Genome Sequence Of Bacillus Safensis Cfa06, Isolated From Biodegraded Petroleum In Brazil.

Bacillus safensis is a microorganism recognized for its biotechnological and industrial potential due to its interesting enzymatic portfolio. Here, as a means of gathering information about the importance of this species in oil biodegradation, we report a draft genome sequence of a strain isolated from petroleum.

Genome mining of endophytic streptomyces wadayamensis reveals high antibiotic production capability

The actinobacteria Streptomyces wadayamensis A23, an endophitic strain, was recently sequenced and previous work showed qualitatively that the strain inhibits the growth of some pathogens. Herein we report the genome analysis of S. wadayamensis which reveals several antibiotic biosynthetic pathways. Using mass spectrometry, we were able to identify desferoxamines, several antimycins and candicidin, as predicted. Additionally, it was possible to confirm that the biosynthetic machinery of the strain when compared to identified known metabolites is far underestimated. As suggested by biochemical qualitative tests, genome encoded information reveals that the strain A23 has high capability to produce antibiotics.The actinobacteria Streptomyces wadayamensis A23, an endophitic strain, was recently sequenced and previous work showed qualitatively that the strain inhibits the growth of some pathogens. Herein we report the genome analysis of S. wadayamensis which reve27814651475FAPESP - FUNDAÇÃO DE AMPARO À PESQUISA DO ESTADO DE SÃO PAULOCNPQ - CONSELHO NACIONAL DE DESENVOLVIMENTO CIENTÍFICO E TECNOLÓGICO2014/12727-5; 2010/51677-2; 2013/12598-8; 2015/01013-4162191/2015-4; 130933/2015-5We gratefully acknowledge FAPESP (project grant 2014/12727-5 to L. G. O. and 2010/51677-2 to M. N. E.), PETROBRAS (grant 4712-0), and the University of Campinas. C. F. F. A. and B. S. P. acknowledges CNPq (studentships 162191/2015-4 and 130933/2015-5). A

Could petroleum biodegradation be a joint achievement of aerobic and anaerobic microrganisms in deep sea reservoirs?

Several studies suggest that petroleum biodegradation can be achieved by either aerobic or anaerobic microorganisms, depending on oxygen input or other electron acceptors and appropriate nutrients. Evidence from in vitro experiments with samples of petroleum formation water and oils from Pampo Field indicate that petroleum biodegradation is more likely to be a joint achievement of both aerobic and anaerobic bacterial consortium, refining our previous observations of aerobic degradation. The aerobic consortium depleted, in decreasing order, hydrocarbons > hopanes > steranes > tricyclic terpanes while the anaerobic consortium depleted hydrocarbons > steranes > hopanes > tricyclic terpanes. The oxygen content of the mixed consortia was measured from time to time revealing alternating periods of microaerobicity (O2 ~0.8 mg.L-1) and of aerobicity (O2~6.0 mg.L-1). In this experiment, the petroleum biodegradation changed from time to time, alternating periods of biodegradation similar to the aerobic process and periods of biodegradation similar to the anaerobic process. The consortia showed preferences for metabolizing hydrocarbons > hopanes > steranes > tricyclic terpanes during a 90-day period, after which this trend changed and steranes were more biodegraded than hopanes. The analysis of aerobic oil degrading microbiota by the 16S rRNA gene clone library detected the presence of Bacillus, Brevibacterium, Mesorhizobium and Achromobacter, and the analysis of the anaerobic oil degrading microbiota using the same technique detected the presence of Bacillus and Acinetobacter (facultative strains). In the mixed consortia Stenotrophomonas, Brevibacterium, Bacillus, Rhizobium, Achromobacter and 5% uncultured bacteria were detected. This is certainly a new contribution to the study of reservoir biodegradation processes, combining two of the more important accepted hypotheses

Cover Picture: New Cyclodepsipeptide Derivatives Revealed by Genome Mining and Molecular Networking (27/2019)

The cover picture shows a graphic illustration of a DNA being “mined” for encoding genes that combined comprise the minimal information to architect a molecule or group of molecules produced as secondary metabolite in a wild type strain or in a heterologous host when the whole pathway machinery is transported. The genes represented by arrows and codifying VLM1 and VLM2 giant proteins' interconnect four modules with high versatility to produce cyclodepsipeptides. Combining molecular networking analysis as dereplication tool (on top) unraveled new cyclodepsipeptide derivatives produced by valinomycin biosynthetic pathway. More information can be found in the Communication by De Oliveira et. al (DOI: 10.1002/slct.201900922). Artwork by C. F. F. Angolin

New cyclodepsipeptide derivatives revealed by genome mining and molecular networking

Genome mining and molecular networking analyses have revealed a renewed capacity to uncover molecules and biosynthetic pathways from bacterial secondary metabolism. The present study describes the association of genome mining and molecular networking to correlate production of valinomycin cyclodepsipeptide derivatives by Streptomyces sp. CBMAI 2042. Additionally, expression of the entire gene cluster in a heterologous host successfully allowed the association of this biosynthetic assembly to the production of montanastatin, valinomycin and at least five structural analogues, revealing a plasticity of the modules and an interesting thioesterase activity capable of assembling two or three units of the tetradepsipeptide monomer

Cover picture: new cyclodepsipeptide derivatives revealed by genome mining and molecular networking (27/2019)

The cover picture shows a graphic illustration of a DNA being “mined” for encoding genes that combined comprise the minimal information to architect a molecule or group of molecules produced as secondary metabolite in a wild type strain or in a heterologous host when the whole pathway machinery is transported. The genes represented by arrows and codifying VLM1 and VLM2 giant proteins' interconnect four modules with high versatility to produce cyclodepsipeptides. Combining molecular networking analysis as dereplication tool (on top) unraveled new cyclodepsipeptide derivatives produced by valinomycin biosynthetic pathway. More information can be found in the Communication by De Oliveira et. al (DOI: 10.1002/slct.201900922). Artwork by C. F. F. Angolin

Mass spectrometry-guided genome mining as a tool to uncover novel natural products

A mass spectrometry-guided genome mining protocol is established and described here. It is based on genome sequence information and LC-MS/MS analysis and aims to facilitate identification of molecules from complex microbial and plant extracts. The chemical space covered by natural products is immense and widely unrecognized. Therefore, convenient methodologies to perform wide-ranging evaluation of their functions in nature and potential human benefits (e.g., for drug discovery applications) are desired. This protocol describes the combination of genome mining (GM) and molecular networking (MN), two contemporary approaches that match gene cluster-encoded annotations in whole genome sequencing with chemical structure signatures from crude metabolic extracts. This is the first step towards the discovery of new natural entities. These concepts, when applied together, are defined here as MS-guided genome mining. In this method, the main components are previously designated (using MN), and structurally related new candidates are associated with genome sequence annotations (using GM). Combining GM and MN is a profitable strategy to target new molecule backbones or harvest metabolic profiles in order to identify analogues from already known compounds

New cyclodepsipeptide derivatives revealed by genome mining

Genome mining and molecular networking analyses have revealed a renewed capacity to uncover molecules and biosynthetic pathways from bacterial secondary metabolism. The present study describes the association of genome mining and molecular networking to correlate production of valinomycin cyclodepsipeptide derivatives by Streptomyces sp. CBMAI 2042. Additionally, expression of the entire gene cluster in a heterologous host successfully allowed the association of this biosynthetic assembly to the production of montanastatin, valinomycin and at least five structural analogues, revealing a plasticity of the modules and an interesting thioesterase activity capable of assembling two or three units of the tetradepsipeptide monomer42777857790CAPES - Coordenação de Aperfeiçoamento de Pessoal e Nível SuperiorCNPQ - Conselho Nacional de Desenvolvimento Científico e TecnológicoFAPESP – Fundação de Amparo à Pesquisa Do Estado De São PauloNão tem140824/2017-0; 162191/2015-4; 313492/2017-42014/12727-5; 2014/50249-8; 2013/12598-8; 2015/01013-

Reactions involved in phenolics degradation from sugarcane juice treated by ozone

Ozone as an alternative process for the clarification of sugarcane juice has been studied because it presents as an advantage the mineralization of organic compounds that cause color in the crystal sugar. No residues harmful to humans were found after ozonation in contrast to the sulphitation process traditionally used. In this work, the degradation by ozonation of flavonoids and phenolic acids were studied using two compounds: rutin and caffeic acid. Ozonation was efficient and was monitored by liquid chromatography, UV scanning and direct infusion electrospray ionization mass spectrometry. From the collected data, degradation mechanisms and potential mineralization of rutin and caffeic acid after ozonation were proposed414369375CONSELHO NACIONAL DE DESENVOLVIMENTO CIENTÍFICO E TECNOLÓGICO - CNPQFUNDAÇÃO DE AMPARO À PESQUISA DO ESTADO DE SÃO PAULO - FAPESP310367/2013-1; 310367/2013-12014/03512-5; 2009/54635-1; 2009/54635-1; 2014/03512-5The authors thank the São Paulo Research Foundation (FAPESP # 2014/03512-5 and 2009/54635-1) and the National Council for Scientific and Technological Development (CNPq # 310367/2013-1) for financial support and grant for J.A.S.S. The authors are grateful to Dr. N.T.C. Magri and J.L.M. Campiol of the University of São Paulo for valuable technical support in ozone analysi