Coat Protein Gene of Plum Pox Virus
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Monitoring Plum Pox Virus in Austria, Greece and Hungary September
September 2017 Monitoring Plum pox virus in Austria, Greece and Hungary Plum pox virus (PPV), syn. Sharka disease, is the most important and devastating virus disease causing the highest economic impact in stone fruits worldwide. The virus, classified as a quarantine pest (EPPO A2 list, EU 2000/29 EEC, annex II), was first detected in Bulgaria in the early 1900s, and is now widespread in most European countries. The hosts of PPV are fruit-producing, ornamental and wild species of Prunus. Nine strains have been identified based on their biological, serological and molecular properties. One example of the biological relevance of this intraspecific diversity is the PPV-M strain, causing more severe symptoms in peaches than the PPV-D strain. For an effective control and surveillance strategy, it is important to use PPV-free plant material, tolerant/resistant cultivars and quick identification and eradication of diseased plants. One of the objectives of the project is to develop an improved control and surveillance strategy which requires a correlation between the presence and absence of typical PPV symptoms in diseased and healthy plants. In Greece, surveys were carried out in six apricot nurseries in the Peloponnese, the most important apricot production area. A total of about 46.000 grafted saplings were visually inspected and PPV symptoms were only observed in propagation material of the old local apricot varieties (i.e. ‘Bebecou’, ‘Early of Tyrinth´, ‘Diamantopoulou’) and in one sapling of a local PPV tolerant variety (Nostos; Karayiannis et al., 2008). A total of 974 samples were randomly collected and tested by ELISA (Loewe Biochemica GmbH) for the presence of PPV. -
Evaluation of Total Protein Production by Soil Cyanobacteria in Culture Filtrate at Various Incubations Periods
www.ijapbc.com IJAPBC – Vol. 5(3), Jul - Sep, 2016 ISSN: 2277 - 4688 INTERNATIONAL JOURNAL OF ADVANCES IN PHARMACY, BIOLOGY AND CHEMISTRY Research Article Evaluation of Total Protein Production by soil Cyanobacteria in culture filtrate at various Incubations periods Farida P. Minocheherhomji* and Aarti Pradhan *Department of Microbiology, B. P. Baria Science Institute, Navsari, Gujarat, India - 396445. ABSTRACT Cyanobacteria, also known as blue-green algae, are microscopic organisms that obtain their energy through photosynthesis, and are found in common and naturally occurring ecosystem sites like moist soil and water bodies. Cyanobacteria are in a range of shapes and sizes and can occur as single cells while others assemble into groups as colonies or filaments. Blue green algae produces many metabolites including amino acids, proteins, vitamins and plant growth regulators like auxins, gibberellins and abscisic acids. The present study has been undertaken to estimate the total protein in their culture filtrate during different incubation times using BG-11 broth and Pringsheim’s broth. Protein was estimated from culture filtrate by standard protocols. The present study revealed that the amount of biomass, protein and IAA by different Cyanobacterial species were increased with the corresponding incubation time, and showed maximum concentration of 24 μg/ml, 14 μg/ml and 32.5 μg/ml in Pringsheim’s broth after 30 days respectively. Key Words: Cyanobacteria, Nitrogen fixation and Protein production INTRODUCTION Cyanobacteria belong to the group of organisms repertoire of metabolic activities. They proliferate in called prokaryotes, which also includes bacteria, and diverse types of ecosystems - ranging from the cold can be regarded as simple in terms of their cell Tundra to the hot deserts, from surface waters of structure. -
Structure and Function of the Archaeal Response Regulator Chey
Structure and function of the archaeal response PNAS PLUS regulator CheY Tessa E. F. Quaxa, Florian Altegoerb, Fernando Rossia, Zhengqun Lia, Marta Rodriguez-Francoc, Florian Krausd, Gert Bangeb,1, and Sonja-Verena Albersa,1 aMolecular Biology of Archaea, Faculty of Biology, University of Freiburg, 79104 Freiburg, Germany; bLandes-Offensive zur Entwicklung Wissenschaftlich- ökonomischer Exzellenz Center for Synthetic Microbiology & Faculty of Chemistry, Philipps-University-Marburg, 35043 Marburg, Germany; cCell Biology, Faculty of Biology, University of Freiburg, 79104 Freiburg, Germany; and dFaculty of Chemistry, Philipps-University-Marburg, 35043 Marburg, Germany Edited by Norman R. Pace, University of Colorado at Boulder, Boulder, CO, and approved December 13, 2017 (received for review October 2, 2017) Motility is a central feature of many microorganisms and provides display different swimming mechanisms. Counterclockwise ro- an efficient strategy to respond to environmental changes. Bacteria tation results in smooth swimming in well-characterized peritri- and archaea have developed fundamentally different rotary motors chously flagellated bacteria such as Escherichia coli, whereas enabling their motility, termed flagellum and archaellum, respec- rotation in the opposite direction results in tumbling. In contrast, tively. Bacterial motility along chemical gradients, called chemo- in other bacteria (i.e., Vibrio alginolyticus) and haloarchaea, taxis, critically relies on the response regulator CheY, which, when clockwise rotation results -
Depth-Stratified Functional and Taxonomic Niche Specialization in the ‘Core’ and ‘Flexible’ Pacific Ocean Virome
The ISME Journal (2015) 9, 472–484 & 2015 International Society for Microbial Ecology All rights reserved 1751-7362/15 www.nature.com/ismej ORIGINAL ARTICLE Depth-stratified functional and taxonomic niche specialization in the ‘core’ and ‘flexible’ Pacific Ocean Virome Bonnie L Hurwitz1, Jennifer R Brum and Matthew B Sullivan Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, USA Microbes drive myriad ecosystem processes, and their viruses modulate microbial-driven processes through mortality, horizontal gene transfer, and metabolic reprogramming by viral-encoded auxiliary metabolic genes (AMGs). However, our knowledge of viral roles in the oceans is primarily limited to surface waters. Here we assess the depth distribution of protein clusters (PCs) in the first large- scale quantitative viral metagenomic data set that spans much of the pelagic depth continuum (the Pacific Ocean Virome; POV). This established ‘core’ (180 PCs; one-third new to science) and ‘flexible’ (423K PCs) community gene sets, including niche-defining genes in the latter (385 and 170 PCs are exclusive and core to the photic and aphotic zones, respectively). Taxonomic annotation suggested that tailed phages are ubiquitous, but not abundant (o5% of PCs) and revealed depth- related taxonomic patterns. Functional annotation, coupled with extensive analyses to document non-viral DNA contamination, uncovered 32 new AMGs (9 core, 20 photic and 3 aphotic) that introduce ways in which viruses manipulate infected host metabolism, and parallel depth-stratified host adaptations (for example, photic zone genes for iron–sulphur cluster modulation for phage production, and aphotic zone genes for high-pressure deep-sea survival). Finally, significant vertical flux of photic zone viruses to the deep sea was detected, which is critical for interpreting depth- related patterns in nature. -
Cell Structure and Function in the Bacteria and Archaea
4 Chapter Preview and Key Concepts 4.1 1.1 DiversityThe Beginnings among theof Microbiology Bacteria and Archaea 1.1. •The BacteriaThe are discovery classified of microorganismsinto several Cell Structure wasmajor dependent phyla. on observations made with 2. theThe microscope Archaea are currently classified into two 2. •major phyla.The emergence of experimental 4.2 Cellscience Shapes provided and Arrangements a means to test long held and Function beliefs and resolve controversies 3. Many bacterial cells have a rod, spherical, or 3. MicroInquiryspiral shape and1: Experimentation are organized into and a specific Scientificellular c arrangement. Inquiry in the Bacteria 4.31.2 AnMicroorganisms Overview to Bacterialand Disease and Transmission Archaeal 4.Cell • StructureEarly epidemiology studies suggested how diseases could be spread and 4. Bacterial and archaeal cells are organized at be controlled the cellular and molecular levels. 5. • Resistance to a disease can come and Archaea 4.4 External Cell Structures from exposure to and recovery from a mild 5.form Pili allowof (or cells a very to attach similar) to surfacesdisease or other cells. 1.3 The Classical Golden Age of Microbiology 6. Flagella provide motility. Our planet has always been in the “Age of Bacteria,” ever since the first 6. (1854-1914) 7. A glycocalyx protects against desiccation, fossils—bacteria of course—were entombed in rocks more than 3 billion 7. • The germ theory was based on the attaches cells to surfaces, and helps observations that different microorganisms years ago. On any possible, reasonable criterion, bacteria are—and always pathogens evade the immune system. have been—the dominant forms of life on Earth. -
The Role of Stress Proteins in Haloarchaea and Their Adaptive Response to Environmental Shifts
biomolecules Review The Role of Stress Proteins in Haloarchaea and Their Adaptive Response to Environmental Shifts Laura Matarredona ,Mónica Camacho, Basilio Zafrilla , María-José Bonete and Julia Esclapez * Agrochemistry and Biochemistry Department, Biochemistry and Molecular Biology Area, Faculty of Science, University of Alicante, Ap 99, 03080 Alicante, Spain; [email protected] (L.M.); [email protected] (M.C.); [email protected] (B.Z.); [email protected] (M.-J.B.) * Correspondence: [email protected]; Tel.: +34-965-903-880 Received: 31 July 2020; Accepted: 24 September 2020; Published: 29 September 2020 Abstract: Over the years, in order to survive in their natural environment, microbial communities have acquired adaptations to nonoptimal growth conditions. These shifts are usually related to stress conditions such as low/high solar radiation, extreme temperatures, oxidative stress, pH variations, changes in salinity, or a high concentration of heavy metals. In addition, climate change is resulting in these stress conditions becoming more significant due to the frequency and intensity of extreme weather events. The most relevant damaging effect of these stressors is protein denaturation. To cope with this effect, organisms have developed different mechanisms, wherein the stress genes play an important role in deciding which of them survive. Each organism has different responses that involve the activation of many genes and molecules as well as downregulation of other genes and pathways. Focused on salinity stress, the archaeal domain encompasses the most significant extremophiles living in high-salinity environments. To have the capacity to withstand this high salinity without losing protein structure and function, the microorganisms have distinct adaptations. -
03001770.Pdf
Serotyping of Albanian Plum Pox Virus isolates Stamo B., Myrta A., Boscia D. in Myrta A. (ed.), Di Terlizzi B. (ed.), Savino V. (ed.). Virus and virus-like diseases of stone fruits, with particular reference to the Mediterranean region Bari : CIHEAM Options Méditerranéennes : Série B. Etudes et Recherches; n. 45 2003 pages 57-60 Article available on line / Article disponible en ligne à l’adresse : -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- http://om.ciheam.org/article.php?IDPDF=3001770 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- To cite this article / Pour citer cet article -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Stamo B., Myrta A., Boscia D. Serotyping of Albanian Plum Pox Virus isolates. In : Myrta A. (ed.), Di Terlizzi B. (ed.), Savino V. (ed.). Virus and virus-like diseases of stone fruits, with particular reference to the Mediterranean region. Bari : CIHEAM, 2003. p. 57-60 (Options Méditerranéennes : Série B. Etudes et Recherches; n. 45) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- http://www.ciheam.org/ http://om.ciheam.org/ SEROTYPING -
Biotech/GM Crops in Horticulture: Plum Cv. Honeysweet Resistant to Plum Pox Virus
Plant Protect. Sci. Vol. 48, 2012, Special Issue: S43–S48 Biotech/GM Crops in Horticulture: Plum cv. HoneySweet Resistant to Plum Pox Virus Jaroslav POLÁK 1, Jiban KUMAR1, Boris KRŠKA2 and Michel RAVELONANDRO3 1Department of Virology, Division of Plant Health, Crop Research Institute, Prague, Czech Republic; 2Mendel University inBrno, Faculty of Horticulture, Lednice, Czech Republic; 3INRA-Bordeaux, Villenave d’Ornon, France Abstract Polák J., Kumar J., Krška B., Ravelonandro M. (2012): Biotech/GM crops in horticulture: Plum cv. Honey- Sweet resistant to Plum pox virus. Plant Protect. Sci., 48 (Special Issue): S43–S48. Commercialisation of Biotech/GM (Biotech) crops started in 1995. Not only field crops, but also horticultural transgenic crops are under development and are beginning to be commercialised. Genetic engineering has the potential to revolutionise fruit tree breeding. The development of transgenic fruit cultivars is in progress. Over the past 20 years an international public sector research team has collaborated in the development of HoneySweet plum which is highly resistant to Plum pox virus (PPV) the most devastating disease of plums and other stone fruits. HoneySweet was deregulated in the USA in 2010. HoneySweet (aka C5) has been evaluated for eleven years (2002–2012) in a regulated field trial in the Czech Republic for the resistance to PPV, Prune dwarf virus (PDV), and Apple chlorotic leaf spot virus (ACLSV), all of them being serious diseases of plum. Even under the high and permanent infection pressure produced through grafting, PPV has only been detected in HoneySweet trees in several leaves and fruits situated close to the point of inoculum grafting. -
Quantitative Insights Into the Cyanobacterial Cell Economy
bioRxiv preprint doi: https://doi.org/10.1101/446179; this version posted October 17, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. Quantitative insights into the cyanobacterial cell economy Tomáš Zavřel,1†∗ Marjan Faizi,2y Cristina Loureiro,3 Gereon Poschmann,4 Kai Stühler,4;5 Maria Sinetova,6 Anna Zorina,6 Ralf Steuer,2∗ Jan Červený1 1Laboratory of Adaptive Biotechnologies, Global Change Research Institute CAS, Brno, Czech Republic 2Humboldt-Universität zu Berlin, Institut für Biologie, Fachinstitut für Theoretische Biologie, Berlin, Germany 3Department of Applied Physics, Polytechnic University of Valencia, Valencia, Spain 4Molecular Proteomics Laboratory, BMFZ, Heinrich-Heine-Universität Düsseldorf, Düsseldorf, Germany 5Institute for Molecular Medicine, University Hospital Düsseldorf, Düsseldorf, Germany 6Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, Moscow, Russian Federation ∗Correspondence: [email protected], [email protected] yThese authors contributed equally to this work ABSTRACT growth rates, high productivity and amenability to genetic manipulations, cyanobacteria are considered as promising Phototrophic microorganisms are promising resources host organisms for synthesis of renewable bioproducts from for green biotechnology. Compared to heterotrophic atmospheric CO2 (Al-Haj et al., 2016; Zavřel et al., 2016), microorganisms, however, the cellular economy of and serve as important model organisms to understand and phototrophic growth is still insufficiently understood. improve photosynthetic productivity. We provide a quantitative analysis of light-limited, Understanding the cellular limits of photosynthetic pro- light-saturated, and light-inhibited growth of the ductivity in cyanobacteria, however, requires quantitative cyanobacterium Synechocystis sp. -
Barley Yellow Dwarf Virus Infection Leads to Higher Chemical Defense
fpls-09-00145 March 3, 2018 Time: 16:29 # 1 ORIGINAL RESEARCH published: 06 March 2018 doi: 10.3389/fpls.2018.00145 Barley yellow dwarf virus Infection Leads to Higher Chemical Defense Signals and Lower Electrophysiological Reactions in Susceptible Compared to Tolerant Barley Genotypes Maria K. Paulmann1,2, Grit Kunert2, Matthias R. Zimmermann1, Nina Theis2,3, Anatoli Ludwig1, Doreen Meichsner1, Ralf Oelmüller1, Jonathan Gershenzon2, Antje Habekuss4, Frank Ordon4, Alexandra C. U. Furch1* and Torsten Will4 1 Department of Plant Physiology, Matthias-Schleiden-Institute for Genetics, Bioinformatics and Molecular Botany, Faculty of Biological Sciences, Friedrich Schiller University Jena, Jena, Germany, 2 Department of Biochemistry, Max Planck Institute for Chemical Ecology, Jena, Germany, 3 Department of Biology, Elms College, Chicopee, MA, United States, 4 Institute for Edited by: Resistance Research and Stress Tolerance, Federal Research Centre for Cultivated Plants, Julius Kuehn-Institute, Vicenta Salvador Recatala, Quedlinburg, Germany Ronin Institute, United States Reviewed by: Barley yellow dwarf virus (BYDV) is a phloem limited virus that is persistently Michael Robert Thorpe, Australian National University, transmitted by aphids. Due to huge yield losses in agriculture, the virus is of high Australia economic relevance. Since the control of the virus itself is not possible, tolerant Stefanie Wienkoop, University of Vienna, Austria barley genotypes are considered as the most effective approach to avoid yield *Correspondence: losses. Although several genes and quantitative trait loci are known and used in Alexandra C. U. Furch barley breeding for virus tolerance, little is known about molecular and physiological [email protected] backgrounds of this trait. Therefore, we compared the anatomy and early defense Specialty section: responses of a virus susceptible to those of a virus-tolerant cultivar. -
Strain Identification and Sequence Variability of Plum Pox Virus in Turkey
Turkish Journal of Agriculture and Forestry Turk J Agric For (2016) 40: 746-760 http://journals.tubitak.gov.tr/agriculture/ © TÜBİTAK Research Article doi:10.3906/tar-1509-97 Strain identification and sequence variability of plum pox virus in Turkey 1,2, 1,3 Kahraman GÜRCAN *, Ahmet CEYLAN 1 Genome and Stem Cell Research Center, Erciyes University, Kayseri, Turkey 2 Department of Agricultural Biotechnology, Erciyes University, Kayseri, Turkey 3 Department of Biology, Erciyes University, Kayseri, Turkey Received: 29.09.2015 Accepted/Published Online: 22.06.2016 Final Version: 02.11.2016 Abstract: Plum pox virus (PPV) is the causal agent of sharka disease of stone fruit trees. Since the late 1960s, PPV infection has been reported in different regions of Turkey. In this study, we aim to discover PPV strains in infected regions and determine its genetic variability in Turkey. For this reason, 612 samples were collected from distant locations, where PPV was previously detected in most cases. First, PPV presence in the samples was tested with serological and molecular methods to confirm the disease. Then 314 positive samples were sequence analyzed at a 664-nucleotide length, including the P3-6K1 gene region, one of the most variable regions among Potyvirus species and quite conserved among different strains of a viral species. PPV-D and PPV-T strains were identified mostly in residential gardens, whereas PPV-M was mostly detected in the orchards, except one isolate that was identified as PPV-Rec in Bursa. PPV-T was found to be dominant in the Turkish PPV pool. Estimates of average evolutionary divergence over sequence pairs of P3-6K1 gene regions revealed that the mean intragroup diversity was 0.049 for W; 0.017 for Rec, T, and M; 0.14 for C; 0.012 for Turkish D; 0.009 for global D; and 0.007 for CR. -
Bg-15-2669-2018.Pdf
Biogeosciences, 15, 2669–2689, 2018 https://doi.org/10.5194/bg-15-2669-2018 © Author(s) 2018. This work is distributed under the Creative Commons Attribution 4.0 License. Dynamics and controls of heterotrophic prokaryotic production in the western tropical South Pacific Ocean: links with diazotrophic and photosynthetic activity France Van Wambeke1, Audrey Gimenez1, Solange Duhamel2, Cécile Dupouy1,3, Dominique Lefevre1, Mireille Pujo-Pay4, and Thierry Moutin1 1Aix-Marseille Université, CNRS, Université de Toulon, IRD, Mediterranean Institute of Oceanography (MIO) UM 110, 13288, Marseille, France 2Lamont-Doherty Earth Observatory, Division of Biology and Paleo Environment, Columbia University, P.O. Box 1000, 61 Route 9W, Palisades, New York 10964, USA 3Aix-Marseille Université, CNRS, Université de Toulon, IRD, Mediterranean Institute of Oceanography (MIO) UM 110, 98848, Nouméa, New Caledonia 4CNRS, Sorbonne Université, Laboratoire d’Océanographie Microbienne (LOMIC), UMR 7621, Observatoire Océanologique, 66650, Banyuls-sur-mer, France Correspondence: France Van Wambeke ([email protected]) Received: 22 December 2017 – Discussion started: 10 January 2018 Revised: 4 April 2018 – Accepted: 14 April 2018 – Published: 4 May 2018 Abstract. Heterotrophic prokaryotic production (BP) was zone. However, BP was more significantly correlated with studied in the western tropical South Pacific (WTSP) using PP, but not with N2 fixation rates where DIP was more avail- the leucine technique, revealing spatial and temporal vari- able (TDIP > 100 h), deeper in the Melanesian Archipelago, ability within the region. Integrated over the euphotic zone, or within the entire euphotic zone in the subtropical gyre. BP ranged from 58 to 120 mg C m−2 d−1 within the Melane- The bacterial carbon demand to gross primary production ra- sian Archipelago, and from 31 to 50 mg C m−2 d−1 within tio ranged from 0.75 to 3.1.