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1.
Microbiol Resour Announc ; 12(3): e0122522, 2023 Mar 16.
Artículo en Inglés | MEDLINE | ID: mdl-36723091

RESUMEN

Here, we report the high-quality draft genome sequence of the actinomycete Streptomyces albidoflavus CCOS 2040, isolated from a Swiss soil sample. The genome contains 7,136,301 bp with 73.35% GC content. In total, 22 biosynthetic gene clusters, including polyketides and terpenes, were predicted within the sequenced genome.

2.
Chimia (Aarau) ; 75(3): 215-218, 2021 Mar 31.
Artículo en Inglés | MEDLINE | ID: mdl-33766208

RESUMEN

When the SARS-CoV-2 pandemic started,[1] science came to the immediate attention of the broad public. People and politicians were hanging on every word of medical doctors, virologists, molecular biologists, data scientists and many others in the hope of finding other protective measures than those used for centuries such as basic hygiene, distance, or quarantine. Here, at the Institute of Chemistry and Biotechnology at the Zurich University of Applied Sciences (ZHAW) we were also willing to provide scientific solutions to overcome the pandemic. Together with our partners from industry, we contributed to the development of a Swiss vaccine, are working on filters for active ventilated full protective suits and are developing tests to show the efficacy and safety of an active antiviral textile that allows controlled virus inactivation through an electrochemical reaction by applying a small current.


Asunto(s)
COVID-19 , Universidades , Academias e Institutos , Humanos , Pandemias , SARS-CoV-2
3.
Chimia (Aarau) ; 74(5): 382-390, 2020 May 27.
Artículo en Inglés | MEDLINE | ID: mdl-32482215

RESUMEN

Actinomycetes strains isolated from different habitats in Switzerland were investigated for production of antibacterial and antitumoral compounds. Based on partial 16S rRNA gene sequences, the isolated strains were identified to genus level. Streptomyces as the largest genus of Actinobacteriawas isolated the most frequently. A screening assay using the OmniLog instrument was established to facilitate the detection of active compounds from actinomycetes. Extracts prepared from the cultivated strains able to inhibit Staphylococcus aureusand Escherichia coliwere further analysed by HPLC and MALDI-TOF MS to identify the produced antibiotics. In this study, the bioactive compound echinomycin was identified from two isolated Streptomycesstrains. Natural compounds similar to TPU-0037-C, azalomycin F4a 2-ethylpentyl ester, a derivative of bafilomycin A1, milbemycin-α8 and dihydropicromycin were detected from different isolated Streptomyces strains. Milbemycin-α8 showed cytotoxic activity against HT-29 colon cancer cells. The rare actinomycete,Micromonospora sp. Stup16_C148 produced a compound that matches with the antibiotic bottromycin A2. The draft genome sequence from Actinokineospora strain B136.1 was determined using Illumina and nanopore-based technologies. The isolated strain was not able to produce antibacterial compounds under standard cultivation conditions. The antiSMASH bioinformatics analyses of the genome from strain B136.1 identified biosynthetic gene clusters with identity values between 4% to 90% to known gene clusters encoding antibiotics. The combinations of cultivation conditions, screening assays, analytical methods and genome mining are important tools to characterize strains of actinomycetes for the identification of their potential to produce natural compounds with antimicrobial activity.


Asunto(s)
Actinobacteria , ARN Ribosómico 16S , Streptomyces , Suiza
4.
ChemMedChem ; 15(8): 675-679, 2020 04 20.
Artículo en Inglés | MEDLINE | ID: mdl-32083799

RESUMEN

Sentrin-specific proteases (SENPs) are responsible for the maturation of small ubiquitin-like modifiers (SUMOs) and the deconjugation of SUMOs from their substrate proteins. Studies on prostate cancer revealed an overexpression of SENP1, which promotes prostate cancer progression as well as metastasis. Therefore, SENP1 has been identified as a novel drug target against prostate cancer. Herein, we report the discovery and biological evaluation of potent and selective SENP1 inhibitors. A structure-activity relationship (SAR) of the newly identified pyridone scaffold revealed allosteric inhibitors with very attractive in vitro ADMET properties regarding plasma binding and plasma stability for this challenging target. This study also emphasizes the importance of biochemical mode of inhibition studies for de novo designed inhibitors.


Asunto(s)
Cisteína Endopeptidasas/metabolismo , Descubrimiento de Drogas , Inhibidores de Proteasas/farmacología , Relación Dosis-Respuesta a Droga , Humanos , Estructura Molecular , Inhibidores de Proteasas/síntesis química , Inhibidores de Proteasas/química
5.
Microbiol Resour Announc ; 8(39)2019 Sep 26.
Artículo en Inglés | MEDLINE | ID: mdl-31558637

RESUMEN

Minor differences in the previously obtained genome of Pseudomonas protegens CHA0 were detected after resequencing the strain. Based on this, the genome size slightly increased. Additionally, we performed a manual annotation of genes involved in biocontrol and insect pathogenicity. This annotation version will be the basis for upcoming genome studies.

6.
Chembiochem ; 20(12): 1569-1577, 2019 06 14.
Artículo en Inglés | MEDLINE | ID: mdl-30758121

RESUMEN

Many drug candidate molecules contain at least one chiral centre, and consequently, the development of biocatalytic strategies to complement existing metal- and organocatalytic approaches is of high interest. However, time is a critical factor in chemical process development, and thus, the introduction of biocatalytic steps, even if more suitable, is often prevented by the limited availability of off-the-shelf enzyme libraries. To expand the biocatalytic toolbox with additional ene reductases, we screened 19 bacterial strains for double bond reduction activity by using the model substrates cyclohexanone and carvone. Overall, we identified 47 genes coding for putative ene reductases. Remarkably, bioinformatic analysis of all genes and the biochemical characterization of four representative novel ene reductases led us to propose the existence of two new Old Yellow Enzyme subclasses, which we named OYE class III and class IV. Our results demonstrate that although, on a DNA level, each new OYE subclass features a distinct combination of sequence motifs previously known from the classical and the thermophilic-like group, their substrate scope more closely resembles the latter subclass.


Asunto(s)
Bacterias/enzimología , NADPH Deshidrogenasa , Biocatálisis , NADPH Deshidrogenasa/química , NADPH Deshidrogenasa/clasificación , Oxidación-Reducción
7.
Artículo en Inglés | MEDLINE | ID: mdl-30687835

RESUMEN

We have sequenced and assembled the genome of Pseudomonas reidholzensis CCOS 865T, which was isolated in 2014 from forest soil. Members of the genus Pseudomonas play important roles in environmental systems and are utilized in many biotechnological processes. The genome of this species may provide an important resource for the discovery of novel enzyme activities.

8.
Angew Chem Int Ed Engl ; 58(12): 4051-4055, 2019 03 18.
Artículo en Inglés | MEDLINE | ID: mdl-30615822

RESUMEN

De novo drug discovery is still a challenge in the search for potent and selective modulators of therapeutically relevant target proteins. Here, we disclose the unexpected discovery of a peptidic ligand 1 by X-ray crystallography, which was auto-tailored by the therapeutic target MMP-13 through partial self-degradation and subsequent structure-based optimization to a highly potent and selective ß-sheet peptidomimetic inhibitor derived from the endogenous tissue inhibitors of metalloproteinases (TIMPs). The incorporation of non-proteinogenic amino acids in combination with a cyclization strategy proved to be key for the de novo design of TIMP peptidomimetics. The optimized cyclic peptide 4 (ZHAWOC7726) is membrane permeable with an IC50 of 21 nm for MMP-13 and an attractive selectivity profile with respect to a polypharmacology approach including the anticancer targets MMP-2 (IC50 : 170 nm) and MMP-9 (IC50 : 140 nm).


Asunto(s)
Diseño de Fármacos , Inhibidores de Proteasas/química , Sitios de Unión , Cristalografía por Rayos X , Ciclización , Metaloproteinasa 13 de la Matriz/química , Metaloproteinasa 13 de la Matriz/metabolismo , Inhibidores de la Metaloproteinasa de la Matriz/síntesis química , Inhibidores de la Metaloproteinasa de la Matriz/química , Inhibidores de la Metaloproteinasa de la Matriz/metabolismo , Simulación de Dinámica Molecular , Péptidos Cíclicos/química , Péptidos Cíclicos/metabolismo , Peptidomiméticos , Inhibidores de Proteasas/síntesis química , Inhibidores de Proteasas/metabolismo , Inhibidores Tisulares de Metaloproteinasas/química
9.
Artículo en Inglés | MEDLINE | ID: mdl-30533735

RESUMEN

Pseudomonas wadenswilerensis CCOS 864T was isolated in 2014 from forest soil. The organism belongs taxonomically to the Pseudomonas putida group, members of which have been well studied for their potential in biotechnological applications. We present here the draft genome sequence of P. wadenswilerensis CCOS 864T.

10.
Int J Syst Evol Microbiol ; 65(Pt 6): 1779-1785, 2015 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-26184665

RESUMEN

Psychrophilic bacterial strains were isolated from alpine glaciers in Switzerland and characterized taxonomically. On the basis of phylogenetic analysis of partial 16S rRNA and rpoB genes, three of those strains, strain 79 ( = CCOS 247), strain 4/58 ( = CCOS 250) and strain 4/56 ( = CCOS 258) clustered together with strain Cr9-12T and separately from the type strains Glaciimonas immobilis Cr9-30T and Glaciimonas singularis LMG 27070T. Strain Cr9-12T has been previously described as a strain of G. immobilis. The three newly isolated strains were compared phenotypically with strain Cr9-12T and with the type strains of the species G. immobilis and G. singularis. Cr9-12T and the three novel strains from an alpine glacier in Switzerland were Gram-stain-negative, non-motile, rod-shaped and psychrophilic and showed good growth throughout a temperature range of 1-20 °C and characteristically oxidized d-mannitol, l-fucose and bromosuccinic acid. The predominant cellular fatty acids of strain Cr9-12T and the three novel strains were summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), C16 : 0 and C18 : 1ω7c. The respiratory quinone of these strains was ubiquinone 8 (UQ-8). The genomic DNA G+C content of Cr9-12T was 49.2 mol%. The combined data from phenotypic, phylogenetic and DNA-DNA relatedness studies strongly support the reclassification of strain Cr9-12T as representing a novel species. This strain and the isolates 79 ( = CCOS 247), 4/58 ( = CCOS 250) and 4/56 ( = CCOS 258) are representatives of a novel species of the genus Glaciimonas, for which the name Glaciimonas alpina sp. nov. is proposed. The type strain of Glaciimonas alpina is Cr9-12T ( = CCOS 761T = DSM 22814T).


Asunto(s)
Cubierta de Hielo/microbiología , Oxalobacteraceae/clasificación , Filogenia , Técnicas de Tipificación Bacteriana , Composición de Base , ADN Bacteriano/genética , Ácidos Grasos/química , Datos de Secuencia Molecular , Hibridación de Ácido Nucleico , Oxalobacteraceae/genética , Oxalobacteraceae/aislamiento & purificación , ARN Ribosómico 16S/genética , Análisis de Secuencia de ADN , Suiza , Ubiquinona/química
11.
Genome Announc ; 3(3)2015 Jun 11.
Artículo en Inglés | MEDLINE | ID: mdl-26067963

RESUMEN

We sequenced the complete genome of the isolate Pseudomonas sp. CCOS 191. This strain is able to dissolve phosphate minerals and form cyanide. The genome sequence is used to establish the phylogenetic relationship of this species.

12.
Biochem Biophys Res Commun ; 431(1): 70-5, 2013 Feb 01.
Artículo en Inglés | MEDLINE | ID: mdl-23277102

RESUMEN

The human ether-a-go-go related gene (hERG) potassium channel plays a major role in the repolarization of the cardiac action potential. Inhibition of the hERG function by mutations or a wide variety of pharmaceutical compounds cause long QT syndrome and lead to potentially lethal arrhythmias. For detailed insights into the structural and biochemical background of hERG function and drug binding, the purification of recombinant protein is essential. Because the hERG channel is a challenging protein to purify, fast and easy techniques to evaluate different expression, solubilization and purification conditions are of primary importance. Here, we describe the generation of a set of 12 monoclonal antibodies against hERG. Beside their suitability in western blot, immunoprecipitation and immunostaining, these antibodies were used to establish a sandwich ELISA for the detection and relative quantification of hERG in different expression systems. Furthermore, a Fab fragment was used in fluorescence size exclusion chromatography to determine the oligomeric state of hERG after solubilization. These new tools can be used for a fast and efficient screening of expression, solubilization and purification conditions.


Asunto(s)
Anticuerpos Monoclonales/biosíntesis , Ensayo de Inmunoadsorción Enzimática , Canales de Potasio Éter-A-Go-Go/análisis , Animales , Anticuerpos Monoclonales/inmunología , Anticuerpos Monoclonales/aislamiento & purificación , Cromatografía en Gel/métodos , Canal de Potasio ERG1 , Canales de Potasio Éter-A-Go-Go/inmunología , Canales de Potasio Éter-A-Go-Go/aislamiento & purificación , Células HEK293 , Humanos , Fragmentos Fab de Inmunoglobulinas , Ratones
13.
Chimia (Aarau) ; 64(11): 782-3, 2010.
Artículo en Inglés | MEDLINE | ID: mdl-21197840

RESUMEN

Culture collections provide starting material for life science research, development and production. Especially in biotechnology, well characterised and pure microbial strains are essential for reproducible and safe bioprocesses. Culture collections also play a role as repositories of biological material for future applications and help to preserve biological diversity. In addition, they also maintain the know-how needed for more complex identification methods and help to develop new techniques. To enable culture collections to achieve higher quality standards, new certification guidelines for biological resource centres are currently being developed.


Asunto(s)
Biotecnología , Microbiología , Control de Calidad
14.
Emerg Infect Dis ; 15(1): 98-100, 2009 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-19116063

RESUMEN

We report on the molecular evidence that Dermacentor reticulatus ticks in Croatia are infected with Rickettsia helvetica (10%) or Rickettsia slovaca (2%) or co-infected with both species (1%). These findings expand the knowledge of the geographic distribution of R. helvetica and D. reticulatus ticks.


Asunto(s)
Vectores Arácnidos/microbiología , Dermacentor/microbiología , Rickettsia , Animales , Proteínas de la Membrana Bacteriana Externa/genética , Croacia , ADN Bacteriano/análisis , ADN Bacteriano/aislamiento & purificación , ADN Espaciador Ribosómico/análisis , Rickettsia/clasificación , Rickettsia/genética , Rickettsia/aislamiento & purificación , Análisis de Secuencia de ADN
15.
Syst Appl Microbiol ; 26(3): 350-6, 2003 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-14529177

RESUMEN

The nucleotide sequences of the genes encoding the F1F0-ATPase beta-subunit from Oenococcus oeni, Leuconostoc mesenteroides subsp. mesenteroides, Pediococcus damnosus, Pediococcus parvulus, Lactobacillus brevis and Lactobacillus hilgardii were determined. Their deduced amino acid sequences showed homology values of 79-98%. Data from the alignment and ATPase tree indicated that O. oeni and L. mesenteroides subsp. mesenteroides formed a group well-separated from P. damnosus and P. parvulus and from the group comprises L. brevis and L. hilgardii. The N-terminus of the F1F0-ATPase beta-subunit of O. oeni contains a stretch of additional 38 amino acid residues. The catalytic site of the ATPase beta-subunit of the investigated strains is characterized by the two conserved motifs GGAGVGKT and GERTRE. The amplified atpD coding sequences were inserted into the pCRT7/CT-TOPO vector using TA-cloning strategy and transformed in Escherichia coli. SDS-PAGE and Western blot analyses confirmed that O. oeni has an ATPase beta-subunit protein which is larger in size than the corresponding molecules from the investigated strains.


Asunto(s)
Bacterias Grampositivas/enzimología , Bacterias Grampositivas/genética , Ácido Láctico/biosíntesis , Vino/microbiología , Secuencia de Aminoácidos , Proteínas Bacterianas/aislamiento & purificación , ATPasas de Translocación de Protón Bacterianas/genética , Western Blotting , ADN Bacteriano/química , ADN Bacteriano/aislamiento & purificación , Electroforesis en Gel de Poliacrilamida , Microbiología de Alimentos , Lactobacillus/enzimología , Lactobacillus/genética , Leuconostoc/enzimología , Leuconostoc/genética , Datos de Secuencia Molecular , Pediococcus/enzimología , Pediococcus/genética , Filogenia , Alineación de Secuencia
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