Access the full text.
Sign up today, get DeepDyve free for 14 days.
MK Gupta, A Shrivastava, M Patel (2013)
Optimization of growth parameters for enhanced production of antibacterial compounds by environmentally isolated bacillus optimization of growth parameters for enhanced production of antibacterial compounds by environmentally isolatedInt J Environ Sci, 2
C. Bertelli, M. Laird, K. Williams, Britney Lau, Gemma Hoad, G. Winsor, F. Brinkman (2017)
IslandViewer 4: expanded prediction of genomic islands for larger-scale datasetsNucleic Acids Research, 45
I. Hay, Z. Rehman, M. Moradali, Yajie Wang, B. Rehm (2013)
Microbial alginate production, modification and its applicationsMicrobial biotechnology, 6
Carrie-Lynn Keiski, Michael Harwich, Sumita Jain, A. Neculai, P. Yip, H. Robinson, J. Whitney, Laura Riley, Lori Burrows, D. Ohman, P. Howell (2010)
AlgK is a TPR-containing protein and the periplasmic component of a novel exopolysaccharide secretin.Structure, 18 2
I. Hay, Z. Rehman, B. Rehm (2010)
Membrane Topology of Outer Membrane Protein AlgE, Which Is Required for Alginate Production in Pseudomonas aeruginosaApplied and Environmental Microbiology, 76
(2013)
The relationship between organizational culture and knowledge management, & their simultaneous effects on customer relation management
H. Mi, Dustin Ebert, A. Muruganujan, Caitlin Mills, Laurent-Philippe Albou, Tremayne Mushayahama, P. Thomas (2020)
PANTHER version 16: a revised family classification, tree-based classification tool, enhancer regions and extensive APINucleic Acids Research, 49
T Seemann (2014)
10.1093/bioinformatics/btu153Bioinformatics, 30
N. Buisine, R. Chalmers (2004)
yBlast, a graphical front end for the standalone BLAST suite.BioTechniques, 37 6
Muhammadi, N. Ahmed (2007)
Genetics of bacterial alginate: alginate genes distribution, organization and biosynthesis in bacteria.Current genomics, 8 3
Sudhir Kumar, G. Stecher, Michael Li, Christina Knyaz, K. Tamura (2018)
MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms.Molecular biology and evolution, 35 6
E. Carbonnelle, P. Grohs, H. Jacquier, Nesrine Day, Sylvie Tenza, Alexandra Dewailly, Odile Vissouarn, M. Rottman, J. Herrmann, I. Podglajen, L. Raskine (2012)
Robustness of two MALDI-TOF mass spectrometry systems for bacterial identification.Journal of microbiological methods, 89 2
M. Merighi, V. Lee, M. Hyodo, Y. Hayakawa, S. Lory (2007)
The second messenger bis‐(3′‐5′)‐cyclic‐GMP and its PilZ domain‐containing receptor Alg44 are required for alginate biosynthesis in Pseudomonas aeruginosaMolecular Microbiology, 65
A. Wattam, James Davis, Rida Assaf, Sébastien Boisvert, T. Brettin, Christopher Bun, Neal Conrad, Emily Dietrich, T. Disz, Joseph Gabbard, S. Gerdes, C. Henry, Ron Kenyon, D. Machi, Chunhong Mao, E. Nordberg, G. Olsen, Daniel Murphy-Olson, R. Olson, R. Overbeek, B. Parrello, G. Pusch, Maulik Shukla, V. Vonstein, A. Warren, Fangfang Xia, H. Yoo, Rick Stevens (2016)
Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource CenterNucleic Acids Research, 45
J. Whitney, P. Howell (2013)
Synthase-dependent exopolysaccharide secretion in Gram-negative bacteria.Trends in microbiology, 21 2
Maria Kostakioti, Maria Hadjifrangiskou, S. Hultgren (2013)
Bacterial biofilms: development, dispersal, and therapeutic strategies in the dawn of the postantibiotic era.Cold Spring Harbor perspectives in medicine, 3 4
Yuki Moriya, M. Itoh, Shujiro Okuda, Akiyasu Yoshizawa, M. Kanehisa (2007)
KAAS: an automatic genome annotation and pathway reconstruction serverNucleic Acids Research, 35
Antonette Robles-Price, T. Wong, H. Sletta, S. Valla, N. Schiller (2004)
AlgX Is a Periplasmic Protein Required for Alginate Biosynthesis in Pseudomonas aeruginosaJournal of Bacteriology, 186
Agnieszka Gawin, L. Tietze, O. Aarstad, F. Aachmann, T. Brautaset, H. Ertesvåg (2020)
Functional characterization of three Azotobacter chroococcum alginate-modifying enzymes related to the Azotobacter vinelandii AlgE mannuronan C-5-epimerase familyScientific Reports, 10
K. Blin, S. Shaw, Katharina Steinke, Rasmus Villebro, N. Ziemert, S. Lee, M. Medema, T. Weber (2019)
antiSMASH 5.0: updates to the secondary metabolite genome mining pipelineNucleic Acids Research, 47
D. Subedi, A. Vijay, G. Kohli, S. Rice, M. Willcox (2018)
Comparative genomics of clinical strains of Pseudomonas aeruginosa strains isolated from different geographic sitesScientific Reports, 8
J. Huerta-Cepas, K. Forslund, Luis Coelho, Damian Szklarczyk, L. Jensen, C. Mering, P. Bork (2016)
Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-MapperMolecular Biology and Evolution, 34
L. Pereira, João Cotas (2020)
Introductory Chapter: Alginates - A General OverviewAlginates - Recent Uses of This Natural Polymer
George Garrity, Julia Bell, Timothy Lilburn (2015)
Pasteurellales ord. nov.Bergey's Manual of Systematics of Archaea and Bacteria
S. Altschul, W. Gish, W. Miller, E. Myers, D. Lipman (1990)
Basic local alignment search tool.Journal of molecular biology, 215 3
(2020)
Babraham bioinformatics - FastQC a quality
(2016)
Microbiological laboratoryManual. Kerala agricultural University, Pineapple research station, Vazhakulam, Muvattapuzha
K. Lee, D. Mooney (2012)
Alginate: properties and biomedical applications.Progress in polymer science, 37 1
Han Zhang, Tanner Yohe, Le Huang, Sarah Entwistle, Peizhi Wu, Zhenglu Yang, P. Busk, Ying Xu, Yanbin Yin (2018)
dbCAN2: a meta server for automated carbohydrate-active enzyme annotationNucleic Acids Research, 46
M. Franklin, D. Nivens, J. Weadge, P. Howell, D. Wozniak, C. Whitfield (2011)
Biosynthesis of the Pseudomonas aeruginosa Extracellular Polysaccharides, Alginate, Pel, and PslFrontiers in Microbiology, 2
R. Aziz, D. Bartels, A. Best, M. DeJongh, T. Disz, R. Edwards, Kevin Formsma, S. Gerdes, E. Glass, Michael Kubal, Folker Meyer, G. Olsen, R. Olson, A. Osterman, R. Overbeek, L. McNeil, Daniel Paarmann, Tobias Paczian, B. Parrello, G. Pusch, C. Reich, Rick Stevens, O. Vassieva, V. Vonstein, Andreas Wilke, O. Zagnitko (2008)
The RAST Server: Rapid Annotations using Subsystems TechnologyBMC Genomics, 9
J. Meng, Yicong Liu, Zhen Xie, H. Qing, P. Lei, J. Ni (2020)
Nucleus distribution of cathepsin B in senescent microglia promotes brain aging through degradation of sirtuinsNeurobiology of Aging, 96
J. Klockgether, Nina Cramer, L. Wiehlmann, C. Davenport, B. Tümmler (2011)
Pseudomonas aeruginosa Genomic Structure and DiversityFrontiers in Microbiology, 2
Estelle Madaha, C. Mienie, H. Gonsu, R. Bughe, M. Fonkoua, W. Mbacham, K. Alayande, Carlos Bezuidenhout, C. Ateba (2020)
Whole-genome sequence of multi-drug resistant Pseudomonas aeruginosa strains UY1PSABAL and UY1PSABAL2 isolated from human broncho-alveolar lavage, Yaoundé, CameroonPLoS ONE, 15
S Andrews (2020)
Babraham bioinformatics - FastQC a quality control tool for high throughput sequence dataSoil, 5
G. O’Toole (2011)
Microtiter dish biofilm formation assay.Journal of visualized experiments : JoVE, 47
S. Pedersen, A. Kharazmi, F. Espersen, N. Høiby (1990)
Pseudomonas aeruginosa alginate in cystic fibrosis sputum and the inflammatory responseInfection and Immunity, 58
Seok-Hwan Yoon, Sung-min Ha, Jeongmin Lim, Soonjae Kwon, J. Chun (2017)
A large-scale evaluation of algorithms to calculate average nucleotide identityAntonie van Leeuwenhoek, 110
P. Lister, D. Wolter, N. Hanson (2009)
Antibacterial-Resistant Pseudomonas aeruginosa: Clinical Impact and Complex Regulation of Chromosomally Encoded Resistance MechanismsClinical Microbiology Reviews, 22
P. Seng, M. Drancourt, F. Gouriet, B. Scola, P. Fournier, J. Rolain, D. Raoult (2009)
Ongoing revolution in bacteriology: routine identification of bacteria by matrix-assisted laser desorption ionization time-of-flight mass spectrometry.Clinical infectious diseases : an official publication of the Infectious Diseases Society of America, 49 4
(1987)
ESCALA CIWA-AR Escala CIWAAr(Clinical institute withdrawal assesment for alcohol) Evaluación del Sı́ndrome de Abstinencia Alcohólica
Hye Cho, G. Kwon, Semi Kim, S. Koo (2015)
Distribution of Pseudomonas-Derived Cephalosporinase and Metallo-β-Lactamases in Carbapenem-Resistant Pseudomonas aeruginosa Isolates from Korea.Journal of microbiology and biotechnology, 25 7
J. Grant, P. Stothard (2008)
The CGView Server: a comparative genomics tool for circular genomesNucleic Acids Research, 36
W. Wade, F. Dewhirst (2012)
Bergey’s Manual of Systematic BacteriologySpringer US
Kalai Mathee, Craig Mcpherson, D. Ohman (1997)
Posttranslational control of the algT (algU)-encoded sigma22 for expression of the alginate regulon in Pseudomonas aeruginosa and localization of its antagonist proteins MucA and MucB (AlgN)Journal of Bacteriology, 179
I. Hay, O. Schmidt, J. Filitcheva, B. Rehm (2011)
Identification of a periplasmic AlgK–AlgX–MucD multiprotein complex in Pseudomonas aeruginosa involved in biosynthesis and regulation of alginateApplied Microbiology and Biotechnology, 93
Lashanda Oglesby, Sumita Jain, D. Ohman (2008)
Membrane topology and roles of Pseudomonas aeruginosa Alg8 and Alg44 in alginate polymerization.Microbiology, 154 Pt 6
A. Ghafoor, I. Hay, B. Rehm (2011)
Role of Exopolysaccharides in Pseudomonas aeruginosa Biofilm Formation and ArchitectureApplied and Environmental Microbiology, 77
A. Gurevich, V. Saveliev, Nikolay Vyahhi, G. Tesler (2013)
QUAST: quality assessment tool for genome assembliesBioinformatics, 29 8
R. Scheife (2012)
Pharmacotherapy, The Journal of Human Pharmacology and Drug Therapy
F. Damron, Hongwei Yu (2010)
Pseudomonas aeruginosa MucD Regulates the Alginate Pathway through Activation of MucA Degradation via MucP Proteolytic ActivityJournal of Bacteriology, 193
P. Baynham, D. Ramsey, Borys Gvozdyev, Ellen Cordonnier, D. Wozniak (2006)
The Pseudomonas aeruginosa Ribbon-Helix-Helix DNA-Binding Protein AlgZ (AmrZ) Controls Twitching Motility and Biogenesis of Type IV PiliJournal of Bacteriology, 188
D. Ramsey, D. Wozniak (2005)
Understanding the control of Pseudomonas aeruginosa alginate synthesis and the prospects for management of chronic infections in cystic fibrosisMolecular Microbiology, 56
T. Withers, F. Damron, Yeshi Yin, Hongwei Yu (2013)
Truncation of type IV pilin induces mucoidy in Pseudomonas aeruginosa strain PAO579MicrobiologyOpen, 2
Sumita Jain, D. Ohman (2005)
Role of an Alginate Lyase for Alginate Transport in Mucoid Pseudomonas aeruginosaInfection and Immunity, 73
A. Haug, Olav Smidsrød (1967)
Strontium–Calcium Selectivity of AlginatesNature, 215
Yi-Lin Chen, Chuan-Chun Lee, Ya-Lan Lin, Kai-Min Yin, Chung-Liang Ho, Tsunglin Liu (2015)
Obtaining long 16S rDNA sequences using multiple primers and its application on dioxin-containing samplesBMC Bioinformatics, 16
P. Srivastava, S. Gomathinayagam, Nalini Easwaran, G. Sankar, E. Padmavathi, M. Shankar, K. Gothandam, K. Sivashanmugam (2020)
Comparative data analsysis of two multi-drug resistant homoserine lactone and rhamnolipid producing Pseudomonas aeruginosa from diabetic foot infected patientData in Brief, 32
Chenwen Li, Lanlan Li, Sheng Chen, Jianxiang Zhang, Wan-Liang Lu (2020)
Antioxidant Nanotherapies for the Treatment of Inflammatory DiseasesFrontiers in Bioengineering and Biotechnology, 8
Sitao Wu, Zhengwei Zhu, L. Fu, B. Niu, Weizhong Li (2011)
WebMGA: a customizable web server for fast metagenomic sequence analysisBMC Genomics, 12
C. Peteiro (2018)
Alginate Production from Marine Macroalgae, with Emphasis on Kelp Farming
B. Rehm (2010)
Bacterial polymers: biosynthesis, modifications and applicationsNature Reviews Microbiology, 8
Shixun Liu, N. Xu, Hao-Jing Liu, Jie Zhou, F. Xin, Wenming Zhang, Xiujuan Qian, M. Jiang, W. Dong (2020)
Genome Characterization of Pseudomonas aeruginosa KT1115, a High Di-rhamnolipid-Producing Strain with Strong Oils Metabolizing AbilityCurrent Microbiology, 77
D. Girlich, T. Naas, P. Nordmann (2004)
Biochemical Characterization of the Naturally Occurring Oxacillinase OXA-50 of Pseudomonas aeruginosaAntimicrobial Agents and Chemotherapy, 48
Perrine Vasseur, Isabelle Vallet-Gely, Chantal Soscia, S. Genin, A. Filloux (2005)
The pel genes of the Pseudomonas aeruginosa PAK strain are involved at early and late stages of biofilm formation.Microbiology, 151 Pt 3
(2002)
The Journal of Human Pharmacology and Drug Therapy Encycl Clin Pharm 724-725
James Driscoll, S. Brody, M. Kollef (2012)
The Epidemiology, Pathogenesis and Treatment of Pseudomonas aeruginosa InfectionsDrugs, 67
Kumari Mahto, Surajit Das (2020)
Whole genome characterization and phenanthrene catabolic pathway of a biofilm forming marine bacterium Pseudomonas aeruginosa PFL-P1.Ecotoxicology and environmental safety, 206
D. Ohman (1990)
Cloning of Pseudomonas aeruginosa algG, which controls alginate structureJournal of Bacteriology, 172
C. Knutson, A. Jeanes (1968)
A new modification of the carbazole analysis: application to heteropolysaccharides.Analytical biochemistry, 24 3
Sumita Jain, E. Dennis (2005)
Ohman aeruginosa Pseudomonas Transport in Mucoid Role of an Alginate Lyase for Alginate
Systems Biology (2001)
BIOINFORMATICS APPLICATIONS NOTE
A. Bankevich, S. Nurk, D. Antipov, A. Gurevich, M. Dvorkin, Alexander Kulikov, Valery Lesin, S. Nikolenko, Son Pham, A. Prjibelski, A. Pyshkin, Alexander Sirotkin, Nikolay Vyahhi, G. Tesler, M. Alekseyev, P. Pevzner (2012)
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell SequencingJournal of computational biology : a journal of computational molecular cell biology, 19 5
Fouzia Ledgham, Chantal Soscia, A. Chakrabarty, A. Lazdunski, M. Foglino (2003)
Global regulation in Pseudomonas aeruginosa: the regulatory protein AlgR2 (AlgQ) acts as a modulator of quorum sensing.Research in microbiology, 154 3
Xian-Zhi Li, P. Plésiat, H. Nikaido (2015)
The Challenge of Efflux-Mediated Antibiotic Resistance in Gram-Negative BacteriaClinical Microbiology Reviews, 28
Publisher's Note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations
James Davis, A. Wattam, R. Aziz, T. Brettin, R. Butler, Rory Butler, Philippe Chlenski, Neal Conrad, A. Dickerman, Emily Dietrich, Joseph Gabbard, S. Gerdes, A. Guard, Ron Kenyon, D. Machi, Chunhong Mao, Daniel Murphy-Olson, M. Nguyen, E. Nordberg, G. Olsen, R. Olson, J. Overbeek, R. Overbeek, B. Parrello, G. Pusch, Maulik Shukla, C. Thomas, Margo VanOeffelen, V. Vonstein, A. Warren, Fangfang Xia, D. Xie, H. Yoo, Rick Stevens (2019)
The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilitiesNucleic acids research
Pseudomonas aeruginosa strain SW1 is an aerobic, motile, Gram-negative, and rod-shaped bacterium isolated from degraded seaweeds. Based on the 16S rRNA gene sequence and MALDI TOF analysis, strain SW1 exhibits 100% similarity to P. aeruginosa DSM 50,071, its closest phylogenetic neighbor. The complete genome of strain SW1 consists of a single circular chromosome with 23,258,857 bp (G + C content of 66%), including 6734 protein-coding sequences, 8 rRNA, and 63 tRNA sequences. The genome of the P. aeruginosa SW1 contains at least 27 genes for the biosynthesis of alginate and other exopolysaccharide involved in biofilm formation. KAAS and GO analysis and functional annotation by COG and CAZymes are consistent with the biosynthesis of alginate. In addition, the presence of antimicrobial resistance, multi-efflux operon, and antibiotic inactivation genes indicate a pathogenic potential similar to strain DSM50071. The high-quality genome and associated annotation provide a starting point to exploit the potential for P. aeruginosa to produce alginate.
Antonie van Leeuwenhoek – Springer Journals
Published: Dec 1, 2021
Keywords: Pseudomonas aeruginosa; Alginate biosynthesis; Antibiotic microbial resistance; Seaweeds; Biofilm formation
Read and print from thousands of top scholarly journals.
Already have an account? Log in
Bookmark this article. You can see your Bookmarks on your DeepDyve Library.
To save an article, log in first, or sign up for a DeepDyve account if you don’t already have one.
Copy and paste the desired citation format or use the link below to download a file formatted for EndNote
Access the full text.
Sign up today, get DeepDyve free for 14 days.
All DeepDyve websites use cookies to improve your online experience. They were placed on your computer when you launched this website. You can change your cookie settings through your browser.