DOCSLIB.ORG

Biological Characteristics and Pathogenicity of a Highly Pathogenic Shewanella Marisflavi Infecting Sea Cucumber, Apostichopus J

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Biological Characteristics and Pathogenicity of a Highly Pathogenic Shewanella Marisflavi Infecting Sea Cucumber, Apostichopus J Journal of Fish Diseases 2010, 33, 865–877 doi:10.1111/j.1365-2761.2010.01189.x Biological characteristics and pathogenicity of a highly pathogenic Shewanella marisflavi infecting sea cucumber, Apostichopus japonicus HLi1, G Qiao1,QLi1, W Zhou1, K M Won2, D-H Xu3 and S-I Park2 1 Key Laboratory of Mariculture & Biotechnology, Agriculture Ministry, PRC, Dalian Fisheries University, Dalian, Liaoning Province, China 2 Department of Aquatic Life Medicine, Pukyong National University, Busan, Korea 3 U.S. Department of Agriculture, Agricultural Research Service, Aquatic Animal Health Research Laboratory, Auburn, AL, USA Keywords: biological characteristics, pathogenicity, Abstract sea cucumber, Shewanella marisflavi. Shewanella marisflavi isolate AP629 is described as a novel pathogen of sea cucumber. The LD50 values (14 days) in sea cucumber, mice and swordtail fish Introduction were 3.89 · 106, 6.80 · 104 and 4.85 · 104 CFU ) g 1 body weight, respectively. Studies on S. mari- The genus Shewanella has long been studied and sflavi were conducted, including morphology, classified taxonomically as Achromobacter, Pseudo- physiological and biochemical characteristics, monas, Alteromonas and Shewanella (Venkateswa- haemolysis, whole-cell protein and 16S rDNA gene ran, Moser, Dollhopf, Lies, Saffarini, MacGregor, sequence. Colonies of S. marisflavi appeared faint Ringelberg, White, Nishijima, Sano, Berghardt, red on marine agar and green on thiosulphate–cit- Stackebrandt & Nealson 1999). In 1985, Shewa- rate–bile salt–sucrose media. Shewanella marisflavi nella was defined as a new genus (Macdonell & had polar flagella. The cells were Gram-negative, Colwell 1985). Shewanella is phylogenetically (16S oxidase- and catalase-positive and not sensitive to O/ rDNA gene sequence) affiliated to the c-proteobac- 129. The bacterium exhibited b-haemolysis on teria (Gauthier, Gauthier & Christen 1995), sheep blood agar and produced H2S. Shewanella included in the family Shewanellaceae (Ivanova, marisflavi survived and grew at 4–35 °C, pH 6.0– Flavier & Christen 2004), containing about 35 9.2 and in the presence of 0–8% NaCl. The whole- Shewanella species. Shewanella are Gram-negative, cell proteins included 13 discrete bands, and long, motile bacilli. The most important character- proteins of molecular weight 87, 44 and 39 kDa istic of Shewanella is the production of hydrogen were found in all five strains of Shewanella spp. The sulphide on Kligler or triple sugar iron agar (TSIA) difference in 16S rDNA gene sequences in S. mari- (Venkateswaran et al. 1999). sflavi was at the 446 bp site: S. marisflavi (KCCM Shewanella are widely distributed in freshwater 41822) – G, isolate AP629 – A. This is the first and marine environments (Bozal, Montes, Tudela, report that Shewanella is pathogenic to sea Jimenez & Guinea 2002; Ivanova, Sawabe, Hayashi, cucumber. Gorshkova, Zhukova, Nedashkovskaya, Mikhailov, Nicolau & Christen 2003; Nealson, Myers & Correspondence S-I Park, Department of Aquatic Life Wimpee 1991), clinical samples (Brink, Van Straden Medicine, Pukyong National University, Busan, Korea & Van Rensburg 1995; Nozue, Hayashi, Hashim- (e-mail: [email protected]) and oto, Ezaki, Hamasaki, Ohwada & Terawaki 1992; H Li, Key Laboratory of Mariculture & Biotechnology, Agriculture Ministry, PRC, Dalian Fisheries University, China Vandepitte & Debois 1978), sediments (Myers & (e-mail: [email protected]) Nealson 1988) and oilfield fluids (Semple & West- Ó 2010 Blackwell Publishing Ltd 865 Journal of Fish Diseases 2010, 33, 865–877 HLietal. Biological characteristics and pathogenicity of S. marisflavi lake 1987). The bacteria are important in the Sea cucumber turnover of organic matter and capable of reduction of various metals and other substances, such as Healthy sea cucumber juveniles (body weight 1.6– nitrate, nitrite, thiosulphate and trimethylamine-N- 2.0 g) and adults (body weight 15–20 g) were oxide (Holt, Gahrn-Hansen & Bruun 2004). Many obtained from Dalianwan Hatchery. The juveniles clinical cases caused by Shewanella spp. are reported, and adults were transported to the laboratory and and the clinical syndromes caused by Shewanella spp. acclimatized for 7 days before pathogenicity assays. are generally similar to those caused by various The water parameters in the trials were: tempe- species of the marine halophilic genus Vibrio rature 11–15 °C, pH 8.0–8.4 and salinity 29.2– (Dalsgaard, Frimodt-Møller, Bruun, Høi & Larsen 30.8 ppt. 1996; Hornstrup & Gahrn-Hansen 1993; Leong, Mirkazemi & Kimble 2000). There are some reports Pathogenicity assays in sea cucumber associated with diseases of aquatic organisms. Shewanella was isolated from oyster (Richards, The pathogenicity of isolate AP269 was determined Watson, Crane, Burt & Bushek 2008) and ulcer in vivo following published protocols (Toranzo, disease of Sciaenops ocellata (Chen, Hu, Chen & Barja, Colwell, Hetrick & Crosa 1983; Nieto, Zhang 2003). In humans, the most common clinical Toranzo & Barja 1984). Suspensions of cultures syndrome is the infection of skin and soft tissue were prepared by reinoculating pure cultures on (Bulut, Ertem, Go¨kcek, Tulek, Bayar & Karakoc MA on test tube slants, culturing at 25 °C for 24 h, 2004; Chen, Lawrence, Packham & Sorrell 1991; washing with sterile sea water and then diluting to Chen, Liu, Yen, Wang, Wann & Cheng 1997; the appropriate concentrations (6.1 · 108, 6.1 · ) Dominguez, Vogel, Gram, Hoffmann & Schaebel 107 CFU mL 1). Each group included 10 sea 1996; Holmes, Lapage & Malnick 1975). cucumbers. Juvenile and adult sea cucumbers were There is only one report of S. marisflavi isolated infected by intraperitoneal and body wall injection from the Yellow Sea in South Korea (Yoon, Yeo, with bacterial suspensions of 0.1 mL per individual. Kim & Oh 2004). In the current study, the The control group was injected with an equal biological characteristics and pathogenicity of volume of sterile sea water. The sea cucumbers S. marisflavi to sea cucumber, Apostichopus japoni- were observed daily for 14 days post-bacterial cas, were analysed. challenge, and all mortalities were recorded. The sea cucumbers were considered to be killed by the bacteria if it was reisolated in pure culture from Materials and methods internal organs and skin ulcer. Four infection experiments for adults were conducted: intraperi- Shewanella marisflavi isolate and reference toneal injection, body wall injection, immersion strains infections with individuals wounded at four sites Thirty-one bacterial isolates were collected from and immersion infections of uninjured animals. diseased sea cucumber from 2004 to 2006. Shewa- Three infection methods were used for juvenile nella marisflavi strain AP629 was isolated from a cucumbers because of their thin body wall: intra- skin ulcer of a sea cucumber (body weight 1.6– peritoneal injection, immersion with wounded 2.0 g) in 2006 in Dalian, using MA (marine agar; individuals and normal immersion. The control Difco), TSAS (tryptic soy agar supplemented with groups were injected or immersed with the same 2% NaCl; Acumedia Manufacturers, Inc.) and volume of sterile sea water. thiosulphate–citrate–bile salt–sucrose (TCBS agar; Difco). All media were incubated at 25 °C for 48– Pathogenicity assays in sea cucumber, mice and 72 h. Five type strains were purchased from the swordtail fish (lethal dose 50%) Korean Culture Center of Microorganisms (KCCM) and Korean Collection for Type Cultures To compare the difference in virulence between (KCTC) and used in this study, including S. mari- animals, mice (17.0–19.0 g), juvenile sea cucumber sflavi (KCCM 41822), Shewanella aquimarina (body weight 1.6–2.0 g) and swordtail fish (Xipho- (KCCM 41821), Shewanella affinis (KCTC phorus helleri, 1.6–2.0 g) were injected intraperito- 12234), Shewanella waksmanii (KCTC 12233) neally or intramuscularly with 0.2, 0.1 and and Vibrio parahaemolyticus (KCTC 2471). 0.02 mL of bacterial suspensions (sea cucumber: Ó 2010 Blackwell Publishing Ltd 866 Journal of Fish Diseases 2010, 33, 865–877 HLietal. Biological characteristics and pathogenicity of S. marisflavi ) 5.06 · 108 to 5.06 · 104 CFU mL 1; mice: 2.06 sheep blood (blood agar base with 5% blood, ) · 108 to 2.06 · 104 CFU mL 1; swordtail: 2.27 · Scoaris Dde, Colacite, Nakamura, Ueda-Nakam- ) 107 to 2.27 · 102 CFU mL 1), respectively (Figs ura, de Abreu Filho & Filho 2008; Imzilm, Lafdal 3–5). An equal number of sea cucumbers injected & Jana 1996). with the same volume of sterile sea water or physiological saline were used as a control. Reiso- Whole-cell protein analysis lation was carried out as described earlier. At the end of the trial, the surviving sea cucumbers were The purified strains were precultured in TSBS killed, and the inoculated bacteria reisolated to test (tryptic soy broth supplemented with 1.5% NaCl, for a possible carrier state. Lethal dose 50% (LD50) Bacto 211825) for 36 h at 25 °C and 170 rpm. A values were calculated according to Reed & volume of 10 mL of each culture was transferred to Muench (1938). 200 mL of TSBS and reincubated for 36 h at 25 °C. Cells were harvested by centrifugation at 37250 g for 10 min at 4 °C, and the pellet was Morphological observation washed three times in PBS (0.1 m, pH 7.2). The The purified strain AP629 and type strains of washed cells were suspended to 50 mg (wet ) S. marisflavi and V. parahaemolyticus were streaked weight) mL 1 in sample buffer (0.125 m tris base on culture media MA, TSAS, NAS (nutrient agar buffer containing 2.5% (vol/vol) mercaptoethanol, supplemented with 1.5% NaCl; Difco) and BHIAS 2% (wt/vol) SDS and 25% glycerol (vol/vol); pH (brain heart infusion agar supplemented with 1.5% 6.8). The cell suspension was boiled for 10 min. NaCl; Difco), TCBS and MacConkey (Difco Protein concentrations were determined by a mod- 212123), using the plate-streaking method. All ification of the Lowry method (Laemmli 1970; media were incubated for 48–72 h at 25 °C, and Peterson 1977). Bovine serum albumin was used as a colony characteristics were recorded. Cell morpho- standard. Samples were stored at )80 °C in aliquots genesis was observed by transmission electron of 50 lL (no sample was frozen more than once).
Load more

Recommended publications
  • Bioactivity of Bacterial Strains Isolated from Marine Biofilms in Hong Kong Waters for the Induction of Larval Settlement in the Marine Polychaete Hydroides Elegans
    MARINE ECOLOGY PROGRESS SERIES Vol. 226: 301–310, 2002 Published January 31 Mar Ecol Prog Ser Bioactivity of bacterial strains isolated from marine biofilms in Hong Kong waters for the induction of larval settlement in the marine polychaete Hydroides elegans Stanley C. K. Lau1,*, Karen K. W. Mak1,**, Feng Chen2, Pei-Yuan Qian1 1Department of Biology, The Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong, PR China 2Center of Marine Biotechnology, University of Maryland, 701 East Pratt Street, Suite 236, Baltimore, Maryland 21202, USA ABSTRACT: In the present study, 38 bacterial isolates were obtained from a marine biofilm, identi- fied by the comparison of 16S rRNA gene sequences, and investigated by laboratory bioassays for their effects on larval settlement of the marine polychaete Hydroides elegans (Haswell). The bacter- ial isolates belonged to 3 phylogenetic branches: γ-Proteobacteria (26 isolates), Gram-positive (8 iso- lates) and Cytophaga-Flexibacter-Bacteroides (4 isolates). Most of the isolates were affiliated to the genera Vibrio (7 isolates), Alteromonas (8 isolates) or Pseudoalteromonas (8 isolates), which are in the γ-Proteobacteria branch. According to their efficacy to induce larval settlement of H. elegans in lab- oratory bioassays, the isolates were categorized as strongly, moderately, and non-inductive for larval settlement. About 42% of the isolates were categorized as non-inductive and the rest of the isolates contained equal numbers of highly and moderately inductive strains. The results indicated that lar- val settlement of H. elegans could be induced by bacteria in a wide range of taxa. The isolates that induced high and moderate levels of larval settlement belonged to the genus Cytophaga in the Cytophaga-Flexibacter-Bacteroides branch; the genera Bacillus, Brevibacterium, Micrococcus and Staphylococcus in the Gram-positive branch; and the genera Alteromonas, Pseudoalteromonas and Vibrio in the γ-Proteobacteria branch.
    [Show full text]
  • CUED Phd and Mphil Thesis Classes
    High-throughput Experimental and Computational Studies of Bacterial Evolution Lars Barquist Queens' College University of Cambridge A thesis submitted for the degree of Doctor of Philosophy 23 August 2013 Arrakis teaches the attitude of the knife { chopping off what's incomplete and saying: \Now it's complete because it's ended here." Collected Sayings of Muad'dib Declaration High-throughput Experimental and Computational Studies of Bacterial Evolution The work presented in this dissertation was carried out at the Wellcome Trust Sanger Institute between October 2009 and August 2013. This dissertation is the result of my own work and includes nothing which is the outcome of work done in collaboration except where specifically indicated in the text. This dissertation does not exceed the limit of 60,000 words as specified by the Faculty of Biology Degree Committee. This dissertation has been typeset in 12pt Computer Modern font using LATEX according to the specifications set by the Board of Graduate Studies and the Faculty of Biology Degree Committee. No part of this dissertation or anything substantially similar has been or is being submitted for any other qualification at any other university. Acknowledgements I have been tremendously fortunate to spend the past four years on the Wellcome Trust Genome Campus at the Sanger Institute and the European Bioinformatics Institute. I would like to thank foremost my main collaborators on the studies described in this thesis: Paul Gardner and Gemma Langridge. Their contributions and support have been invaluable. I would also like to thank my supervisor, Alex Bateman, for giving me the freedom to pursue a wide range of projects during my time in his group and for advice.
    [Show full text]
  • Antibacterial Activity and Mechanism of Linalool Against Shewanella Putrefaciens
    molecules Article Antibacterial Activity and Mechanism of Linalool against Shewanella putrefaciens Fengyu Guo 1,2,3, Qiong Liang 1, Ming Zhang 1, Wenxue Chen 1,2,3, Haiming Chen 1,2,3 , Yonghuan Yun 1,2,3 , Qiuping Zhong 1,2,3,* and Weijun Chen 1,2,3,* 1 College of Food Science and Technology, Hainan University, Haikou 570228, China; [email protected] (F.G.); [email protected] (Q.L.); [email protected] (M.Z.); [email protected] (W.C.); [email protected] (H.C.); [email protected] (Y.Y.) 2 Key Laboratory of Food Nutrition and Functional Food of Hainan Province, Haikou 570228, China 3 Hainan Provincial Engineering Research Center of Aquatic Resources Efficient Utilization in the South China Sea, Haikou 570228, China * Correspondence: [email protected] (Q.Z.); [email protected] (W.C.) Abstract: The demand for reduced chemical preservative usage is currently growing, and natural preservatives are being developed to protect seafood. With its excellent antibacterial properties, linalool has been utilized widely in industries. However, its antibacterial mechanisms remain poorly studied. Here, untargeted metabolomics was applied to explore the mechanism of Shewanella putrefaciens cells treated with linalool. Results showed that linalool exhibited remarkable antibacterial activity against S. putrefaciens, with 1.5 µL/mL minimum inhibitory concentration (MIC). The growth of S. putrefaciens was suppressed completely at 1/2 MIC and 1 MIC levels. Linalool treatment reduced the membrane potential (MP); caused the leakage of alkaline phosphatase (AKP); and released the DNA, RNA, and proteins of S. putrefaciens, thus destroying the cell structure and expelling the cytoplasmic content.
    [Show full text]
  • Updating the Taxonomic Toolbox: Classification of Alteromonas Spp
    1 Updating the taxonomic toolbox: classification of Alteromonas spp. 2 using Multilocus Phylogenetic Analysis and MALDI-TOF Mass 3 Spectrometry a a a 4 Hooi Jun Ng , Hayden K. Webb , Russell J. Crawford , François a b b c 5 Malherbe , Henry Butt , Rachel Knight , Valery V. Mikhailov and a, 6 Elena P. Ivanova * 7 aFaculty of Life and Social Sciences, Swinburne University of Technology, 8 PO Box 218, Hawthorn, Vic 3122, Australia 9 bBioscreen, Bio21 Institute, The University of Melbourne, Vic 3010, Australia 10 cG.B. Elyakov Pacific Institute of Bioorganic Chemistry, Far Eastern Branch, Russian 11 Academy of Sciences, Vladivostok 690022, Russian Federation 12 13 *Corresponding author: Tel: +61-3-9214-5137. Fax: +61-3-9214-5050. 14 E-mail: [email protected] 15 16 Abstract 17 Bacteria of the genus Alteromonas are Gram-negative, strictly aerobic, motile, 18 heterotrophic marine bacteria, known for their versatile metabolic activities. 19 Identification and classification of novel species belonging to the genus Alteromonas 20 generally involves DNA-DNA hybridization (DDH) as distinct species often fail to be 1 21 resolved at the 97% threshold value of the 16S rRNA gene sequence similarity. In this 22 study, the applicability of Multilocus Phylogenetic Analysis (MLPA) and Matrix- 23 Assisted Laser Desorption Ionization Time-of-Flight Mass Spectrometry (MALDI-TOF 24 MS) for the differentiation of Alteromonas species has been evaluated. Phylogenetic 25 analysis incorporating five house-keeping genes (dnaK, sucC, rpoB, gyrB, and rpoD) 26 revealed a threshold value of 98.9% that could be considered as the species cut-off 27 value for the delineation of Alteromonas spp.
    [Show full text]
  • Electrochemical Interaction of Shewanella Oneidensis MR-1 and Its Outer Membrane Cytochromes Omca and Mtrc with Hematite Electrodes
    Available online at www.sciencedirect.com Geochimica et Cosmochimica Acta 73 (2009) 5292–5307 www.elsevier.com/locate/gca Electrochemical interaction of Shewanella oneidensis MR-1 and its outer membrane cytochromes OmcA and MtrC with hematite electrodes Leisa A. Meitl a, Carrick M. Eggleston a,*, Patricia J.S. Colberg b, Nidhi Khare a, Catherine L. Reardon c, Liang Shi c a Department of Geology and Geophysics, University of Wyoming, Laramie, WY 82071, USA b Department of Civil and Architectural Engineering, University of Wyoming, Laramie, WY 82071, USA c Microbiology Group, Pacific Northwest National Laboratory, P.O. Box 999, MSIN: P7-50, Richland, WA 99354, USA Received 27 December 2008; accepted in revised form 15 June 2009; available online 28 June 2009 Abstract Bacterial metal reduction is an important biogeochemical process in anaerobic environments. An understanding of elec- tron transfer pathways from dissimilatory metal-reducing bacteria (DMRB) to solid phase metal (hydr)oxides is important for understanding metal redox cycling in soils and sediments, for utilizing DMRB in bioremedation, and for developing tech- nologies such as microbial fuel cells. Here we hypothesize that the outer membrane cytochromes OmcA and MtrC from Shewanella oneidensis MR-1 are the only terminal reductases capable of direct electron transfer to a hematite working elec- trode. Cyclic voltammetry (CV) was used to study electron transfer between hematite electrodes and protein films, S. oneid- ensis MR-1 wild-type cell suspensions, and cytochrome deletion mutants. After controlling for hematite electrode dissolution at negative potential, the midpoint potentials of adsorbed OmcA and MtrC were measured (À201 mV and À163 mV vs.
    [Show full text]
  • Actes Congrès MICROBIOD 1
    Actes du congrès international "Biotechnologie microbienne au service du développement" (MICROBIOD) Marrakech, MAROC 02-05 Novembre 2009 "Ce travail est publié avec le soutien du Ministère de l'Education Nationale, de l'Enseignement Supérieur, de la Formation des Cadres et de la Recherche Scientifique et du CNRST". MICROBIONA Edition www.ucam.ac.ma/microbiona 1 1 Mot du Comité d'organisation Cher (e) membre de MICROBIONA Cher(e) Participant(e), Sous le Haut Patronage de sa Majesté le Roi Mohammed VI, l'Association MICROBIONA et la Faculté des Sciences Semlalia, Université Cadi Ayyad, organisent du 02 au 05 Novembre 2009, en collaboration avec la Société Française de Microbiologie, le Pôle de Compétences Eau et Environnement et l'Incubateur Universitaire de Marrakech, le congrès international "Biotechnologie microbienne au service du développement" (MICROBIOD). Cette manifestation scientifique spécialisée permettra la rencontre de chercheurs de renommée internationale dans le domaine de la biotechnologie microbienne. Le congrès MICROBIOD est une opportunité pour les participants de mettre en relief l’importance socio-économique et environnementale de la valorisation et l’application de nouvelles techniques de biotechnologie microbienne dans divers domaines appliquées au développement et la gestion durable des ressources, à savoir l’agriculture, l'alimentation, l'environnement, la santé, l’industrie agro-alimentaire et le traitement et recyclage des eaux et des déchets par voie microbienne. Ce congrès sera également l’occasion pour les enseignants-chercheurs et les étudiants-chercheurs marocains d’actualiser leurs connaissances dans le domaine des biotechnologies microbiennes, qui serviront à l’amélioration de leurs recherches et enseignements. Le congrès MICROBIOD sera également l’occasion pour certains de nos collaborateurs étrangers de contribuer de près à la formation de nos étudiants en biotechnologie microbienne et ceci par la discussion des protocoles de travail, des méthodes d’analyse et des résultats obtenus.
    [Show full text]
  • Supporting Information
    Supporting Information Lozupone et al. 10.1073/pnas.0807339105 SI Methods nococcus, and Eubacterium grouped with members of other Determining the Environmental Distribution of Sequenced Genomes. named genera with high bootstrap support (Fig. 1A). One To obtain information on the lifestyle of the isolate and its reported member of the Bacteroidetes (Bacteroides capillosus) source, we looked at descriptive information from NCBI grouped firmly within the Firmicutes. This taxonomic error was (www.ncbi.nlm.nih.gov/genomes/lproks.cgi) and other related not surprising because gut isolates have often been classified as publications. We also determined which 16S rRNA-based envi- Bacteroides based on an obligate anaerobe, Gram-negative, ronmental surveys of microbial assemblages deposited near- nonsporulating phenotype alone (6, 7). A more recent 16S identical sequences in GenBank. We first downloaded the gbenv rRNA-based analysis of the genus Clostridium defined phylo- files from the NCBI ftp site on December 31, 2007, and used genetically related clusters (4, 5), and these designations were them to create a BLAST database. These files contain GenBank supported in our phylogenetic analysis of the Clostridium species in the HGMI pipeline. We thus designated these Clostridium records for the ENV database, a component of the nonredun- species, along with the species from other named genera that dant nucleotide database (nt) where 16S rRNA environmental cluster with them in bootstrap supported nodes, as being within survey data are deposited. GenBank records for hits with Ͼ98% these clusters. sequence identity over 400 bp to the 16S rRNA sequence of each of the 67 genomes were parsed to get a list of study titles Annotation of GTs and GHs.
    [Show full text]
  • Diversity and Evolution of Bacterial Bioluminescence Genes in the Global Ocean Thomas Vannier, Pascal Hingamp, Floriane Turrel, Lisa Tanet, Magali Lescot, Y
    Diversity and evolution of bacterial bioluminescence genes in the global ocean Thomas Vannier, Pascal Hingamp, Floriane Turrel, Lisa Tanet, Magali Lescot, Y. Timsit To cite this version: Thomas Vannier, Pascal Hingamp, Floriane Turrel, Lisa Tanet, Magali Lescot, et al.. Diversity and evolution of bacterial bioluminescence genes in the global ocean. NAR Genomics and Bioinformatics, Oxford University Press, 2020, 2 (2), 10.1093/nargab/lqaa018. hal-02514159 HAL Id: hal-02514159 https://hal.archives-ouvertes.fr/hal-02514159 Submitted on 21 Mar 2020 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Published online 14 March 2020 NAR Genomics and Bioinformatics, 2020, Vol. 2, No. 2 1 doi: 10.1093/nargab/lqaa018 Diversity and evolution of bacterial bioluminescence genes in the global ocean Thomas Vannier 1,2,*, Pascal Hingamp1,2, Floriane Turrel1, Lisa Tanet1, Magali Lescot 1,2,* and Youri Timsit 1,2,* 1Aix Marseille Univ, Universite´ de Toulon, CNRS, IRD, MIO UM110, 13288 Marseille, France and 2Research / Federation for the study of Global Ocean Systems Ecology and Evolution, FR2022 Tara GOSEE, 3 rue Michel-Ange, Downloaded from https://academic.oup.com/nargab/article-abstract/2/2/lqaa018/5805306 by guest on 21 March 2020 75016 Paris, France Received October 21, 2019; Revised February 14, 2020; Editorial Decision March 02, 2020; Accepted March 06, 2020 ABSTRACT ganisms and is particularly widespread in marine species (7–9).
    [Show full text]
  • Genomic Encyclopedia of Sugar Utilization Pathways in The
    Rodionov et al. BMC Genomics 2010, 11:494 http://www.biomedcentral.com/1471-2164/11/494 RESEARCH ARTICLE Open Access Genomic encyclopedia of sugar utilization pathways in the Shewanella genus Dmitry A Rodionov1,2, Chen Yang1,3, Xiaoqing Li1, Irina A Rodionova1, Yanbing Wang4, Anna Y Obraztsova4,7, Olga P Zagnitko5, Ross Overbeek5, Margaret F Romine6, Samantha Reed6, James K Fredrickson6, Kenneth H Nealson4,7, Andrei L Osterman1,5* Abstract Background: Carbohydrates are a primary source of carbon and energy for many bacteria. Accurate projection of known carbohydrate catabolic pathways across diverse bacteria with complete genomes constitutes a substantial challenge due to frequent variations in components of these pathways. To address a practically and fundamentally important challenge of reconstruction of carbohydrate utilization machinery in any microorganism directly from its genomic sequence, we combined a subsystems-based comparative genomic approach with experimental validation of selected bioinformatic predictions by a combination of biochemical, genetic and physiological experiments. Results: We applied this integrated approach to systematically map carbohydrate utilization pathways in 19 genomes from the Shewanella genus. The obtained genomic encyclopedia of sugar utilization includes ~170 protein families (mostly metabolic enzymes, transporters and transcriptional regulators) spanning 17 distinct pathways with a mosaic distribution across Shewanella species providing insights into their ecophysiology and adaptive evolution. Phenotypic
    [Show full text]
  • Identification of the Specific Spoilage Organism in Farmed Sturgeon
    foods Article Identification of the Specific Spoilage Organism in Farmed Sturgeon (Acipenser baerii) Fillets and Its Associated Quality and Flavour Change during Ice Storage Zhichao Zhang 1,2,†, Ruiyun Wu 1,† , Meng Gui 3, Zhijie Jiang 4 and Pinglan Li 1,* 1 Beijing Laboratory for Food Quality and Safety, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing 100083, China; [email protected] (Z.Z.); [email protected] (R.W.) 2 Jiangxi Institute of Food Inspection and Testing, Nanchang 330001, China 3 Beijing Fisheries Research Institute, Beijing 100083, China; [email protected] 4 NMPA Key Laboratory for Research and Evaluation of Generic Drugs, Beijing Institute for Drug Control, Beijing 102206, China; [email protected] * Correspondence: [email protected]; Tel.: +86-10-6273-8678 † The authors contributed equally to this work. Abstract: Hybrid sturgeon, a popular commercial fish, plays important role in the aquaculture in China, while its spoilage during storage significantly limits the commercial value. In this study, the specific spoilage organisms (SSOs) from ice stored-sturgeon fillet were isolated and identified by analyzing their spoilage related on sensory change, microbial growth, and biochemical properties, including total volatile base nitrogen (TVBN), thiobarbituric acid reactive substances (TBARS), and proteolytic degradation. In addition, the effect of the SSOs on the change of volatile flavor compounds was evaluated by solid phase microextraction (SPME) and gas chromatography-mass spectrometry (GC-MS). The results showed that the Pseudomonas fluorescens, Pseudomonas mandelii, Citation: Zhang, Z.; Wu, R.; Gui, M.; and Shewanella putrefaciens were the main SSOs in the ice stored-sturgeon fillet, and significantly affect Jiang, Z.; Li, P.
    [Show full text]
  • DOE-ERSP PI MEETING 2007 Abstracts
    DOE-ERSP PI MEETING: Abstracts April 16–19, 2007 Lansdowne, Virginia Environmental Remediation Sciences Program (ERSP) This work was supported by the Office of Science, Biological and Environmental Research, Environmental Remediation Sciences Division (ERSD), U.S. Department of Energy under Contract No. DE-AC02-05CH11231. Table of Contents Introduction.............................................................................................................................5 ERSP Contacts.......................................................................................................................7 ERSP Annual PI Meeting Preliminary Agenda .......................................................................9 ABSTRACTS .......................................................................................................................13 GENERAL ERSP ABSTRACTS.......................................................................................15 Allen-King ......................................................................................................................17 Apel ...............................................................................................................................18 Baer...............................................................................................................................19 Baldwin..........................................................................................................................20 Bargar............................................................................................................................21
    [Show full text]
  • Hal 89-106 Alimuddin Enzim
    Microbial community of black band disease on infection ... (Ofri Johan) MICROBIAL COMMUNITY OF BLACK BAND DISEASE ON INFECTION, HEALTHY, AND DEAD PART OF SCLERACTINIAN Montipora sp. COLONY AT SERIBU ISLANDS, INDONESIA Ofri Johan*)#, Dietriech G. Bengen**), Neviaty P. Zamani**), Suharsono***), David Smith****), Angela Mariana Lusiastuti*****), and Michael J. Sweet******) *) Research and Development Institute for Ornamental Fish Culture, Jakarta **) Department of Marine Science and Technology, Faculty of Fisheries and Marine Science, Bogor Agricultural University ***) Research Center for Oceanography, The Indonesian Institute of Science ****) School of Biology, Newcastle University, NE1 7RU, United Kingdom *****) Center for Aquaculture Research and Development ******) Biological Sciences Research Group, University of Derby, Kedleston Road, Derby, DE22 1GB, United Kingdom (Received 19 March 2014; Final revised 12 September 2014; Accepted 10 November 2014) ABSTRACT It is crucial to understand the microbial community associated with the host when attempting to discern the pathogen responsible for disease outbreaks in scleractinian corals. This study determines changes in the bacterial community associated with Montipora sp. in response to black band disease in Indonesian waters. Healthy, diseased, and dead Montipora sp. (n = 3 for each sample type per location) were collected from three different locations (Pari Island, Pramuka Island, and Peteloran Island). DGGE (Denaturing Gradient Gel Electrophoresis) was carried out to identify the bacterial community associated with each sample type and histological analysis was conducted to identify pathogens associated with specific tissues. Various Desulfovibrio species were found as novelty to be associated with infection samples, including Desulfovibrio desulfuricans, Desulfovibrio magneticus, and Desulfovibrio gigas, Bacillus benzoevorans, Bacillus farraginis in genus which previously associated with pathogenicity in corals.
    [Show full text]