open reading frame (ORF), and rarely encode a functional short peptide. Recent studies have revealed that disruption of LncRNAs levels correlates with several human diseases, including diabetes mellitus (DM), a complex multifactorial metabolic disorder affecting more than 400 million people worldwide. LncRNAs are emerging as pivotal regulators in various biological processes, in the progression of DM and its associated complications, involving pancreatic β-cell disorder, insulin resistance, and epigenetic regulation, etc. Read More

    A Support Vector Machine based method to distinguish long non-coding RNAs from protein coding transcripts.
    BMC Genomics 2017 Oct 18;18(1):804. Epub 2017 Oct 18.
    Bioinformatics Group, Department of Computer Science and Interdisciplinary Center for Bioinformatics, University of Leipzig, Hartelstrasse 16-18, Leipzig, D-04107, Germany.
    Background: In recent years, a rapidly increasing number of RNA transcripts has been generated by thousands of sequencing projects around the world, creating enormous volumes of transcript data to be analyzed. An important problem to be addressed when analyzing this data is distinguishing between long non-coding RNAs (lncRNAs) and protein coding transcripts (PCTs). Thus, we present a Support Vector Machine (SVM) based method to distinguish lncRNAs from PCTs, using features based on frequencies of nucleotide patterns and ORF lengths, in transcripts. Read More

    Allosteric modulation of F. prausnitzii HDV-like ribozyme by glucosamine 6-phosphate ¬¬- the substrate of the adjacent gene product.
    Biochemistry 2017 Oct 18. Epub 2017 Oct 18.
    Self-cleaving ribozymes were discovered 30 years ago and have been found throughout nature, from bacteria to animals, but little is known about their biological functions and regulation, particularly how cofactors and metabolites alter their activity. An HDV-like self-cleaving ribozyme maps upstream of a phosphoglucosamine mutase (glmM) open reading frame (ORF) in the genome of the human gut bacterium Faecalibacterium prausnitzii. The presence of a ribozyme in the untranslated region of glmM suggests a regulation mechanism of gene expression. Read More

    Discovery and Characterization of Novel Trans-Spliced Products of Human Polyoma JC Virus Late Transcripts from PML Patients.
    J Cell Physiol 2017 Oct 16. Epub 2017 Oct 16.
    Department of Neuroscience, Laboratory of Molecular Neurovirology, MERB-757, Lewis Katz School of Medicine at Temple University, 3500 N. Broad Street, Philadelphia PA 19140.
    Although the human neurotropic polyomavirus, JC virus (JCV), was isolated almost a half century ago, understanding the molecular mechanisms governing its biology remains highly elusive. JCV infects oligodendrocytes and astrocytes in the central nervous system (CNS) and causes a fatal brain disease known as progressive multifocal leukoencephalopathy (PML) in immunocompromised individuals including AIDS. It has a small circular DNA genome (∼ 5 kb) and generates two primary transcripts from its early and late coding regions, producing several predicted alternatively spliced products mainly by cis-splicing. Read More

    Characterize a typically Dscam with alternative splicing in mud crab Scylla paramamosain.
    Fish Shellfish Immunol 2017 Oct 16;71:305-318. Epub 2017 Oct 16.
    Guangdong Provincial Key Laboratory of Marine Biology, Shantou University, Shantou 515063, China; Marine Biology Institute, Shantou University, Shantou 515063, China. Electronic address:
    As a member of the immunoglobulin superfamily, Down syndrome cell adhesion molecule (Dscam) could function in the innate immunity of invertebrates. Recently, it is shown that arthropod Dscams play similar functions as antibodies in the adaptive immune system. Dscam could produce thousands of isoforms by alternative splicing and specifically bind to various pathogens. Read More

    Thermostable proteins bioprocesses: The activity of restriction endonuclease-methyltransferase from Thermus thermophilus (RM.TthHB27I) cloned in Escherichia coli is critically affected by the codon composition of the synthetic gene.
    PLoS One 2017 17;12(10):e0186633. Epub 2017 Oct 17.
    Department of Molecular Biotechnology, Faculty of Chemistry, University of Gdansk, Wita Stwosza 63, Gdansk, Poland.
    Obtaining thermostable enzymes (thermozymes) is an important aspect of biotechnology. As thermophiles have adapted their genomes to high temperatures, their cloned genes' expression in mesophiles is problematic. This is mainly due to their high GC content, which leads to the formation of unfavorable secondary mRNA structures and codon usage in Escherichia coli (E. Read More

    ASXL gain-of-function truncation mutants: defective and dysregulated forms of a natural ribosomal frameshifting product?
    Biol Direct 2017 Oct 16;12(1):24. Epub 2017 Oct 16.
    Department of Pathology, Division of Virology, University of Cambridge, Cambridge, CB2 1QP, UK.
    Background: Programmed ribosomal frameshifting (PRF) is a gene expression mechanism which enables the translation of two N-terminally coincident, C-terminally distinct protein products from a single mRNA. Many viruses utilize PRF to control or regulate gene expression, but very few phylogenetically conserved examples are known in vertebrate genes. Additional sex combs-like (ASXL) genes 1 and 2 encode important epigenetic and transcriptional regulatory proteins that control the expression of homeotic genes during key developmental stages. Read More

    A disulfide bond A-like oxidoreductase is a strong candidate gene for self-incompatibility in apricot (Prunus armeniaca) pollen.
    J Exp Bot 2017 Sep 25. Epub 2017 Sep 25.
    Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universidad Politécnica de Valencia-Consejo Superior de Investigaciones Científicas. C/Ingeniero Fausto Elio s/n, 46022 Valencia, Spain.
    S-RNase based gametophytic self-incompatibility (SI) is a widespread prezygotic reproductive barrier in flowering plants. In the Solanaceae, Plantaginaceae and Rosaceae gametophytic SI is controlled by the pistil-specific S-RNases and the pollen S-locus F-box proteins but non-S-specific factors, namely modifiers, are also required. In apricot, Prunus armeniaca (Rosaceae), we previously mapped two pollen-part mutations that confer self-compatibility in cultivars Canino and Katy at the distal end of chromosome 3 (M-locus) unlinked to the S-locus. Read More

    Cloning and characterization of the Cerasus humilis sucrose phosphate synthase gene (ChSPS1).
    PLoS One 2017 16;12(10):e0186650. Epub 2017 Oct 16.
    Department of Pomology, College of Horticulture, Shanxi Agricultural University, Taigu, China.
    Sucrose is crucial to the growth and development of plants, and sucrose phosphate synthase (SPS) plays a key role in sucrose synthesis. To understand the genetic and molecular mechanisms of sucrose synthesis in Cerasus humilis, ChSPS1, a homologue of SPS, was cloned using RT-PCR. Sequence analysis showed that the open reading frame (ORF) sequence of ChSPS1 is 3174 bp in length, encoding a predicted protein of 1057 amino acids. Read More

    Characterization and genome comparison of an Indian isolate of bidensovirus infecting the silkworm Bombyx mori.
    Arch Virol 2017 Oct 13. Epub 2017 Oct 13.
    Seribiotech Research Laboratory, Carmelaram-Post, Kodathi, Bangalore, 560035, India.
    The bipartite genome of an Indian isolate of Bombyx mori bidensovirus (BmBDV), one of the causative agents of the fatal silkworm disease 'Flacherie', was cloned and completely sequenced. Nucleotide sequence analysis of this Indian isolate of BmBDV revealed two viral DNA segments, VD1 and VD2 as well as a DNA polymerase motif which supports its taxonomical status as the type species of a new family of Bidnaviridae. The Indian isolate of BmBDV was found to have a total of six putative ORFs four of which were located on the VD1 with the other two being on the VD2 DNA segment. Read More

    Functional analysis of methyltransferases participating in streptothricin-related antibiotic biosynthesis.
    J Biosci Bioeng 2017 Oct 10. Epub 2017 Oct 10.
    Department of Bioscience, Fukui Prefectural University, Yoshida-Gun, Fukui 910-1195, Japan. Electronic address:
    Streptothricin (ST) and its related compounds produced by Streptomyces strains are broad-spectrum antibiotics that consist of carbamoylated d-gulosamine, amino-acid side chain, and streptolidine lactam moieties. BD-12, a streptothricin-related antibiotic, has a glycine-derived side chain and two N-methyl groups, whereas ST-F carrying the l-β-lysine side chain has no methyl group. In our previous studies, we identified and characterized the BD-12 and ST biosynthetic gene clusters. Read More

    [Cloning and expression of scavenger receptor class B BmSCRB8 in silkworm Bombyx mori].
    Sheng Wu Gong Cheng Xue Bao 2016 Oct;32(10):1408-1421
    State Key Laboratory of Silkworm Genome Biology, Southwest University, Chongqing 400716, China.
    Scavenger receptor class B is involved in various indispensable physiological processes, like the formation and inhibition of atherosclerosis or other cardiovascular diseases, innate immune defense and the removal of apoptotic cells. Here, we cloned BmSCRB8, a member of scavenger receptor class B in silkworm. We obtained the full-length cDNA sequence of BmSCRB8 by rapid amplification of cDNA ends (RACE), including 2 668 bp. Read More

    [Gene cloning and expression analysis of benzoic acid stress responsive transcription factor WRKY7 in Panax ginseng].
    Zhongguo Zhong Yao Za Zhi 2017 Mar;42(6):1130-1135
    Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China.
    WRKY transcription factor is one of the most important transcription factor families widely existing in higher plants, which playing critical role in plant morphogenesis, development, biotic (including phytopathogens, pests etc.) and abiotic (drought, salt, chilling, high temperature, etc.) stress. Read More

    Cloning and characterization of PHGPx and its synergistic role with p53 in mediating stress in Penaeus monodon.
    Fish Shellfish Immunol 2017 Oct 8. Epub 2017 Oct 8.
    South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, PR China; Key Laboratory of South China Sea Fishery Resources Exploitation & Utilization, Ministry of Agriculture, Guangzhou, PR China; Key Laboratory of Aquatic Genomics, Ministry of Agriculture, CAFS, Beijing 100141, PR China. Electronic address:
    Phospholipid-hydroperoxide glutathione peroxidase (PHGPx), a ubiquitous antioxidant enzyme in the glutathione peroxidase (GPx) family, plays multiple roles in different organisms. Here, a novel PHGPx (PmPHGPx) was identified from Penaeus monodon. The full-length PmPHGPx cDNA was 1885 bp in length with a 489-bp open reading frame (ORF) containing a selenocysteine codon, TGA(177-179), and a selenocysteine insertion sequence in the 3'-UTR. Read More

    Molecular Cloning, Recombinant Expression and Antifungal Activity of BnCPI, a Cystatin in Ramie (Boehmeria nivea L.).
    Genes (Basel) 2017 Oct 11;8(10). Epub 2017 Oct 11.
    Institute of Bast Fiber Crops and Center for Southern Economic Crops, Chinese Academy of Agricultural Science, Changsha 410205, China.
    Phytocystatins play multiple roles in plant growth, development and resistance to pests and other environmental stresses. A ramie (Boehmeria nivea L.) phytocystatin gene, designated as BnCPI, was isolated from a ramie cDNA library and its full-length cDNA was obtained by rapid amplification of cDNA ends (RACE). Read More

    Identification of a novel toll gene (Shtoll3) from the freshwater crab Sinopotamon henanense and its expression pattern changes in response to cadmium followed by Aeromonas hydrophila infection.
    Fish Shellfish Immunol 2017 Oct 7;71:177-190. Epub 2017 Oct 7.
    School of Life Science, Shanxi University, 92 Wucheng Road, Taiyuan 030006, China. Electronic address:
    Toll signaling is essential for expression of immune genes which are important for defense against bacterial, fungal and viral infections in invertebrates. Although several toll genes have been identified in the crustaceans, none of them has been investigated in freshwater crab Sinopotamon henanense. Moreover, the effect of cadmium (Cd) on toll gene expression has never been examined on the freshwater crabs which live in the sediments and are prone to heavy metal bioaccumulation. Read More

    Characterization of hepatitis B virus in Amerindian children and mothers from Amazonas State, Colombia.
    PLoS One 2017 10;12(10):e0181643. Epub 2017 Oct 10.
    Grupo de Gastrohepatologia, Facultad de Medicina, Universidad de Antioquia, UdeA, Medellin, Colombia.
    Background: Hepatitis B Virus (HBV) infection is a worldwide public health problem. In the 1980's a highly effective and safe vaccine against HBV was developed, although breakthrough infection still occasionally occurs because of the emergence of escape mutants. The aim of this study was to identify HBV genotypes and escape mutants in children and their mothers in Amerindian communities of the Amazonas State, Southern Colombia. Read More

    PrLPAAT4, a Putative Lysophosphatidic Acid Acyltransferase from Paeonia rockii, Plays an Important Role in Seed Fatty Acid Biosynthesis.
    Molecules 2017 Oct 10;22(10). Epub 2017 Oct 10.
    College of Landscape Architecture and Arts, Northwest A&F University, Yangling, Shaanxi 712100, China.
    Lysophosphatidic acid acyltransferases (LPAATs) are essential for the acylation of lysophosphatidic acid (LPA) and the synthesis of phosphatidic acid (PA), a key intermediate in the synthesis of membrane phospholipids and storage lipids. Here, a putative lysophosphatidic acid acyltransferase gene, designated PrLPAAT4, was isolated from seed unsaturated fatty acid (UFA)-rich P. rockii. Read More

    The Luteovirus P4 Movement Protein Is a Suppressor of Systemic RNA Silencing.
    Viruses 2017 Oct 10;9(10). Epub 2017 Oct 10.
    School of Life and Environmental Sciences, University of Sydney, Sydney, NSW 2006, Australia.
    The plant viral family Luteoviridae is divided into three genera: Luteovirus, Polerovirus and Enamovirus. Without assistance from another virus, members of the family are confined to the cells of the host plant's vascular system. The first open reading frame (ORF) of poleroviruses and enamoviruses encodes P0 proteins which act as silencing suppressor proteins (VSRs) against the plant's viral defense-mediating RNA silencing machinery. Read More

    Selective C-O bond formation via a photocatalytic radical coupling strategy: access to perfluoroalkoxylated (ORF) arenes and heteroarenes.
    Chem Sci 2017 Sep 5;8(9):6066-6070. Epub 2017 Jun 5.
    Department of Chemistry , Stony Brook University , Stony Brook , New York 11794-3400 , USA . Email:
    Development of an efficient process that employs commercially available and cost effective reagents for the synthesis of perfluoroalkoxylated aromatic compounds (Ar-ORF) remains a daunting challenge in organic synthesis. Herein, we report the first catalytic protocol using readily available perfluoroalkyl iodides (RFI) and N-(hetero)aryl-N-hydroxylamides to access a wide range of perfluoroalkoxylated (hetero)arenes. Mild reaction conditions allow for selective O-RF bond formation over a broad substrate scope and are tolerant of a wide variety of functional groups. Read More

    Quantitative characterization of hepatitis delta virus genome edition by next-generation sequencing.
    Virus Res 2017 Oct 4. Epub 2017 Oct 4.
    Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBERehd), Instituto de Salud Carlos III, 28029 Madrid, Spain; Liver Pathology Unit, Departments of Biochemistry and Microbiology, Hospital Universitari Vall d'Hebron, Universitat Autònoma de Barcelona (UAB), 08035 Barcelona, Spain. Electronic address:
    Aim: To determine the capacity of next-generation sequencing (NGS) for quantifying edited and unedited HDV populations, and to confirm if edition is a general phenomenon taking place along the entire HDV region analyzed, as we previously reported (HomsM et al. PLoS One 2016;11:e0158557).

    Methods: Four serum samples from 4 patients with chronic HDV/HBV infection were included in the study. Read More

    Uncharacterized ORF HUR1 influences the efficiency of non-homologous end-joining repair in Saccharomyces cerevisiae.
    Gene 2017 Oct 4. Epub 2017 Oct 4.
    Department of Biology, Carleton University, Ottawa, Ontario, Canada; Ottawa Institute of Systems Biology, University of Ottawa, Ottawa, Ontario, Canada. Electronic address:
    Non-Homologous End Joining (NHEJ) is a highly conserved pathway that repairs Double-Strand Breaks (DSBs) within DNA. Here we show that the deletion of yeast uncharacterized ORF HUR1, Hydroxyurea Resistance1 affects the efficiency of NHEJ. Our findings are supported by Protein-Protein Interaction (PPI), genetic interaction and drug sensitivity analyses. Read More

    A molluscan TNF receptor-associated factor 2 (TRAF2) was involved in host defense against immune challenges.
    Fish Shellfish Immunol 2017 Oct 3;71:105-115. Epub 2017 Oct 3.
    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 Sciences, Guangzhou 510301, China; South China Sea Bio-Resource Exploitation and Utilization Collaborative Innovation Center, Guangzhou 510275, China.
    Tumor necrosis factor (TNF) receptor-associated factor 2 (TRAF2) is a member of the TRAF superfamily that acted as a key signal transduction protein and has been implicated in inflammatory and apoptosis processes in mammals. However, identification of TRAF2s in invertebrates is very limited and its function, in particular that under immune challenges, is still unknown. In this report, a molluscan TRAF2 gene (referred to as AwTRAF2) was cloned and characterized from the freshwater bivalve, Anodonta woodiana. Read More

    Competition between translation initiation factor eIF5 and its mimic protein 5MP determines non-AUG initiation rate genome-wide.
    Nucleic Acids Res 2017 Sep 18. Epub 2017 Sep 18.
    Molecular Cellular and Developmental Biology Program, Division of Biology, Kansas State University, Manhattan, KS 66506, USA.
    In the human genome, translation initiation from non-AUG codons plays an important role in various gene regulation programs. However, mechanisms regulating the non-AUG initiation rate remain poorly understood. Here, we show that the non-AUG initiation rate is nearly consistent under a fixed nucleotide context in various human and insect cells. Read More

    Initiating ribosomes and a 5'/3'-UTR interaction control ribonuclease action to tightly couple B. subtilis hbs mRNA stability with translation.
    Nucleic Acids Res 2017 Sep 7. Epub 2017 Sep 7.
    UMR 8261 (CNRS-Univ. Paris Diderot, Sorbonne Paris Cité), Institut de Biologie Physico-Chimique, 13 rue Pierre et Marie Curie, 75005 Paris, France.
    We previously showed that ribosomes initiating translation of the B. subtilis hbs mRNA at a strong Shine-Dalgarno sequence block the 5' exoribonuclease RNase J1 from degrading into the coding sequence. Here, we identify new and previously unsuspected features of this mRNA. Read More

    REPARATION: ribosome profiling assisted (re-)annotation of bacterial genomes.
    Nucleic Acids Res 2017 Aug 31. Epub 2017 Aug 31.
    VIB-UGent Center for Medical Biotechnology, B-9000 Ghent, Belgium.
    Prokaryotic genome annotation is highly dependent on automated methods, as manual curation cannot keep up with the exponential growth of sequenced genomes. Current automated methods depend heavily on sequence composition and often underestimate the complexity of the proteome. We developed RibosomeE Profiling Assisted (re-)AnnotaTION (REPARATION), a de novo machine learning algorithm that takes advantage of experimental protein synthesis evidence from ribosome profiling (Ribo-seq) to delineate translated open reading frames (ORFs) in bacteria, independent of genome annotation (https://github. Read More

    Controversial use of vitellogenin as a biomarker of endocrine disruption in crustaceans: New adverse pieces of evidence in the copepod Eurytemora affinis.
    Comp Biochem Physiol C Toxicol Pharmacol 2017 Oct 30;201:66-75. Epub 2017 Sep 30.
    Normandie Univ, ULHN, UMR-I 02 SEBIO, FR CNRS 3730 SCALE BP 1123, F-76063 Le Havre, France.
    In recent years, the interest in the use of vitellogenin (VTG) as a biomarker of endocrine disruption in fish has led to VTG being considered as a potential tool in invertebrates. Among aquatic invertebrate models in ecotoxicology, the copepods are considered as reference species in marine, estuarine and freshwater ecosystems. In this context, we identified a VTG cDNA in Eurytemora affinis. Read More

    Limits of variation, specific infectivity, and genome packaging of massively recoded poliovirus genomes.
    Proc Natl Acad Sci U S A 2017 Sep 25. Epub 2017 Sep 25.
    Department of Molecular Genetics and Microbiology, Stony Brook University, Stony Brook, NY, 11794;
    Computer design and chemical synthesis generated viable variants of poliovirus type 1 (PV1), whose ORF (6,189 nucleotides) carried up to 1,297 "Max" mutations (excess of overrepresented synonymous codon pairs) or up to 2,104 "SD" mutations (randomly scrambled synonymous codons). "Min" variants (excess of underrepresented synonymous codon pairs) are nonviable except for P2(Min), a variant temperature-sensitive at 33 and 39.5 °C. Read More

    The mitochondrial genome of the plant-pathogenic fungus Stemphylium lycopersici uncovers a dynamic structure due to repetitive and mobile elements.
    PLoS One 2017 3;12(10):e0185545. Epub 2017 Oct 3.
    Centro de Investigaciones de Fitopatología, Facultad de Ciencias Agrarias y Forestales, Universidad Nacional de La Plata - Comisión de Investigaciones Científicas de la Provincia de Buenos Aires, La Plata, Buenos Aires, Argentina.
    Stemphylium lycopersici (Pleosporales) is a plant-pathogenic fungus that has been associated with a broad range of plant-hosts worldwide. It is one of the causative agents of gray leaf spot disease in tomato and pepper. The aim of this work was to characterize the mitochondrial genome of S. Read More

    Cloning and characterization of an Echinococcus granulosus ecdysteroid hormone nuclear receptor HR3-like gene.
    Parasite 2017 3;24:36. Epub 2017 Oct 3.
    State Key Laboratory of Pathogenesis, Prevention and Treatment of Central Asian High Incidence Diseases, The First Affiliated Hospital of Xinjiang Medical University, Urumqi 830011, PR China.
    Cystic echinococcosis is an important parasitic zoonosis caused by the dog tapeworm Echinococcus granulosus. Little is known about adult worm development at the molecular level. Transcription analysis showed that the E. Read More

    The Zap1 transcriptional activator negatively regulates translation of the RTC4 mRNA through the use of alternative 5' transcript leaders.
    Mol Microbiol 2017 Oct 3. Epub 2017 Oct 3.
    Département de Biochimie, Faculté de médecine et des sciences de la santé, Pavillon Z-8, 3201, Jean Mignault, Sherbrooke (QC) J1E 4K8 Canada.
    The zinc-responsive transcription activator Zap1 plays a central role in zinc homeostasis in the budding yeast Saccharomyces cerevisiae. In zinc-deficient cells, Zap1 binds to zinc responsive elements in target gene promoters and activates gene expression. In most cases, Zap1-dependent gene activation results in increased levels of mRNAs and proteins. Read More

    Distribution of the Pig Gastrin-releasing Peptide Receptor and the Effect of GRP on Porcine Leydig Cells.
    Peptides 2017 Sep 28. Epub 2017 Sep 28.
    College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, 210095, PR China. Electronic address:
    Gastrin-releasing peptide (GRP) is a mammalian bombesin (BN)-like peptide which plays a role in a number of important physiological functions via its receptor (gastrin-releasing peptide receptor, GRPR) in most animals. However, little is known about the gene encoding GRPR and its functions (especially reproduction) in pigs. In this study, we first cloned and analyzed the pig GRPR cDNA. Read More

    Molecular cloning, recombinant expression and functional characterization of an antimicrobial peptide, Crustin from the Indian white shrimp, Fenneropenaeus indicus.
    Fish Shellfish Immunol 2017 Sep 28;71:83-94. Epub 2017 Sep 28.
    Department of Marine Biology, Microbiology and Biochemistry, School of Marine Sciences, Cochin University of Science and Technology, Fine Arts Avenue, Kochi 682016, Kerala, India. Electronic address:
    Antimicrobial peptides (AMPs) comprise molecules that involve in the defense mechanism of various organisms towards pathogens such as bacteria, fungi, parasites and viruses. Crustins are generally defined as multi-domain cationic antimicrobial peptides containing one whey acidic protein (WAP) domain at the C-terminus as the functional unit. In this study, we identified and characterized a novel crustin homolog (Fi-Crustin2) with 354 bp fragment cDNA encoding 117 amino acids and an ORF of 100 amino acids with a net charge of +1 from the mRNA of F. Read More

    TRAF2 of black carp upregulates MAVS-mediated antiviral signaling during innate immune response.
    Fish Shellfish Immunol 2017 Sep 28;71:1-9. Epub 2017 Sep 28.
    State Key Laboratory of Developmental Biology of Freshwater Fish, College of Life Science, Hunan Normal University, Changsha, 410081, China. Electronic address:
    Tumor necrosis factor receptor-associated factor 2 (TRAF2) is a crucial component of the tumor necrosis factor (TNF) mediated signaling of higher vertebrates. To elucidate its function in teleost fish, TRAF2 homologue of black carp (Mylopharyngodon piceus) has been cloned and characterized in this study. The open reading frame (ORF) of black carp TRAF2 (bcTRAF2) consists of 1611 nucleotides and bcTRAF2 contains 536 amino acids. Read More

    Complete genome sequences and phylogenetic analysis of encephalomyocarditis virus strains isolated from pigs and rats origin.
    Infect Genet Evol 2017 Sep 28;55:277-280. Epub 2017 Sep 28.
    College of Animal Science and Veterinary Medicine, Henan Agricultural University, Zhengzhou, Henan Province, China. Electronic address:
    In order to evaluate the genetic variability of encephalomyocarditis virus (EMCV), the whole genomes of six EMCV field isolates originating from pigs and rats origin in different regions of central China, were phylogenetically and comparatively analyzed. Phylogenetic analysis of whole genome sequences, open reading frame (ORF), capsid coding region (CCR) and VP3/VP1 using neighbor-joining analysis revealed that these isolates belonged to lineage 1. Nucleotide sequences of six isolates showed more than 99% pairwise identity rates, and the sequences of isolates from pig and boar in the same region were completely identical with each other, without any genetic deletion or insertion. Read More

    Novel archaeal thermostable cellulases from an oil reservoir metagenome.
    AMB Express 2017 Sep 29;7(1):183. Epub 2017 Sep 29.
    Department of Biological Sciences, Auburn University, 101 Life Sciences Building, 120W, Samford Avenue, Auburn, AL, 36849, USA.
    Microbial assemblages were sampled from an offshore deep sub-surface petroleum reservoir 2.5 km below the ocean floor off the coast of Norway, providing conditions of high temperature and pressure, to identify new thermostable enzymes. In this study, we used DNA sequences obtained directly from the sample metagenome and from a derived fosmid library to survey the functional diversity of this extreme habitat. Read More

    Isolation and cDNA cloning of a novel red colour-related pigment-binding protein derived from the shell of the shrimp, Litopenaeus vannamei.
    Food Chem 2018 Feb 24;241:104-112. Epub 2017 Aug 24.
    School of Marine Biosciences, Kitasato University, Sagamihara 252-0373, Japan. Electronic address:
    Pigment-binding proteins play important roles in crustacean shell colour change. In this study, a red colour-related pigment-binding protein, designated LvPBP75, was purified from the shell of Litopenaeus vannamei. HPLC and PAGE analysis showed that LvPBP75 was a homogeneous monomer with molecular mass of 75kDa. Read More

    Identification and characterization of two linear epitope motifs in hepatitis E virus ORF2 protein.
    PLoS One 2017 28;12(9):e0184947. Epub 2017 Sep 28.
    College of Veterinary Medicine, South China Agricultural University, Guangzhou, Guangdong Province, People's Republic of China.
    Hepatitis E virus (HEV) is responsible for hepatitis E, which represents a global public health problem. HEV genotypes 3 and 4 are reported to be zoonotic, and animals are monitored for HEV infection in the interests of public hygiene and food safety. The development of novel diagnostic methods and vaccines for HEV in humans is thus important topics of research. Read More

    A uORF represses the transcription factor AtHB1 in aerial tissues to avoid a deleterious phenotype.
    Plant Physiol 2017 Sep 27. Epub 2017 Sep 27.
    Instituto de Agrobiotecnologia del Litoral-CONICET-Universidad Nacional del Litoral CITY: Santa Fe POSTAL_CODE: 3000 Argentina [AR]
    AtHB1 is an Arabidopsis homeodomain-leucine zipper transcription factor that participates in hypocotyl elongation under short day conditions. Here we show that its expression is post-transcriptionally regulated by an upstream open reading frame (uORF) located in its 5' UTR. This uORF encodes a highly conserved peptide (CPuORF), present in varied monocot and dicot species. Read More

    In silico analysis, molecular cloning, expression and characterization of l-asparaginase gene from Lactobacillus reuteri DSM 20016.
    3 Biotech 2017 Oct 25;7(5):348. Epub 2017 Sep 25.
    Department of Genetic Engineering, School of Bioengineering, SRM University, Kattankulathur, Chennai, 603 203 India.
    l-Asparaginase is employed in leukaemic treatment and in processing starchy foods. The in silico analysis of Lactobacillus reuteri DSM 20016 reveals the presence of an l-asparaginase gene with theoretical pI value of 4.99. Read More

    Isolation and expression analysis of EcbZIP17 from different finger millet genotypes shows conserved nature of the gene.
    3 Biotech 2017 Oct 21;7(5):342. Epub 2017 Sep 21.
    ICAR-National Research Centre on Plant Biotechnology, Pusa Campus, New Delhi, 110012 India.
    Basic leucine zipper (bZIP) transcription factors comprise one of the largest gene families in plants. They play a key role in almost every aspect of plant growth and development and also in biotic and abiotic stress tolerance. In this study, we report isolation and characterization of EcbZIP17, a group B bZIP transcription factor from a climate smart cereal, finger millet (Eleusine coracana L. Read More

    Functional Analysis and Marker Development of TaCRT-D Gene in Common Wheat (Triticum aestivum L.).
    Front Plant Sci 2017 11;8:1557. Epub 2017 Sep 11.
    National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural SciencesBeijing, China.
    Calreticulin (CRT), an endoplasmic reticulum (ER)-localized Ca(2+)-binding/buffering protein, is highly conserved and extensively expressed in animal and plant cells. To understand the function of CRTs in wheat (Triticum aestivum L.), particularly their roles in stress tolerance, we cloned the full-length genomic sequence of the TaCRT-D isoform from D genome of common hexaploid wheat, and characterized its function by transgenic Arabidopsis system. Read More

    Dermoscopic features and types of orf and milker's nodule.
    Postepy Dermatol Alergol 2017 Aug 2;34(4):357-362. Epub 2017 Aug 2.
    Department of Dermatology, Diyarbakır Ergani State Hospital, Diyarbakır, Turkey.
    Introduction: Orf and milker's nodule are zoonotic cutaneous diseases generated by parapoxviruses. Contribution of dermoscopy to the diagnosis of these diseases has not been studied in the medical literature as to our knowledge.

    Aim: To investigate whether dermoscopy is a valuable diagnostic tool in orf and milker's nodule diagnosis or not. Read More

    Identification and characterization of CD40 from humphead snapper (Lutjanus sanguineus).
    Fish Shellfish Immunol 2017 Sep 23;70:665-672. Epub 2017 Sep 23.
    Guangdong Provincial Key Laboratory of Pathogenic Biology and Epidemiology for Aquatic Economic Animals, Zhanjiang 524088, China; Guangdong Key Laboratory of Control for Diseases of Aquatic Economic Animals, Zhanjiang 524088, China. Electronic address:
    CD40 is known as "master switch" in immune response to pathogen infection in mammals. However, limited information of CD40 is known in lower vertebrates. In this study, a novel CD40 homolog (Ls-CD40) was cloned and characterized from humphead snapper, Lutjanus sanguineus. Read More

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