Sample File "FungiNet_template_RNA-seq_V1.9_Ex_ID_005"
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Cultivation of A. fumigatus in an O2-controlled fermenter and analysed its minute-scale responses to O2 limitation. Transcriptome sequencing revealed a group of genes underlying a rapid and highly dynamic regulation.

SEEK ID: https://funginet.hki-jena.de/data_files/26?version=1

Filename: FungiNet_sample_RNA-seq_V1.9_Ex_ID_005.xlsx

Format: Spreadsheet

Size: 30 KB

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Creators and Submitter

Creators

Jörg Linde
Falk Hillmann
Olaf Kniemeyer

Submitter

Maja Rey

License

Creative Commons Attribution 4.0

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Views: 3115 Downloads: 480

Created: 5th Sep 2017 at 09:21

Last updated: 4th Jun 2018 at 12:41

Version History

Version 1 (earliest) Created 5th Sep 2017 at 09:21 by Maja Rey

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People (4)
Programmes (1)
Projects (2)
Investigations (0+1)
Studies (0+1)
Assays (0+1)
Publications (1)
Samples (12)

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Falk Hillmann

Projects: FungiNet total

Institutions: Leibniz-Institute for Natural Product Research and Infection Biology Hans Knöll Institute (HKI), Friedrich Schiller University Jena, Institute of Microbiology, Dept. of Microbiology and Molecular Biology

Olaf Kniemeyer

Projects: FungiNet total, Z2

Institutions: Leibniz-Institute for Natural Product Research and Infection Biology Hans Knöll Institute (HKI)

https://orcid.org/0000-0002-9493-6402

Expertise: Aspergillus fumigatus, Stress response, Proteomics, Hypoxia

Tools: Proteomics, LC-MS/MS, 2D-gel electrophoresis

Head of the subgroup Stress and Immunoproteomics of the Department of Molecular and Applied Microbiology Department at the HKI

Jörg Linde

Projects: FungiNet A - Aspergillus projects, FungiNet B - Bioinformatics projects, FungiNet C - Candida projects, FungiNet total, INF

Institutions: Leibniz-Institute for Natural Product Research and Infection Biology Hans Knöll Institute (HKI)

Expertise: Bioinformatics, Systems Biology, Host-Pathogen Interaction, Gene Regulatory Network Inference, Integrative Data Analysis

Tools: Systems biological modelling, Genetic analysis, Transcriptomics, Proteomics, Genomics

I study the analysis of high-throughput transcriptom and genome data.

For transcritom data (RNA-Seq, microarrays), I perform preprocessing and statistics to identify differentially expressed genes, as well as their functional analysis. My main focus is the analysis of transcriptom data from human fungal pathogens in infection related conditions (f.e. nutrient limitation) as well as during the interaction with the host (dual RNA-seq). Experimental data is used to set up mathematical models for ...

Maja Rey

Projects: INF, FungiNet total, A1, A2, FungiNet A - Aspergillus projects, A3, A4 (E), A5, A6, FungiNet C - Candida projects, C1, C2, C3, C4 (E), C5, C6 (E), FungiNet B - Bioinformatics projects, B3 (E)

Institutions: HITS Heidelberger Institut für Theoretische Studien gGmbH

Expertise: Data Management, Data Curation, Biochemistry, Molecular Biology, Microbiology, Phytopathology

Tools: SABIO-RK, Seek

Within the de.NBI project my functions in the de.NBI-SysBio node comprise content curation, requirements elicitation, and community engagement for the users of biochemical reaction kinetics database SABIO-RK as well as of the data management platform SEEK.

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Collaborative Research Center / Transregio 124 "Pathogenic fungi and their human host: Networks of Interaction - FungiNet"

The yeast Candida albicans and the filamentous fungus Aspergillus fumigatus are by far the most important causes of life-threatening invasive mycoses in Europe. Despite the increasing incidence of these infections, the current diagnosis is still difficult and often too late, and options for therapies are limited. Moreover, A. fumigatus and C. albicans have developed multiple sophisticated, specific and unique pathogenicity mechanisms. Many of these mechanisms are not well understood. Research on ...

Projects: FungiNet total, FungiNet A - Aspergillus projects, FungiNet B - Bioinformatics projects, FungiNet C - Candida projects, INF, A1, A2, A3, A4 (E), A5, B1, B2, B3 (E), B4, C1, C2, C3, C4 (E), C5, C6 (E), Z2, Z1, B5, A6, A7, A8, C7

Web page: http://www.funginet.de/home.html

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FungiNet total

No description specified

Programme: Collaborative Research Center / Transregio 124 "Pathogenic fungi and their human host: Networks of Interaction - FungiNet"

Public web page: http://www.funginet.de/home.html

Organisms: Aspergillus fumigatus, Candida albicans

Cross talk of Aspergillus fumigatus with neutrophilic granulocytes

Programme: Collaborative Research Center / Transregio 124 "Pathogenic fungi and their human host: Networks of Interaction - FungiNet"

Public web page: http://www.funginet.de/project-a1.html

Organisms: Aspergillus fumigatus

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The novel globin protein fungoglobin is involved in low oxygen adaptation of Aspergillus fumigatus

FungiNet A - Aspergillus projects, INF, Z2

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Jörg Linde

Reinhard Guthke

Axel Brakhage

Olaf Kniemeyer

Abstract (Expand)

The human pathogenic fungus Aspergillus fumigatus normally lives as a soil saprophyte. Its environment includes poorly oxygenated substrates that also occur during tissue invasive growth of the fungus … in the human host. Up to now, few cellular factors have been identified that allow the fungus to efficiently adapt its energy metabolism to hypoxia. Here, we cultivated A. fumigatus in an O2 -controlled fermenter and analysed its responses to O2 limitation on a minute timescale. Transcriptome sequencing revealed several genes displaying a rapid and highly dynamic regulation. One of these genes was analysed in detail and found to encode fungoglobin, a previously uncharacterized member of the sensor globin protein family widely conserved in filamentous fungi. Besides low O2 , iron limitation also induced transcription, but regulation was not entirely dependent on the two major transcription factors involved in adaptation to iron starvation and hypoxia, HapX and SrbA respectively. The protein was identified as a functional haemoglobin, as binding of this cofactor was detected for the recombinant protein. Gene deletion in A. fumigatus confirmed that haem-binding fungoglobins are important for growth in microaerobic environments with O2 levels far lower than in hypoxic human tissue.

Authors: F. Hillmann, , N. Beckmann, M. Cyrulies, M. Strassburger, T. Heinekamp, H. Haas, , ,