Estructura De La Celula Bacteriana Pdf
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Ctsr, the Master Regulator of Stress-Response in Oenococcus
CtsR, the Master Regulator of Stress-Response in Oenococcus oeni, Is a Heat Sensor Interacting With ClpL1 Maud Darsonval, Frédérique Julliat, Tarek Msadek, Hervé Alexandre, Cosette Grandvalet To cite this version: Maud Darsonval, Frédérique Julliat, Tarek Msadek, Hervé Alexandre, Cosette Grandvalet. CtsR, the Master Regulator of Stress-Response in Oenococcus oeni, Is a Heat Sensor Interacting With ClpL1. Frontiers in Microbiology, Frontiers Media, 2018, 9, pp.1-14. 10.3389/fmicb.2018.03135. hal-01986589 HAL Id: hal-01986589 https://hal.archives-ouvertes.fr/hal-01986589 Submitted on 18 Jan 2019 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. Distributed under a Creative Commons Attribution| 4.0 International License fmicb-09-03135 December 15, 2018 Time: 15:10 # 1 ORIGINAL RESEARCH published: 18 December 2018 doi: 10.3389/fmicb.2018.03135 CtsR, the Master Regulator of Stress-Response in Oenococcus oeni, Is a Heat Sensor Interacting With ClpL1 Maud Darsonval1†, Frédérique Julliat1†, Tarek Msadek2,3, Hervé Alexandre1,4 and Cosette Grandvalet1,5* 1 UMR -
Evolution of Superior Lactic Acid Bacteria
Enhanced Wine-Making Efficiency Through Fool-Proof Malolactic Fermentation: Evolution of Superior Lactic Acid Bacteria Alice Livingston Betteridge A thesis submitted for the degree of Doctor of Philosophy School of Agriculture, Food and Wine Faculty of Sciences The University of Adelaide January 2015 Table of Contents Table of Contents Summary ................................................................................................................................ iv Declaration of authorship ....................................................................................................... vi Acknowledgements .............................................................................................................. vii List of Figures ........................................................................................................................ ix List of Tables .......................................................................................................................... x Abbreviations and Symbols ................................................................................................... xi Chapter 1. Strategies to improve the stress tolerance of Oenococcus oeni to enable highly efficient malolactic fermentation ........................................................... 1 1.1 Abstract .................................................................................................................... 1 1.2 Introduction ............................................................................................................. -
Deciphering a Marine Bone Degrading Microbiome Reveals a Complex Community Effort
bioRxiv preprint doi: https://doi.org/10.1101/2020.05.13.093005; this version posted November 18, 2020. 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. 1 Deciphering a marine bone degrading microbiome reveals a complex community effort 2 3 Erik Borcherta,#, Antonio García-Moyanob, Sergio Sanchez-Carrilloc, Thomas G. Dahlgrenb,d, 4 Beate M. Slabya, Gro Elin Kjæreng Bjergab, Manuel Ferrerc, Sören Franzenburge and Ute 5 Hentschela,f 6 7 aGEOMAR Helmholtz Centre for Ocean Research Kiel, RD3 Research Unit Marine Symbioses, 8 Kiel, Germany 9 bNORCE Norwegian Research Centre, Bergen, Norway 10 cCSIC, Institute of Catalysis, Madrid, Spain 11 dDepartment of Marine Sciences, University of Gothenburg, Gothenburg, Sweden 12 eIKMB, Institute of Clinical Molecular Biology, University of Kiel, Kiel, Germany 13 fChristian-Albrechts University of Kiel, Kiel, Germany 14 15 Running Head: Marine bone degrading microbiome 16 #Address correspondence to Erik Borchert, [email protected] 17 Abstract word count: 229 18 Text word count: 4908 (excluding Abstract, Importance, Materials and Methods) 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.05.13.093005; this version posted November 18, 2020. 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. 19 Abstract 20 The marine bone biome is a complex assemblage of macro- and microorganisms, however the 21 enzymatic repertoire to access bone-derived nutrients remains unknown. -
Zygote Gene Expression and Plasmodial Development in Didymium Iridis
DePaul University Via Sapientiae College of Science and Health Theses and Dissertations College of Science and Health Summer 8-25-2019 Zygote gene expression and plasmodial development in Didymium iridis Sean Schaefer DePaul University, [email protected] Follow this and additional works at: https://via.library.depaul.edu/csh_etd Part of the Biology Commons Recommended Citation Schaefer, Sean, "Zygote gene expression and plasmodial development in Didymium iridis" (2019). College of Science and Health Theses and Dissertations. 322. https://via.library.depaul.edu/csh_etd/322 This Thesis is brought to you for free and open access by the College of Science and Health at Via Sapientiae. It has been accepted for inclusion in College of Science and Health Theses and Dissertations by an authorized administrator of Via Sapientiae. For more information, please contact [email protected]. Zygote gene expression and plasmodial development in Didymium iridis A Thesis presented in Partial fulfillment of the Requirements for the Degree of Master of Biology By Sean Schaefer 2019 Advisor: Dr. Margaret Silliker Department of Biological Sciences College of Liberal Arts and Sciences DePaul University Chicago, IL Abstract: Didymium iridis is a cosmopolitan species of plasmodial slime mold consisting of two distinct life stages. Haploid amoebae and diploid plasmodia feed on microscopic organisms such as bacteria and fungi through phagocytosis. Sexually compatible haploid amoebae act as gametes which when fused embark on an irreversible developmental change resulting in a diploid zygote. The zygote can undergo closed mitosis resulting in a multinucleated plasmodium. Little is known about changes in gene expression during this developmental transition. Our principal goal in this study was to provide a comprehensive list of genes likely to be involved in plasmodial development. -
Changes in the Composition of the Lactic Acid Bacteria Behavior And
fermentation Article Changes in the Composition of the Lactic Acid Bacteria Behavior and the Diversity of Oenococcus oeni Isolated from Red Wines Supplemented with Selected Grape Phenolic Compounds Ingrid Collombel 1 , Francisco M. Campos 1 and Tim Hogg 1,2,* 1 CBQF—Centro de Biotecnologia e Química Fina—Laboratório Associado, Escola Superior de Biotecnologia, Universidade Católica Portuguesa, 4202-401 Porto, Portugal; [email protected] (I.C.); [email protected] (F.M.C.) 2 Plataforma de Inovação da Vinha e do Vinho, Universidade dos Tras-os-Montes e Alto Douro, 5001-801 Vila Real, Portugal * Correspondence: [email protected]; Tel. +351-225-580-066 Received: 19 November 2018; Accepted: 18 December 2018; Published: 20 December 2018 Abstract: Phenolic compounds are important components of wine and are known to have an impact on the physiology of wine microbes. The influence of specific sub-sets of phenolic compounds on the growth and metabolism of lactic acid bacteria (LAB) and on the diversity of Oenococcus oeni in inoculated and non-inoculated red wines was investigated during malolactic fermentation (MLF) and subsequent storage. Representative O. oeni strains from wines treated with flavonols and trans-resveratrol were isolated and analyzed by pulsed-field gel electrophoresis of rare restriction enzyme digests (REA-PFGE). 28 days after MLF initiation, strains from all samples had entered the death phase, except those supplemented with trans-resveratrol. In the non-inoculated samples, the onset of lactic acid production was apparently delayed by all compounds tested, except for the flavan-3-ols. Increased levels of phenolics also delayed citrate consumption in inoculated samples. -
Systema Naturae 2000 (Phylum, 6 Nov 2017)
The Taxonomicon Systema Naturae 2000 Classification of Domain Bacteria (prokaryotes) down to Phylum Compiled by Drs. S.J. Brands Universal Taxonomic Services 6 Nov 2017 Systema Naturae 2000 - Domain Bacteria - Domain Bacteria Woese et al. 1990 1 Genus †Eoleptonema Schopf 1983, incertae sedis 2 Genus †Primaevifilum Schopf 1983, incertae sedis 3 Genus †Archaeotrichion Schopf 1968, incertae sedis 4 Genus †Siphonophycus Schopf 1968, incertae sedis 5 Genus Bactoderma Tepper and Korshunova 1973 (Approved Lists 1980), incertae sedis 6 Genus Stibiobacter Lyalikova 1974 (Approved Lists 1980), incertae sedis 7.1.1.1.1.1 Superphylum "Proteobacteria" Craig et al. 2010 1.1 Phylum "Alphaproteobacteria" 1.2.1 Phylum "Acidithiobacillia" 1.2.2.1 Phylum "Gammaproteobacteria" 1.2.2.2.1 Candidate phylum Muproteobacteria (RIF23) Anantharaman et al. 2016 1.2.2.2.2 Phylum "Betaproteobacteria" 2 Phylum "Zetaproteobacteria" 7.1.1.1.1.2 Phylum "Deltaproteobacteria_1" 7.1.1.1.2.1.1.1 Phylum "Deltaproteobacteria" [polyphyletic] 7.1.1.1.2.1.1.2.1 Phylum "Deltaproteobacteria_2" 7.1.1.1.2.1.1.2.2 Phylum "Deltaproteobacteria_3" 7.1.1.1.2.1.2 Candidate phylum Dadabacteria (CSP1-2) Hug et al. 2015 7.1.1.1.2.2.1 Candidate phylum "MBNT15" 7.1.1.1.2.2.2 Candidate phylum "Uncultured Bacterial Phylum 10 (UBP10)" Parks et al. 2017 7.1.1.2.1 Phylum "Nitrospirae_1" 7.1.1.2.2 Phylum Chrysiogenetes Garrity and Holt 2001 7.1.2.1.1 Phylum "Nitrospirae" Garrity and Holt 2001 [polyphyletic] 7.1.2.1.2.1.1 Candidate phylum Rokubacteria (CSP1-6) Hug et al. -
A Taxonomic Note on the Genus Lactobacillus
TAXONOMIC DESCRIPTION Zheng et al., Int. J. Syst. Evol. Microbiol. DOI 10.1099/ijsem.0.004107 A taxonomic note on the genus Lactobacillus: Description of 23 novel genera, emended description of the genus Lactobacillus Beijerinck 1901, and union of Lactobacillaceae and Leuconostocaceae Jinshui Zheng1†, Stijn Wittouck2†, Elisa Salvetti3†, Charles M.A.P. Franz4, Hugh M.B. Harris5, Paola Mattarelli6, Paul W. O’Toole5, Bruno Pot7, Peter Vandamme8, Jens Walter9,10, Koichi Watanabe11,12, Sander Wuyts2, Giovanna E. Felis3,*,†, Michael G. Gänzle9,13,*,† and Sarah Lebeer2† Abstract The genus Lactobacillus comprises 261 species (at March 2020) that are extremely diverse at phenotypic, ecological and gen- otypic levels. This study evaluated the taxonomy of Lactobacillaceae and Leuconostocaceae on the basis of whole genome sequences. Parameters that were evaluated included core genome phylogeny, (conserved) pairwise average amino acid identity, clade- specific signature genes, physiological criteria and the ecology of the organisms. Based on this polyphasic approach, we propose reclassification of the genus Lactobacillus into 25 genera including the emended genus Lactobacillus, which includes host- adapted organisms that have been referred to as the Lactobacillus delbrueckii group, Paralactobacillus and 23 novel genera for which the names Holzapfelia, Amylolactobacillus, Bombilactobacillus, Companilactobacillus, Lapidilactobacillus, Agrilactobacil- lus, Schleiferilactobacillus, Loigolactobacilus, Lacticaseibacillus, Latilactobacillus, Dellaglioa, -
Lists of Names of Prokaryotic Candidatus Taxa
NOTIFICATION LIST: CANDIDATUS LIST NO. 1 Oren et al., Int. J. Syst. Evol. Microbiol. DOI 10.1099/ijsem.0.003789 Lists of names of prokaryotic Candidatus taxa Aharon Oren1,*, George M. Garrity2,3, Charles T. Parker3, Maria Chuvochina4 and Martha E. Trujillo5 Abstract We here present annotated lists of names of Candidatus taxa of prokaryotes with ranks between subspecies and class, pro- posed between the mid- 1990s, when the provisional status of Candidatus taxa was first established, and the end of 2018. Where necessary, corrected names are proposed that comply with the current provisions of the International Code of Nomenclature of Prokaryotes and its Orthography appendix. These lists, as well as updated lists of newly published names of Candidatus taxa with additions and corrections to the current lists to be published periodically in the International Journal of Systematic and Evo- lutionary Microbiology, may serve as the basis for the valid publication of the Candidatus names if and when the current propos- als to expand the type material for naming of prokaryotes to also include gene sequences of yet-uncultivated taxa is accepted by the International Committee on Systematics of Prokaryotes. Introduction of the category called Candidatus was first pro- morphology, basis of assignment as Candidatus, habitat, posed by Murray and Schleifer in 1994 [1]. The provisional metabolism and more. However, no such lists have yet been status Candidatus was intended for putative taxa of any rank published in the journal. that could not be described in sufficient details to warrant Currently, the nomenclature of Candidatus taxa is not covered establishment of a novel taxon, usually because of the absence by the rules of the Prokaryotic Code. -
Taxonomic Status of Lactic Acid Bacteria in Wine and Key Characteristics to Differentiate Species
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Stellenbosch University: SUNJournals Taxonomic Status of Lactic Acid Bacteria in Wine and Key Characteristics to Differentiate Species L.M.T. Dicks* and A. Endo Department of Microbiology, Stellenbosch University, Private Bag X1, 7602 Matieland (Stellenbosch), South Africa Submitted for publication: March 2009 Accepted for publication: May 2009 Key words: Taxonomy; malolactic bacteria; key characteristics Oenococcus oeni is the best malolactic bacterium adapted to low pH and the high SO2 and ethanol concentrations in wine. Leuconostoc mesenteroides and Leuconostoc paramesenteroides (now classified asWeissella paramesenteroides) have also been isolated from wine. Pediococcus damnosus is not often found in wine and is considered a contaminant of high pH wines. Pediococcus inopinatus, Pediococcus parvulus and Pediococcus pentosaceus have occasionally been isolated from wines. Lactobacillus brevis, Lactobacillus plantarum, Lactobacillus buchneri, Lactobacillus hilgardii (previously Lactobacillus vermiforme), Lactobacillus fructivorans (previously Lactobacillus trichoides and Lactobacillus heterohiochii) and Lactobacillus fermentum have been isolated from most wines. Lactobacillus hilgardii and L. fructivorans are resistant to high acid and alcohol and have been isolated from spoiled fortified wines. Lactobacillus vini, Lactobacillus lindneri, Lactobacillus nagelii and Lactobacillus kunkeei have been described more recently. The latter two species are -
Bootstrap Values 1 0 0.1 Co Bin71 00388
WP 026687097.1 - Azovibrio restrictus - 3d Bootstrap values WP 027457859.1 - Dechloromonas agitata - 3d 1 WP 013293541.1 - Gallionella capsiferriformans - 3d WP 004322153.1 - Thauera aminoaromatica - 3d WP 015765571.1 - Candidatus Accumulibacter phosphatis - 3d WP 013029742.1 - Sideroxydans lithotrophicus - 3d WP 009205622.1 - Sulfuricella denitrificans - 3d WP 011380994.1 - Nitrosospira multiformis - 3d WP 011385756.1 - Magnetospirillum magneticum - 3d WP 028994701.1 - Azonexus hydrophilus - 3d WP 020162845.1 - Methyloversatilis universalis - 3d WP 022771893.1 - Symbiobacter mobilis - 3d WP 011466117.1 - Rhodoferax ferrireducens - 3d WP 011493687.1 - Burkholderia xenovorans - 3d WP 012346489.1 - Leptothrix cholodnii - 3d WP 020393771.1 - Thiothrix disciformis - 3d WP 009849435.1 - Mariprofundus ferrooxydans - 3d WP 028864775.1 - Psychromonas aquimarina - 3d WP 010959484.1 - Methylococcus capsulatus - 3d WP 029133296.1 - Sedimenticola selenatireducens - 3d S2 bin22 01677 - Gammaproteobacteria WP 020504783.1 - Lamprocystis purpurea - 3d WP 007191642.1 - Thiocapsa marina - 3d WP 028451929.1 - Chitinilyticum aquatile - 3d WP 028455450.1 - Chitinilyticum litopenaei - 3d WP 012591738.1 - Methylocella silvestris - 3d WP 006931831.1 - Labrenzia aggregata - 3d WP 011394103.1 - Hahella chejuensis - 3d S3 bin32 00249 - Planctomycetes 0 S8 bin16 03139 - Planctomycetes S2 bin2 02316 - Bacteroidetes Co bin115 00413 - Candidatus Marinimicrobia S4 bin27 00978 - Bacteroidetes Co bin11 01875 - Bacteroidetes Co bin265 02371 - Bacteroidetes S2 bin54 01708 -
Oenococcus Oeni Through Comparative Genomics of Apple Cider and Kombucha Strains
Expanding the biodiversity of Oenococcus oeni through comparative genomics of apple cider and kombucha strains. Marc P. Lorentzen, Hugo Campbell-Sills, Tue S Jorgensen, Tue K Nielsen, Monika Coton, Emmanuel Coton, Lars Hansen, Patrick Lucas To cite this version: Marc P. Lorentzen, Hugo Campbell-Sills, Tue S Jorgensen, Tue K Nielsen, Monika Coton, et al.. Expanding the biodiversity of Oenococcus oeni through comparative genomics of apple cider and kombucha strains.. BMC Genomics, In press, 20 (1), pp.330. 10.1186/s12864-019-5692-3. hal- 03043113 HAL Id: hal-03043113 https://hal.archives-ouvertes.fr/hal-03043113 Submitted on 7 Dec 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. Lorentzen et al. BMC Genomics (2019) 20:330 https://doi.org/10.1186/s12864-019-5692-3 RESEARCH ARTICLE Open Access Expanding the biodiversity of Oenococcus oeni through comparative genomics of apple cider and kombucha strains Marc P. Lorentzen1* , Hugo Campbell-Sills1,2, Tue S. Jorgensen3, Tue K. Nielsen3, Monika Coton4, Emmanuel Coton4, Lars Hansen3 and Patrick M. Lucas1 Abstract Background: Oenococcus oeni is a lactic acid bacteria species adapted to the low pH, ethanol-rich environments of wine and cider fermentation, where it performs the crucial role of malolactic fermentation. -
Effect of Biofilm Formation by Oenococcus Oeni on Malolactic Fermentation and Therelease of Aromatic Compounds in Wine
Effect of Biofilm Formation by Oenococcus oenion Malolactic Fermentation and the Release of Aromatic Compounds in Wine Alexandre Bastard, Christian Coelho, Romain Briandet, Alexis Canette, Régis Gougeon, Hervé Alexandre, Jean Guzzo, Stéphanie Weidmann To cite this version: Alexandre Bastard, Christian Coelho, Romain Briandet, Alexis Canette, Régis Gougeon, et al.. Effect of Biofilm Formation by Oenococcus oeni on Malolactic Fermentation and theRelease of Aromatic Compounds in Wine. Frontiers in Microbiology, Frontiers Media, 2016, 7 (613), 10.3389/fmicb.2016.00613. hal-01482143 HAL Id: hal-01482143 https://hal-univ-bourgogne.archives-ouvertes.fr/hal-01482143 Submitted on 27 May 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. fmicb-07-00613 April 25, 2016 Time: 11:49 # 1 ORIGINAL RESEARCH published: 27 April 2016 doi: 10.3389/fmicb.2016.00613 Effect of Biofilm Formation by Oenococcus oeni on Malolactic Fermentation and the Release of Aromatic Compounds in Wine Alexandre Bastard1, Christian Coelho2, Romain Briandet3, Alexis Canette3, Régis Gougeon2, Hervé Alexandre1, Jean Guzzo1 and Stéphanie Weidmann1* 1 UMR A PAM Université Bourgogne Franche-Comté – AgroSup Dijon – Equipe Vin, Aliment, Microbiologie, Dijon, France, 2 UMR A PAM Université Bourgogne Franche-Comté – AgroSup Dijon – Equipe Procédés Alimentaires et Physico-Chimie, Dijon, France, 3 Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, Jouy-en-Josas, France The winemaking process involves the alcoholic fermentation of must, often followed by malolactic fermentation (MLF).