Wissensstandsanalyse zu Qualität, Verbraucherschutz und Verarbeitung ökologischer Lebensmittel

Zielsetzung des Projektes war es, den aktuellen Stand des Wissens zur Qualität und Verarbeitung ökologischer Lebensmittel sowie zum Verbraucherschutz aufzuzeigen und zu bewerten. Das Projektteam setzte sich aus Wissenschaftlern des Forschungsinstituts für biologischen Landbau (Deutschland und Schweiz), des Büros für Lebensmittelkunde, des Forschungsrings für Biologisch-Dynamische Wirtschaftsweise e.V. sowie des Fachgebiets Ökologische Lebensmittelqualität und Ernährungskultur der Universität Kassel zusammen. In dem zeitlich sehr begrenzten Projekt fokussierte die Arbeitsgruppe die Betrachtung auf folgende Themenkomplexe und Produktgruppen: Bereich Qualität - Ernährung - Sensorik - Ökospezifische Qualitäten - Authentizität und Rückverfolgbarkeit Bereich Verarbeitung - Rohwaren/Lagerung und Technologien für die Produktgruppen: -- Getreide -- Milch -- Fleisch -- Obst und Gemüse und Erzeugnisse aus diesen - Nachhaltigkeit im Unternehmen und entlang der Prozesskette - Verpackung Vorhandenes Wissen, aktuelle Fragestellungen und Entwicklungsrichtungen wurden nach thematisch angepassten Vorgehensweisen identifiziert und anhand internationaler Literatur und Experteninterviews diskutiert. Zu allen Themenkomplexen wurden kurze und allgemeinverständliche Reports erstellt, die einen schnellen und fundierten Überblick zum aktuellen Stand des Wissens und zu eventuellen Wissenslücken geben. Der Abschlussreport wurde in deutscher und englischer Sprache veröffentlicht. Insgesamt wurde festgestellt, dass in den betrachteten Themenkomplexen erheblicher Bedarf an Forschung und Entwicklung sowie an Wissenstransfer besteht. Neben einer Reihe von Detailfragen sind grundlegende Themen, wie beispielsweise das Anforderungsprofil an eine „ökologische Verarbeitung“, nicht hinreichend erforscht und geklärt. Diese Arbeiten sind jedoch Voraussetzung für die Bearbeitung von Detailthemen, da hier Aufgabenstellungen, Schwerpunktsetzungen und Methoden definiert werden

Analyses of competent and non-competent subpopulations of Bacillus subtilis reveal yhfW, yhxC and ncRNAs as novel players in competence

Upon competence-inducing nutrient-limited conditions, only part of the Bacillus subtilis population becomes competent. Here, we separated the two subpopulations by fluorescence-assisted cell sorting (FACS). Using RNA-seq, we confirmed the previously described ComK regulon. We also found for the first time significantly downregulated genes in the competent subpopulation. The downregulated genes are not under direct control by ComK but have higher levels of corresponding antisense RNAs in the competent subpopulation. During competence, cell division and replication are halted. By investigating the proteome during competence, we found higher levels of the regulators of cell division, MinD and Noc. The exonucleases SbcC and SbcD were also primarily regulated at the post-transcriptional level. In the competent subpopulation, yhfW was newly identified as being highly upregulated. Its absence reduces the expression of comG, and has a modest, but statistically significant effect on the expression of comK. Although expression of yhfW is higher in the competent subpopulation, no ComK-binding site is present in its promoter region. Mutants of yhfW have a small but significant defect in transformation. Metabolomic analyses revealed significant reductions in tricarboxylic acid (TCA) cycle metabolites and several amino acids in a ΔyhfW mutant. RNA-seq analysis of ΔyhfW revealed higher expression of the NAD synthesis genes nadA, nadB and nadC

The Bacillus subtilis Minimal Genome Compendium

To better understand cellular life, it is essential to decipher the contribution of individual components and their interactions. Minimal genomes are an important tool to investigate these interactions. Here, we provide a database of 105 fully annotated genomes of a series of strains with sequential deletion steps of the industrially relevant model bacterium Bacillus subtilis starting with the laboratory wild type strain B. subtilis 168 and ending with B. subtilis PG38, which lacks approximately 40% of the original genome. The annotation is supported by sequencing of key intermediate strains as well as integration of literature knowledge for the annotation of the deletion scars and their potential effects. The strain compendium presented here represents a comprehensive genome library of the entire MiniBacillus project. This resource will facilitate the more effective application of the different strains in basic science as well as in biotechnology

<i>Staphylococcus aureus </i>Transcriptome Architecture:From Laboratory to Infection-Mimicking Conditions

Staphylococcus aureus is a major pathogen that colonizes about 20% of the human population. Intriguingly, this Gram-positive bacterium can survive and thrive under a wide range of different conditions, both inside and outside the human body. Here, we investigated the transcriptional adaptation of S. aureus HG001, a derivative of strain NCTC 8325, across experimental conditions ranging from optimal growth in vitro to intracellular growth in host cells. These data establish an extensive repertoire of transcription units and non-coding RNAs, a classification of 1412 promoters according to their dependence on the RNA polymerase sigma factors SigA or SigB, and allow identification of new potential targets for several known transcription factors. In particular, this study revealed a relatively low abundance of antisense RNAs in S. aureus, where they overlap only 6% of the coding genes, and only 19 antisense RNAs not co-transcribed with other genes were found. Promoter analysis and comparison with Bacillus subtilis links the small number of antisense RNAs to a less profound impact of alternative sigma factors in S. aureus. Furthermore, we revealed that Rho-dependent transcription termination suppresses pervasive antisense transcription, presumably originating from abundant spurious transcription initiation in this A+T-rich genome, which would otherwise affect expression of the overlapped genes. In summary, our study provides genome-wide information on transcriptional regulation and non-coding RNAs in S. aureus as well as new insights into the biological function of Rho and the implications of spurious transcription in bacteria

Základy půdní úrodnosti

Zvyšování půdní úrodnosti bylo pro průkopníky ekologického zemědělství základem veškerého jejich úsilí. Přesto zachování úrodné půdy mnohdy nebyla věnována dostatečná pozornost. Ekologické zemědělství je však na přirozené půdní úrodnosti závislé. Oslabená a poškozená půda nám nemůže poskytnout to, co od ní očekáváme. Udržet úrodnost půdy vyžaduje velkou péči. Předkládaná brožura ukazuje půdní úrodnost z různých úhlů pohledu. Naším záměrem však nebylo vytvořit obecně platný „návod k použití“. Informace mají být mnohem spíše podnětem k tomu, aby se o vztahu člověka k půdě smýšlelo jinak a aby se tento vztah utvářel ve prospěch budoucnosti

A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.

Data-independent acquisition mass spectrometry promises higher performance in terms of quantification and reproducibility compared to data-dependent acquisition mass spectrometry methods. To enable high-accuracy quantification of Staphylococcus aureus proteins, we have developed a global ion library for data-independent acquisition approaches employing high-resolution time of flight or Orbitrap instruments for this human pathogen. We applied this ion library resource to investigate the time-resolved adaptation of S. aureus to the intracellular niche in human bronchial epithelial cells and in a murine pneumonia model. In epithelial cells, abundance changes for more than 400 S. aureus proteins were quantified, revealing, e.g., the precise temporal regulation of the SigB-dependent stress response and differential regulation of translation, fermentation, and amino acid biosynthesis. Using an in vivo murine pneumonia model, our data-independent acquisition quantification analysis revealed for the first time the in vivo proteome adaptation of S. aureus. From approximately 2.15 × 1

Grundlagen zur Bodenfruchtbarkeit - Die Beziehung zum Boden gestalten

Die Broschüre beleuchtet die Bodenfruchtbarkeit aus verschiedenen wissenschaftlichen und bäuerlichen Blickwinkeln. Die Informationen wollen praktische Beobachtungen der Landwirte ergänzen und dazu anregen, die Beziehung zum Boden zu überdenken und eine wirklich nachhaltige Bodenkultur zu praktizieren

Extensive alterations of the whole-blood transcriptome are associated with body mass index: results of an mRNA profiling study involving two large population-based cohorts

Background: Obesity, defined as pathologically increased body mass index (BMI),is strongly related to an increased risk for numerous common cardiovascular and metabolic diseases. It is particularly associated with insulin resistance, hyperglycemia, and systemic oxidative stress and represents the most important risk factor for type 2 diabetes (T2D). However, the pathophysiological mechanisms underlying these associations are still not completely understood. Therefore, in order to identify potentially disease-relevant BMI-associated gene expression signatures, a transcriptome-wide association study (TWAS) on BMI was performed. Methods: Whole-blood mRNA levels determined by array-based transcriptional profiling were correlated with BMI in two large independent population-based cohort studies (KORA F4 and SHIP-TREND) comprising a total of 1977 individuals. Results: Extensive alterations of the whole-blood transcriptome were associated with BMI: More than 3500 transcripts exhibited significant positive or negative BMI-correlation. Three major whole-blood gene expression signatures associated with increased BMI were identified. The three signatures suggested: i) a ratio shift from mature erythrocytes towards reticulocytes, ii) decreased expression of several genes essentially involved in the transmission and amplification of the insulin signal, and iii) reduced expression of several key genes involved in the defence against reactive oxygen species (ROS). Conclusions: Whereas the first signature confirms published results, the other two provide possible mechanistic explanations for well-known epidemiological findings under conditions of increased BMI, namely attenuated insulin signaling and increased oxidative stress. The putatively causative BMI-dependent down-regulation of the expression of numerous genes on the mRNA level represents a novel finding. BMI-associated negative transcriptional regulation of insulin signaling and oxidative stress management provide new insights into the pathogenesis of metabolic syndrome and T2D