Daniel, Rolf

[["dc.bibliographiccitation.firstpage","3"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","Revista Argentina de Microbiología"],["dc.bibliographiccitation.lastpage","12"],["dc.bibliographiccitation.volume","45"],["dc.contributor.author","Berlemont, Renaud"],["dc.contributor.author","Spee, Olivier"],["dc.contributor.author","Delsaute, Maud"],["dc.contributor.author","Lara, Yannick"],["dc.contributor.author","Schuldes, Joerg"],["dc.contributor.author","Simon, Carola"],["dc.contributor.author","Power, Pablo"],["dc.contributor.author","Daniel, Rolf"],["dc.contributor.author","Galleni, Moreno"],["dc.date.accessioned","2018-11-07T09:30:09Z"],["dc.date.available","2018-11-07T09:30:09Z"],["dc.date.issued","2013"],["dc.description.abstract","In order to isolate novel organic solvent-tolerant (OST) lipases, a metagenomic library was built using DNA derived from a temperate forest soil sample. A two-step activity-based screening allowed the isolation of a lipolytic clone active in the presence of organic solvents. Sequencing of the plasmid pRBest recovered from the positive clone revealed the presence of a putative lipase/esterase encoding gene. The deduced amino acid sequence (RBest1) contains the conserved lipolytic enzyme signature and is related to the previously described OST lipase from Lysinibacillus sphaericus 205y, which is the sole studied prokaryotic enzyme belonging to the 4.4 alpha/beta hydrolase subgroup (abH04.04). Both in vivo and in vitro studies of the substrate specificity of RBest1, using triacylglycerols or nitrophenyl-esters, respectively, revealed that the enzyme is highly specific for butyrate (C-4) compounds, behaving as an esterase rather than a lipase. The RBest1 esterase was purified and biochemically characterized. The optimal esterase activity was observed at pH 6.5 and at temperatures ranging from 38 to 45 degrees C. Enzymatic activity, determined by hydrolysis of p-nitrophenyl esters, was found to be affected by the presence of different miscible and non-miscible organic solvents, and salts. Noteworthy, RBest1 remains significantly active at high ionic strength. These findings suggest that RBest1 possesses the ability of OST enzymes to molecular adaptation in the presence of organic compounds and resistance of halophilic proteins."],["dc.identifier.isi","000316925600002"],["dc.identifier.pmid","23560782"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/31233"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Asociacion Argentina Microbiologia"],["dc.relation.issn","0325-7541"],["dc.title","Novel organic solvent-tolerant esterase isolated by metagenomics: insights into the lipase/esterase classification"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","2964"],["dc.bibliographiccitation.issue","9"],["dc.bibliographiccitation.journal","Applied and Environmental Microbiology"],["dc.bibliographiccitation.lastpage","2968"],["dc.bibliographiccitation.volume","75"],["dc.contributor.author","Simon, Carola"],["dc.contributor.author","Herath, Judith"],["dc.contributor.author","Rockstroh, Stephanie"],["dc.contributor.author","Daniel, Rolf"],["dc.date.accessioned","2018-11-07T08:30:06Z"],["dc.date.available","2018-11-07T08:30:06Z"],["dc.date.issued","2009"],["dc.description.abstract","Small-insert and large-insert metagenomic libraries were constructed from glacial ice of the Northern Schneeferner, which is located on the Zugspitzplatt in Germany. Subsequently, these libraries were screened for the presence of DNA polymerase-encoding genes by complementation of an Escherichia coli polA mutant. Nine novel genes encoding complete DNA polymerase I proteins or domains typical of these proteins were recovered."],["dc.description.sponsorship","Bundesministerium fur Bildung und Forschung"],["dc.identifier.doi","10.1128/AEM.02644-08"],["dc.identifier.isi","000265586900046"],["dc.identifier.pmid","19270136"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/16810"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.relation.issn","0099-2240"],["dc.title","Rapid Identification of Genes Encoding DNA Polymerases by Function-Based Screening of Metagenomic Libraries Derived from Glacial Ice"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","1"],["dc.bibliographiccitation.lastpage","12"],["dc.bibliographiccitation.seriesnr","2555"],["dc.contributor.author","Simon, Carola"],["dc.contributor.author","Daniel, Rolf"],["dc.contributor.editor","Streit, Wolfgang R."],["dc.contributor.editor","Daniel, Rolf"],["dc.date.accessioned","2022-11-01T10:17:20Z"],["dc.date.available","2022-11-01T10:17:20Z"],["dc.date.issued","2023"],["dc.identifier.doi","10.1007/978-1-0716-2795-2_1"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/116786"],["dc.notes.intern","DOI-Import GROB-605"],["dc.publisher","Springer US"],["dc.publisher.place","New York, NY"],["dc.relation.crisseries","Methods in Molecular Biology"],["dc.relation.eisbn","978-1-0716-2795-2"],["dc.relation.isbn","978-1-0716-2794-5"],["dc.relation.ispartof","Metagenomics : Methods and Protocols"],["dc.title","Construction of Small-Insert and Large-Insert Metagenomic Libraries"],["dc.type","book_chapter"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","1153"],["dc.bibliographiccitation.issue","4"],["dc.bibliographiccitation.journal","Applied and Environmental Microbiology"],["dc.bibliographiccitation.lastpage","1161"],["dc.bibliographiccitation.volume","77"],["dc.contributor.author","Simon, Carola"],["dc.contributor.author","Daniel, Rolf"],["dc.date.accessioned","2018-11-07T08:59:41Z"],["dc.date.available","2018-11-07T08:59:41Z"],["dc.date.issued","2011"],["dc.description.abstract","Metagenomics has revolutionized microbiology by paving the way for a cultivation-independent assessment and exploitation of microbial communities present in complex ecosystems. Metagenomics comprising construction and screening of metagenomic DNA libraries has proven to be a powerful tool to isolate new enzymes and drugs of industrial importance. So far, the majority of the metagenomically exploited habitats comprised temperate environments, such as soil and marine environments. Recently, metagenomes of extreme environments have also been used as sources of novel biocatalysts. The employment of next-generation sequencing techniques for metagenomics resulted in the generation of large sequence data sets derived from various environments, such as soil, the human body, and ocean water. Analyses of these data sets opened a window into the enormous taxonomic and functional diversity of environmental microbial communities. To assess the functional dynamics of microbial communities, metatranscriptomics and metaproteomics have been developed. The combination of DNA-based, mRNA-based, and protein-based analyses of microbial communities present in different environments is a way to elucidate the compositions, functions, and interactions of microbial communities and to link these to environmental processes."],["dc.identifier.doi","10.1128/AEM.02345-10"],["dc.identifier.isi","000287078100001"],["dc.identifier.pmid","21169428"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/23961"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Amer Soc Microbiology"],["dc.relation.issn","0099-2240"],["dc.title","Metagenomic Analyses: Past and Future Trends"],["dc.type","review"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","265"],["dc.bibliographiccitation.issue","2"],["dc.bibliographiccitation.journal","Applied Microbiology and Biotechnology"],["dc.bibliographiccitation.lastpage","276"],["dc.bibliographiccitation.volume","85"],["dc.contributor.author","Simon, Carola"],["dc.contributor.author","Daniel, Rolf"],["dc.date.accessioned","2018-11-07T11:22:21Z"],["dc.date.available","2018-11-07T11:22:21Z"],["dc.date.issued","2009"],["dc.description.abstract","Metagenomics has paved the way for cultivation-independent assessment and exploitation of microbial communities present in complex ecosystems. In recent years, significant progress has been made in this research area. A major breakthrough was the improvement and development of high-throughput next-generation sequencing technologies. The application of these technologies resulted in the generation of large datasets derived from various environments such as soil and ocean water. The analyses of these datasets opened a window into the enormous phylogenetic and metabolic diversity of microbial communities living in a variety of ecosystems. In this way, structure, functions, and interactions of microbial communities were elucidated. Metagenomics has proven to be a powerful tool for the recovery of novel biomolecules. In most cases, functional metagenomics comprising construction and screening of complex metagenomic DNA libraries has been applied to isolate new enzymes and drugs of industrial importance. For this purpose, several novel and improved screening strategies that allow efficient screening of large collections of clones harboring metagenomes have been introduced."],["dc.identifier.doi","10.1007/s00253-009-2233-z"],["dc.identifier.isi","000271480200005"],["dc.identifier.pmid","19760178"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?goescholar/3951"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/55980"],["dc.notes.intern","Merged from goescholar"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Springer"],["dc.relation.issn","0175-7598"],["dc.rights","Goescholar"],["dc.rights.uri","https://goescholar.uni-goettingen.de/licenses"],["dc.title","Achievements and new knowledge unraveled by metagenomic approaches"],["dc.type","review"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","7519"],["dc.bibliographiccitation.issue","23"],["dc.bibliographiccitation.journal","Applied and Environmental Microbiology"],["dc.bibliographiccitation.lastpage","7526"],["dc.bibliographiccitation.volume","75"],["dc.contributor.author","Simon, Carola"],["dc.contributor.author","Wiezer, Arnim"],["dc.contributor.author","Strittmatter, Axel W."],["dc.contributor.author","Daniel, Rolf"],["dc.date.accessioned","2018-11-07T11:21:15Z"],["dc.date.available","2018-11-07T11:21:15Z"],["dc.date.issued","2009"],["dc.description.abstract","The largest part of the Earth's microbial biomass is stored in cold environments, which represent almost untapped reservoirs of novel species, processes, and genes. In this study, the first metagenomic survey of the metabolic potential and phylogenetic diversity of a microbial assemblage present in glacial ice is presented. DNA was isolated from glacial ice of the Northern Schneeferner, Germany. Pyrosequencing of this DNA yielded 1,076,539 reads (239.7 Mbp). The phylogenetic composition of the prokaryotic community was assessed by evaluation of a pyrosequencing-derived data set and sequencing of 16S rRNA genes. The Proteobacteria (mainly Betaproteobacteria), Bacteroidetes, and Actinobacteria were the predominant phylogenetic groups. In addition, isolation of psychrophilic microorganisms was performed, and 13 different bacterial isolates were recovered. Analysis of the 16S rRNA gene sequences of the isolates revealed that all were affiliated to the predominant groups. As expected for microorganisms residing in a low-nutrient environment, a high metabolic versatility with respect to degradation of organic substrates was detected by analysis of the pyrosequencing-derived data set. The presence of autotrophic microorganisms was indicated by identification of genes typical for different ways of carbon fixation. In accordance with the results of the phylogenetic studies, in which mainly aerobic and facultative aerobic bacteria were detected, genes typical for central metabolism of aerobes were found. Nevertheless, the capability of growth under anaerobic conditions was indicated by genes involved in dissimilatory nitrate/nitrite reduction. Numerous characteristics for metabolic adaptations associated with a psychrophilic lifestyle, such as formation of cryoprotectants and maintenance of membrane fluidity by the incorporation of unsaturated fatty acids, were detected. Thus, analysis of the glacial metagenome provided insights into the microbial life in frozen habitats on Earth, thereby possibly shedding light onto microbial life in analogous extraterrestrial environments."],["dc.description.sponsorship","German Bundesministerium fur Bildung und Forschung"],["dc.identifier.doi","10.1128/AEM.00946-09"],["dc.identifier.isi","000271944800026"],["dc.identifier.pmid","19801459"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/55731"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Amer Soc Microbiology"],["dc.relation.issn","0099-2240"],["dc.title","Phylogenetic Diversity and Metabolic Potential Revealed in a Glacier Ice Metagenome"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]