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354 results on '"Moore, Edward R. B."'

2. Advancements in prokaryotic systematics and the role of Bergey's International Society for Microbial Systematics (BISMiS) in addressing challenges in the meta-data era

Author

Yu Jiao, Jian-, primary, Abdugheni, Rashidin, additional, Zhang, Dao-Feng, additional, Ahmed, Iftikhar, additional, Ali, Mukhtiar, additional, Chuvochina, Maria, additional, Dedysh, Svetlana N, additional, Dong, Xiuzhu, additional, Göker, Markus, additional, Hedlund, Brian P, additional, Hugenholtz, Philip, additional, Jangid, Kamlesh, additional, Liu, Shuang-Jiang, additional, Moore, Edward R B, additional, Rao, Manik Prabhu Narsing, additional, Oren, Aharon, additional, Rossello-Mora, Ramon, additional, Rekadwad, Bhagwan Narayan, additional, Salam, Nimaichand, additional, Shu, Wensheng, additional, Sutcliffe, Iain C, additional, Teo, Wee Fei Aaron, additional, Trujillo, Martha E, additional, Venter, Stephanus N, additional, Whitman, William B, additional, Zhao, Guoping, additional, and Li, Wen-Jun, additional

Published
2024
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4. Surface-Shaving of Staphylococcus aureus Strains and Quantitative Proteomic Analysis Reveal Differences in Protein Abundance of the Surfaceome.

Author

Karlsson, Anders, Alarcón, Leonarda Achá, Piñeiro-Iglesias, Beatriz, Jacobsson, Gunnar, Skovbjerg, Susann, Moore, Edward R. B., Kopparapu, Pradeep Kumar, Jin, Tao, and Karlsson, Roger

Subjects
STAPHYLOCOCCUS aureus, MASS spectrometry, PEPTIDES, PROTEINS, BIOFILMS
Abstract

Staphylococcus aureus is a pathogen known to cause a wide range of infections. To find new targets for identification and to understand host–pathogen interactions, many studies have focused on surface proteins. We performed bacterial-cell surface-shaving, followed by tandem mass tag for quantitative mass spectrometry proteomics, to examine the surfaceome of S. aureus. Two steps were performed, the first step including surface protein-deficient mutants of S. aureus Newman strain lacking important virulence genes (clfA and spa, important for adhesion and immune evasion and srtAsrtB, linking surface-associated virulence factors to the surface) and the second step including isolates of different clinical origin. All strains were compared to the Newman strain. In Step 1, altogether, 7880 peptides were identified, corresponding to 1290 proteins. In Step 2, 4949 peptides were identified, corresponding to 919 proteins and for each strain, approximately 20 proteins showed differential expression compared to the Newman strain. The identified surface proteins were related to host-cell-adherence and immune-system-evasion, biofilm formation, and survival under harsh conditions. The results indicate that surface-shaving of intact S. aureus bacterial strains in combination with quantitative proteomics is a useful tool to distinguish differences in protein abundance of the surfaceome, including the expression of virulence factors. [ABSTRACT FROM AUTHOR]

Published
2024
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7. The best of both worlds: a proposal for further integration of Candidatus names into the International Code of Nomenclature of Prokaryotes

Author

Klinische infectiologie en microb. lab., Infectious Diseases and Immunology - KLIF, Arahal, David, Bisgaard, Magne, Christensen, Henrik, Clermont, Dominique, Dijkshoorn, Lenie, Duim, Birgitta, Emler, Stefan, Figge, Marian, Göker, Markus, Moore, Edward R B, Nemec, Alexandr, Nørskov-Lauritsen, Niels, Nübel, Ulrich, On, Stephen L W, Vandamme, Peter, Ventosa, Antonio, Klinische infectiologie en microb. lab., Infectious Diseases and Immunology - KLIF, Arahal, David, Bisgaard, Magne, Christensen, Henrik, Clermont, Dominique, Dijkshoorn, Lenie, Duim, Birgitta, Emler, Stefan, Figge, Marian, Göker, Markus, Moore, Edward R B, Nemec, Alexandr, Nørskov-Lauritsen, Niels, Nübel, Ulrich, On, Stephen L W, Vandamme, Peter, and Ventosa, Antonio

Published
2024

8. Advancements in prokaryotic systematics and the role of Bergey's International Society for Microbial Systematicsin addressing challenges in the meta-data era.

Author

Jiao, Jian-Yu, Abdugheni, Rashidin, Zhang, Dao-Feng, Ahmed, Iftikhar, Ali, Mukhtiar, Chuvochina, Maria, Dedysh, Svetlana N, Dong, Xiuzhu, Göker, Markus, Hedlund, Brian P, Hugenholtz, Philip, Jangid, Kamlesh, Liu, Shuang-Jiang, Moore, Edward R B, Rao, Manik Prabhu Narsing, Oren, Aharon, Rossello-Mora, Ramon, Rekadwad, Bhagwan Narayan, Salam, Nimaichand, and Shu, Wensheng

Subjects
SEVENTEENTH century, PROKARYOTES, ARCHAEBACTERIA, METADATA, MICROBIOLOGISTS
Abstract

Prokaryotes are ubiquitous in the biosphere, important for human health and drive diverse biological and environmental processes. Systematics of prokaryotes, whose origins can be traced to the discovery of microorganisms in the 17th century, has transitioned from a phenotype-based classification to a more comprehensive polyphasic taxonomy and eventually to the current genome-based taxonomic approach. This transition aligns with a foundational shift from studies focused on phenotypic traits that have limited comparative value to those using genome sequences. In this context, Bergey's Manual of Systematics of Archaea and Bacteria (BMSAB) and Bergey's International Society for Microbial Systematics (BISMiS) play a pivotal role in guiding prokaryotic systematics. This review focuses on the historical development of prokaryotic systematics with a focus on the roles of BMSAB and BISMiS. We also explore significant contributions and achievements by microbiologists, highlight the latest progress in the field and anticipate challenges and opportunities within prokaryotic systematics. Additionally, we outline five focal points of BISMiS that are aimed at addressing these challenges. In conclusion, our collaborative effort seeks to enhance ongoing advancements in prokaryotic systematics, ensuring its continued relevance and innovative characters in the contemporary landscape of genomics and bioinformatics. [ABSTRACT FROM AUTHOR]

Published
2024
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9. The best of both worlds: a proposal for further integration of Candidatus names into the International Code of Nomenclature of Prokaryotes

Author

Arahal, David, primary, Bisgaard, Magne, additional, Christensen, Henrik, additional, Clermont, Dominique, additional, Dijkshoorn, Lenie, additional, Duim, Birgitta, additional, Emler, Stefan, additional, Figge, Marian, additional, Göker, Markus, additional, Moore, Edward R. B., additional, Nemec, Alexandr, additional, Nørskov-Lauritsen, Niels, additional, Nübel, Ulrich, additional, On, Stephen L. W., additional, Vandamme, Peter, additional, and Ventosa, Antonio, additional

Published
2024
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12. Comparative genomics of Stutzerimonas balearica (Pseudomonas balearica): diversity, habitats, and biodegradation of aromatic compounds

Author

Salvà-Serra, Francisco, primary, Pérez-Pantoja, Danilo, additional, Donoso, Raúl A., additional, Jaén-Luchoro, Daniel, additional, Fernández-Juárez, Víctor, additional, Engström-Jakobsson, Hedvig, additional, Moore, Edward R. B., additional, Lalucat, Jorge, additional, and Bennasar-Figueras, Antoni, additional

Published
2023
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20. The Family Cardiobacteriaceae

Author

Moore, Edward R. B., Mihaylova, Sashka A., Gomila, Margarita, Rosenberg, Eugene, editor, DeLong, Edward F., editor, Lory, Stephen, editor, Stackebrandt, Erko, editor, and Thompson, Fabiano, editor

Published
2014
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21. Legionella maioricensis sp. nov., a new species isolated from the hot water distribution systems of a hospital and a shopping center during routine sampling

Author

Crespi, Sebastian, primary, Drašar, Vladimír, additional, Salvà-Serra, Francisco, additional, Jaén-Luchoro, Daniel, additional, Piñeiro-Iglesias, Beatriz, additional, Lindemann, Paul Christoffer, additional, Aliaga-Lozano, Francisco, additional, Fernández-Juárez, Victor, additional, Coll-García, Guillem, additional, Moore, Edward R. B., additional, and Bennasar-Figueras, Antoni, additional

Published
2023
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27. Nonmedical: Pseudomonas

Author

Moore, Edward R. B., Tindall, Brian J., Martins Dos Santos, Vitor A. P., Pieper, Dietmar H., Ramos, Juan-Luis, Palleroni, Norberto J., Dworkin, Martin, editor, Falkow, Stanley, editor, Rosenberg, Eugene, editor, Schleifer, Karl-Heinz, editor, and Stackebrandt, Erko, editor

Published
2006
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36. Mass Spectrometry Proteotyping-Based Detection and Identification of Staphylococcus aureus, Escherichia coli, and Candida albicans in Blood

Author

Kondori, Nahid, primary, Kurtovic, Amra, additional, Piñeiro-Iglesias, Beatriz, additional, Salvà-Serra, Francisco, additional, Jaén-Luchoro, Daniel, additional, Andersson, Björn, additional, Alves, Gelio, additional, Ogurtsov, Aleksey, additional, Thorsell, Annika, additional, Fuchs, Johannes, additional, Tunovic, Timur, additional, Kamenska, Nina, additional, Karlsson, Anders, additional, Yu, Yi-Kuo, additional, Moore, Edward R. B., additional, and Karlsson, Roger, additional

Published
2021
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37. Analyses of Virulence Genes of Clavibacter michiganensis subsp. michiganensis Strains Reveal Heterogeneity and Deletions That Correlate with Pathogenicity

Author

Valenzuela, Miryam, primary, González, Marianela, additional, Velásquez, Alexis, additional, Dorta, Fernando, additional, Montenegro, Iván, additional, Besoain, Ximena, additional, Salvà-Serra, Francisco, additional, Jaén-Luchoro, Daniel, additional, Moore, Edward R. B., additional, and Seeger, Michael, additional

Published
2021
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42. The importance of naturally attenuated SARS‐CoV ‐2 in the fight against COVID ‐19

Author

Armengaud, Jean, Delaunay‐Moisan, Agnès, Thuret, Jean‐Yves, Anken, Eelco, Acosta‐Alvear, Diego, Aragón, Tomás, Arias, Carolina, Blondel, Marc, Braakman, Ineke, Collet, Jean‐François, Courcol, René, Danchin, Antoine, Deleuze, Jean‐François, Lavigne, Jean‐Philippe, Lucas, Sophie, Michiels, Thomas, Moore, Edward R. B., Nixon‐Abell, Jonathon, Rossello‐Mora, Ramon, Shi, Zheng‐Li, Siccardi, Antonio G., Sitia, Roberto, Tillett, Daniel, Timmis, Kenneth N., Toledano, Michel B., Sluijs, Peter, Vicenzi, Elisa, Médicaments et Technologies pour la Santé (MTS), Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Institut de Biologie Intégrative de la Cellule (I2BC), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), Stress Oxydatif et Cancer (SOC), Département Biologie Cellulaire (BioCell), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS)-Institut de Biologie Intégrative de la Cellule (I2BC), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), Sénescence et stabilité génomique (SEN), Département Biologie des Génomes (DBG), San Raffaele Scientific Institute, Vita-Salute San Raffaele University and Center for Translational Genomics and Bioinformatics, University of California [Santa Barbara] (UC Santa Barbara), University of California (UC), Universidad Pública de Navarra [Espagne] = Public University of Navarra (UPNA), Génétique, génomique fonctionnelle et biotechnologies (UMR 1078) (GGB), EFS-Université de Brest (UBO)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut Brestois Santé Agro Matière (IBSAM), Université de Brest (UBO), Université de Bretagne Occidentale - UFR Médecine et Sciences de la Santé (UBO UFR MSS), Utrecht University [Utrecht], Université Catholique de Louvain = Catholic University of Louvain (UCL), Walloon Excellence in Life sciences and BIOtechnology [Liège] (WELBIO), Institut Cochin (IC UM3 (UMR 8104 / U1016)), Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Centre National de Recherche en Génomique Humaine (CNRGH), Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Institut de Biologie François JACOB (JACOB), Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Virulence bactérienne et maladies infectieuses (VBMI), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Montpellier (UM), University of Gothenburg (GU), Sahlgrenska University Hospital [Gothenburg], University of Cambridge [UK] (CAM), Institut Mediterrani d'Estudis Avancats (IMEDEA), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC)-Universidad de las Islas Baleares (UIB), Wuhan Institute of Virology [Wuhan, China], Chinese Academy of Sciences [Wuhan Branch], Technische Universität Braunschweig = Technical University of Braunschweig [Braunschweig], ANR-17-CE18-0023,Phylopeptidomics,Identification rapide de bactéries pathogènes et résistances aux antibiotiques(2017), Armengaud, Jean [0000-0003-1589-445X], Thuret, Jean-Yves [0000-0001-5385-7620], Anken, Eelco van [0000-0001-9529-2701], Acosta-Alvear, Diego [0000-0002-1139-8486], Aragón, Tomás [0000-0002-1700-2729], Arias, Carolina [0000-0002-4445-0826], Blondel, Marc [0000-0003-4897-2995], Braakman, Ineke [0000-0003-1592-4364], Collet, Jean-François [0000-0001-8069-7036], Courcol, René [0000-0003-2324-5687], Danchin, Antoine [0000-0002-6350-5001], Deleuze, Jean-François [0000-0002-5358-4463], Lavigne, Jean-Philippe [0000-0002-9484-0304], Lucas, Sophie [0000-0003-1287-7996], Michiels, Thomas [0000-0001-9615-8053], Moore, Edward R.B. [0000-0001-7693-924X], Nixon-Abell, Jonathon [0000-0003-4169-0012], Rosselló-Mora, Ramón [0000-0001-8253-3107], Shi, Zheng-Li [0000-0001-8089-163X], Siccardi, Antonio G. [0000-0002-1654-5545], Sitia, Roberto [0000-0001-7086-4152], Tillett, Daniel [0000-0003-1061-0489], Timmis, Kenneth N. [0000-0002-0066-4670], Toledano, Michel B. [0000-0002-3079-1179], Sluijs, Peter van der [0000-0002-4485-3342], Vicenzi, Elisa [0000-0003-0051-3968], University of California [Santa Barbara] (UCSB), University of California, Institut Brestois Santé Agro Matière (IBSAM), Université de Brest (UBO)-Université de Brest (UBO)-EFS-Institut National de la Santé et de la Recherche Médicale (INSERM), Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université de Paris (UP), Technical University Braunschweig, Armengaud, Jean, Thuret, Jean-Yves, Anken, Eelco van, Acosta-Alvear, Diego, Aragón, Tomás, Arias, Carolina, Blondel, Marc, Braakman, Ineke, Collet, Jean-François, Courcol, René, Danchin, Antoine, Deleuze, Jean-François, Lavigne, Jean-Philippe, Lucas, Sophie, Michiels, Thomas, Moore, Edward R.B., Nixon-Abell, Jonathon, Rosselló-Mora, Ramón, Shi, Zheng-Li, Siccardi, Antonio G., Sitia, Roberto, Tillett, Daniel, Timmis, Kenneth N., Toledano, Michel B., Sluijs, Peter van der, Vicenzi, Elisa, Armengaud, J., Delaunay-Moisan, A., Thuret, J. -Y., van Anken, E., Acosta-Alvear, D., Aragon, T., Arias, C., Blondel, M., Braakman, I., Collet, J. -F., Courcol, R., Danchin, A., Deleuze, J. -F., Lavigne, J. -P., Lucas, S., Michiels, T., Moore, E. R. B., Nixon-Abell, J., Rossello-Mora, R., Shi, Z., Siccardi, A. G., Sitia, R., Tillett, D., Timmis, K. N., Toledano, M. B., van der Sluijs, P., Vicenzi, E., and UCL - SSS/DDUV - Institut de Duve

Subjects
Opinion, viruses, Pneumonia, Viral, Gene Expression, Microbiology, Disease Outbreaks, Evolution, Molecular, Betacoronavirus, [SDV.MHEP.MI]Life Sciences [q-bio]/Human health and pathology/Infectious diseases, Animals, Humans, Health emergency, Selection, Genetic, Pandemics, Ecology, Evolution, Behavior and Systematics, [SDV.MHEP.ME]Life Sciences [q-bio]/Human health and pathology/Emerging diseases, Virulence, SARS-CoV-2, fungi, COVID-19, SARS Virus, Adaptation, Physiological, Severe acute respiratory syndrome-related coronavirus, Host-Pathogen Interactions, Mutation, Spike Glycoprotein, Coronavirus, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, Coronavirus Infections
Abstract

The current SARS‐CoV‐2 pandemic is wreaking havoc throughout the world and has rapidly become a global health emergency. A central question concerning COVID‐19 is why some individuals become sick and others not. Many have pointed already at variation in risk factors between individuals. However, the variable outcome of SARS‐CoV‐2 infections may, at least in part, be due also to differences between the viral subspecies with which individuals are infected. A more pertinent question is how we are to overcome the current pandemic. A vaccine against SARS‐CoV‐2 would offer significant relief, although vaccine developers have warned that design, testing and production of vaccines may take a year if not longer. Vaccines are based on a handful of different designs (i), but the earliest vaccines were based on the live, attenuated virus. As has been the case for other viruses during earlier pandemics, SARS‐CoV‐2 will mutate and may naturally attenuate over time (ii). What makes the current pandemic unique is that, thanks to state‐of‐the‐art nucleic acid sequencing technologies, we can follow in detail how SARS‐CoV‐2 evolves while it spreads. We argue that knowledge of naturally emerging attenuated SARS‐CoV‐2 variants across the globe should be of key interest in our fight against the pandemic.

Published
2020
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43. Genomic and Proteomic Characterization of the Extended-Spectrum β-Lactamase (ESBL)-Producing Escherichia coli Strain CCUG 73778: A Virulent, Nosocomial Outbreak Strain

Author

Jaén-Luchoro, Daniel, Busquets, Antonio, Karlsson, Roger, Salvà-Serra, Francisco, Åhrén, Christina, Karami, Nahid, and Moore, Edward R. B.

Subjects
antibiotic resistance, outbreak, E. coli, β-lactamase, Article, proteomics, lcsh:Biology (General), ESBL, Enterobacteriaceae, genomics, bacteria, CTX-M, nanopore, lcsh:QH301-705.5
Abstract

Escherichia coli strain CCUG 78773 is a virulent extended-spectrum &beta, lactamase (ESBL)-producing ST131-O25b type strain isolated during an outbreak at a regional university hospital. The complete and closed genome sequence, comprising one chromosome (5,076,638 bp) and six plasmids (1718&ndash, 161,372 bp), is presented. Characterization of the genomic features detected the presence of 59 potential antibiotic resistance factors, including three prevalent &beta, lactamases. Several virulence associated elements were determined, mainly related with adherence, invasion, biofilm formation and antiphagocytosis. Twenty-eight putative type II toxin-antitoxin systems were found. The plasmids were characterized, through in silico analyses, confirming the two &beta, lactamase-encoding plasmids to be conjugative, while the remaining plasmids were mobilizable. BLAST analysis of the plasmid sequences showed high similarity with plasmids in E. coli from around the world. Expression of many of the described virulence and AMR factors was confirmed by proteomic analyses, using bottom-up, liquid chromatography-tandem mass spectrometry (LC-MS/MS). The detailed characterization of E. coli strain CCUG 78773 provides a reference for the relevance of genetic elements, as well as the characterization of antibiotic resistance and the spread of bacteria harboring ESBL genes in the hospital environment.

Published
2020

44. First complete genome sequences of Streptococcus pyogenes NCTC 8198T and CCUG 4207T, the type strain of the type species of the genus Streptococcus: 100% match in length and sequence identity between PacBio solo and Illumina plus Oxford Nanopore hybrid assemblies

Author

Salvà-Serra, Francisco, Jaén-Luchoro, Daniel, Jakobsson, Hedvig E., Gonzales-Siles, Lucia, Karlsson, Roger, Busquets, Antonio, Gomila, Margarita, Bennasar-Figueras, Antonio, Russell, Julie E., Fazal, Mohammed Abbas, Alexander, Sarah, and Moore, Edward R. B.

Abstract

We present the first complete, closed genome sequences of Streptococcus pyogenes strains NCTC 8198 T and CCUG 4207 T , the type strain of the type species of the genus Streptococcus and an important human pathogen that causes a wide range of infectious diseases. S. pyogenes NCTC 8198 T and CCUG 4207 T are derived from deposit of the same strain at two different culture collections. NCTC 8198 T was sequenced, using a PacBio platform; the genome sequence was assembled de novo , using HGAP. CCUG 4207 T was sequenced and a de novo hybrid assembly was generated, using SPAdes, combining Illumina and Oxford Nanopore sequence reads. Both strategies, yielded closed genome sequences of 1,914,862 bp, identical in length and sequence identity. Combining short-read Illumina and long-read Oxford Nanopore sequence data circumvented the expected error rate of the nanopore sequencing technology, producing a genome sequence indistinguishable to the one determined with PacBio. Sequence analyses revealed five prophage regions, a CRISPR-Cas system, numerous virulence factors and no relevant antibiotic resistance genes. These two complete genome sequences of the type strain of S. pyogenes will effectively serve as valuable taxonomic and genomic references for infectious disease diagnostics, as well as references for future studies and applications within the genus Streptococcus .

Published
2020
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