Publications

Abstract (Expand)

Invasive fungal infections are associated with high mortality rates and are mostly caused by the opportunistic fungi Aspergillus fumigatus and Candida albicans. Immune responses against these fungi are ...

Authors: Andreas Dix, Jörg Linde, Hermann Einsele, Oliver Kurzai, Jürgen Löffler, Czakai K.,Leonhardt I.,Bonin M.

Date Published: 28th Jun 2016

Journal: Sci Rep

Abstract (Expand)

In systems biology, researchers aim to understand complex biological systems as a whole, which is often achieved by mathematical modelling and the analyses of high-throughput data. In this review, we ...

Authors: Andreas Dix, Reinhard Guthke, Jörg Linde, Vlaic S.

Date Published: 27th Apr 2016

Journal: Clin Microbiol Infect

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In the emerging field of systems biology of fungal infection, one of the central roles belongs to the modeling of gene regulatory networks (GRNs). Utilizing omics-data, GRNs can be predicted by ...

Authors: Reinhard Guthke, Theresia Conrad, Ekaterina Shelest, Jörg Linde, Gerber S.,Vlaic S.,Durmus S.,Cakir T.,Sevilgen F. E.

Date Published: 22nd Apr 2016

Journal: Front Microbiol

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Organisms constantly interact with other species through physical contact which leads to changes on the molecular level, for example the transcriptome. These changes can be monitored for all genes, ...

Authors: Sylvie Schulze, Reinhard Guthke, Jörg Linde, Schleicher J.

Date Published: 31st Mar 2016

Journal: Front Microbiol

Abstract (Expand)

Invasive aspergillosis (IA) is a devastating opportunistic infection and its treatment constitutes a considerable burden for the health care system. Immunocompromised patients are at an increased risk ...

Authors: Andreas Dix, Reinhard Guthke, Hermann Einsele, Jörg Linde, Jürgen Löffler, Czakai K.,Springer J.,Fliesser M.,Bonin M.,Schmitt A. L.

Date Published: 21st Mar 2016

Journal: Front Microbiol

Abstract (Expand)

Recent and rapidly evolving progress on high-throughput measurement techniques and computational performance has led to the emergence of new disciplines, such as systems medicine and translational ...

Authors: Theresia Conrad, Reinhard Guthke, Jörg Linde, Schleicher J.,Gustafsson M.,Cedersund G.

Date Published: 10th Feb 2016

Journal: Brief Funct Genomics

Abstract:

Not specified

Authors: Reinhard Guthke, Durmus S.,Cakir T.

Date Published: 4th Feb 2016

Journal: Front Microbiol

Abstract (Expand)

Intestinal epithelial cells (IEC) form a tight barrier to the gut lumen. Paracellular permeability of the intestinal barrier is regulated by tight junction proteins and can be modulated by microorganisms ...

Authors: Sylvie Schulze, Daniela Albrecht-Eckardt, Kerstin Hünniger, Jörg Linde, Reinhard Guthke, Oliver Kurzai, Bohringer M.,Pohlers S.,Piegsa J.,Weber M.,Martin R.

Date Published: 12th Jan 2016

Journal: Cell Microbiol

Abstract (Expand)

Mitogen activated protein kinases (MAPKs) are highly conserved in eukaryotic organisms. In pathogenic fungi, their activities were assigned to different physiological functions including drug adaptation ...

Authors: Reinhard Guthke, Axel Brakhage, Jörg Linde, Altwasser R.,Baldin C.,Weber J.,Kniemeyer O.,Valiante V.

Date Published: 10th Sep 2015

Journal: PLoS One

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More than 80 years after its discovery, penicillin is still a widely used and commercially highly important antibiotic. Here, we analyse the metabolic network of penicillin synthesis in Penicillium ...

Authors: Reinhard Guthke, Stefan Schuster, Prausse M. T.,Schauble S.

Date Published: 19th Aug 2015

Journal: Biotechnol Bioeng

Abstract (Expand)

Fungal microorganisms frequently lead to life-threatening infections. Within this group of pathogens, the commensal Candida albicans and the filamentous fungus Aspergillus fumigatus are by far the most ...

Authors: Christian Remmele, Thomas Dandekar, Tobias Müller, Marcus Dittrich, Luther C. H.,Balkenhol J.

Date Published: 4th Aug 2015

Journal: Front Microbiol

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The diploid, polymorphic yeast Candida albicans is one of the most important human pathogenic fungi. C. albicans can grow, proliferate and coexist as a commensal on or within the human host for a long ...

Authors: Sybille Dühring, Christine Skerka, Peter Zipfel, Thomas Dandekar, Stefan Schuster, Germerodt S.

Date Published: 30th Jun 2015

Journal: Front Microbiol

Abstract (Expand)

Opportunistic fungal pathogens can cause bloodstream infection and severe sepsis upon entering the blood stream of the host. The early immune response in human blood comprises the elimination of pathogens ...

Authors: Sandra Timme, Kerstin Hünniger, Oliver Kurzai, Marc Thilo Figge, Lehnert T.,Pollmacher J.

Date Published: 19th Jun 2015

Journal: Front Microbiol

Abstract (Expand)

Studying the pathobiology of the fungus Aspergillus fumigatus has gained a lot of attention in recent years. This is due to the fact that this fungus is a human pathogen that can cause severe diseases, ...

Authors: Hanno Schoeler, Axel Brakhage, Marc Thilo Figge, Kraibooj K.,Svensson C. M.

Date Published: 9th Jun 2015

Journal: Front Microbiol

Abstract (Expand)

BACKGROUND: Adjusting the capacity of metabolic pathways in response to rapidly changing environmental conditions is an important component of microbial adaptation strategies to stochastic environments. ...

Authors: Christoph Kaleta, de Hijas-Liste G. M.,Balsa-Canto E.,Ewald J.,Bartl M.,Li P.,Banga J. R.

Date Published: 16th May 2015

Journal: BMC Bioinformatics

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Candida albicans and Candida glabrata account for the majority of candidiasis cases worldwide. Although both species are in the same genus, they differ in key virulence attributes. Within this work, ...

Authors: Kerstin Hünniger, Michael Bauer, Ilse Jacobsen, Marc Thilo Figge, Oliver Kurzai, Duggan S.,Essig F.,Mokhtari Z.,Lehnert T.,Brandes S.,Hader A.,Martin R.

Date Published: 5th May 2015

Journal: Cell Microbiol

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In this work, we investigate optimality principles behind synthesis strategies for protein complexes using a dynamic optimization approach. We show that the cellular capacity of protein synthesis has ...

Authors: Christoph Kaleta, Ewald J.,Kotzing M.,Bartl M.

Date Published: 1st May 2015

Journal: Metabolites

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Pathogens manipulate the cellular mechanisms of host organisms via pathogen-host interactions (PHIs) in order to take advantage of the capabilities of host cells, leading to infections. The crucial ...

Authors: Reinhard Guthke, Durmus S.,Cakir T.,Ozgur A.

Date Published: 9th Apr 2015

Journal: Front Microbiol

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Sepsis is a clinical syndrome that can be caused by bacteria or fungi. Early knowledge on the nature of the causative agent is a prerequisite for targeted anti-microbial therapy. Besides currently used ...

Authors: Andreas Dix, Kerstin Hünniger, Reinhard Guthke, Oliver Kurzai, Jörg Linde, Weber M.

Date Published: 11th Mar 2015

Journal: Front Microbiol

Abstract (Expand)

Gene regulatory network inference is a systems biology approach which predicts interactions between genes with the help of high-throughput data. In this review, we present current and updated network ...

Authors: Jörg Linde, Sylvie Schulze, Reinhard Guthke, Henkel S. G.

Date Published: 2nd Mar 2015

Journal: EXCLI J

Abstract (Expand)

Inference of inter-species gene regulatory networks based on gene expression data is an important computational method to predict pathogen-host interactions (PHIs). Both the experimental setup and the ...

Author: Schulze S.,Henkel S. G.,Driesch D.,Guthke R.,Linde J.

Date Published: 6th Feb 2015

Journal: Front Microbiol

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The successful treatment of infectious diseases requires interdisciplinary studies of all aspects of infection processes. The overarching combination of experimental research and theoretical analysis ...

Authors: Sandra Timme, Marc Thilo Figge, Medyukhina A.,Mokhtari Z.

Date Published: 29th Jan 2015

Journal: Cytometry A

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Time-lapse microscopy is an important technique to study the dynamics of various biological processes. The labor-intensive manual analysis of microscopy videos is increasingly replaced by automated ...

Authors: Kerstin Hünniger, Oliver Kurzai, Marc Thilo Figge, Brandes S.,Mokhtari Z.,Essig F.

Date Published: 8th Nov 2014

Journal: Med Image Anal

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Lichtheimia corymbifera is a ubiquitous soilborne zygomycete fungus, which is an opportunistic human pathogen in immunocompromised patients. The fungus can cause life-threatening diseases by attacking ...

Authors: Kaswara Kraibooj, Marc Thilo Figge, Park H. R.,Dahse H. M.,Skerka C.,Voigt K.

Date Published: 1st Sep 2014

Journal: Mycoses

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Nitrogen is one of the key nutrients for microbial growth. During infection, pathogenic fungi like C. albicans need to acquire nitrogen from a broad range of different and changing sources inside the ...

Authors: Jörg Linde, Matthias Brock, Reinhard Guthke, Bernhard Hube, Ramachandra S.,Brunke S.

Date Published: 20th Mar 2014

Journal: PLoS One

Abstract (Expand)

Candida albicans bloodstream infection is increasingly frequent and can result in disseminated candidiasis associated with high mortality rates. To analyze the innate immune response against C. albicans, ...

Authors: Kerstin Hünniger, Marc Thilo Figge, Oliver Kurzai, Lehnert T.,Bieber K.,Martin R.

Date Published: 20th Feb 2014

Journal: PLoS Comput Biol

Abstract (Expand)

Plant hormones involving salicylic acid (SA), jasmonic acid (JA), ethylene (Et), and auxin, gibberellins, and abscisic acid (ABA) are known to regulate host immune responses. However, plant hormone ...

Authors: Thomas Dandekar, Naseem M.,Kunz M.

Date Published: 13th Feb 2014

Journal: Bioinform Biol Insights

Abstract (Expand)

Candida albicans is the most common opportunistic fungal pathogen of the human mucosal flora, frequently causing infections. The fungus is responsible for invasive infections in immunocompromised ...

Authors: Bernhard Hube, Mech F.,Wilson D.,Lehnert T.,Thilo Figge M.

Date Published: 20th Nov 2013

Journal: Cytometry A

Abstract:

ABSTRACT:

Author: Müller Sebastian,Baldin Clara,Groth Marco,Guthke Reinhard,Kniemeyer Olaf,Brakhage Axel A,Valiante Vito

Date Published: 2nd Oct 2012

Journal: BMC Genomics

Abstract (Expand)

The ability to adapt to diverse micro-environmental challenges encountered within a host is of pivotal importance to the opportunistic fungal pathogen Candida albicans. We have quantified C. albicans ...

Authors: Jörg Linde, Bernhard Hube, Reinhard Guthke, Tierney L.,Muller S.,Brunke S.,Molina J. C.,Schock U.,Kuchler K.

Date Published: 12th Mar 2012

Journal: Front Microbiol

Abstract (Expand)

BACKGROUND: In System Biology, iterations of wet-lab experiments followed by modelling approaches and model-inspired experiments describe a cyclic workflow. This approach is especially useful for the ...

Authors: Jörg Linde, Axel Brakhage, Reinhard Guthke, Hortschansky P.,Fazius E.,Haas H.

Date Published: 19th Jan 2012

Journal: BMC Syst Biol

Abstract (Expand)

FungiDB (http://FungiDB.org) is a functional genomic resource for pan-fungal genomes that was developed in partnership with the Eukaryotic Pathogen Bioinformatic resource center (http://EuPathDB.org). ...

Author: Stajich Jason E,Harris Todd,Brunk Brian P,Brestelli John,Fischer Steve,Harb Omar S,Kissinger Jessica C,Li Wei,Nayak Vishal,Pinney Deborah F,Stoeckert Chris J,Roos David S

Date Published: 7th Nov 2011

Journal: Nucleic Acids Res.

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