49 Works

Caging study - Kollevåg

Karina Dale & Zhanna Tairova
This study involves all data gathered from the Kollevåg study - studying environmental pollution at a capped waste disposal site in Kollevåg, Askøy.

Metabolic analysis of effects of sucrose translocation on phenotypic traits of plants

Maksim Zakhartsev, Olga Krebs & Waltraud Schulze
Sucrose translocation between plant tissues is crucial for growth, development and reproduction of plants. Systemic analysis of this metabolic process and underlying regulatory processes can help to achieve better understanding of carbon distribution within the plant and the formation of phenotypic traits. Sucrose translocation from ‘source’ tissues (e.g. mesophyll) to ‘sink’ tissues (e.g. root) is tightly bound to the proton gradient across the membranes. The plant sucrose transporters are grouped into efflux exporters (SWEET family)...

DNA, RNA, Protein extraction from mineral samples

Malte Herold, Mario Vera & Soeren Bellenberg
SOP for extracting DNA, RNA and Proteins from the mineral pellet of a bioleaching culture using hot acidic phenol. Current draft.

Metabolic analysis of effects of sucrose translocation on phenotypic traits of Arabidopsis thaliana

Maksim Zakhartsev & Olga Krebs
Sucrose translocation between plant tissues is crucial for growth, development and reproduction of plants. Systemic analysis of this metabolic process and underlying regulatory processes can help to achieve better understanding of carbon distribution within the plant and the formation of phenotypic traits. Sucrose translocation from ‘source’ tissues (e.g. mesophyll) to ‘sink’ tissues (e.g. root) is tightly bound to the proton gradient across the membranes. The plant sucrose transporters are grouped into efflux exporters (SWEET family)...

MOA - Multiomics analysis of potato response to Potato virus Y (PVY) infection

Ziva Ramsak, Tjasa Stare, Maja Križnik & Kristina Gruden
Time series response of potato cv. Désirée, which is tolerant to PVY infection, was analysed in both inoculated as well as upper non-inoculated leaves. Additionally, transgenic plants deficient in accumulation of salicylic acid (NahG- Désirée) were studied in the same setting.

Creating data sheet template for 'omics data

Olga Krebs
This investigation contains spreadsheet templates and examples for SEEK users to download and use for structuring experimental data. These templates were developed by the SysMO-DB team and the SysMO PALs

Resource Allocation Model

Henning Lindhorst
This model was created to showcase all functions of the SBML extension RAM. The model can be unr in deFBA with the python software deFBA-Python. The software is freely available at at https://tinyurl.com/yy8xu4v7

MOA - Multiomics analysis of potato response to Potato virus Y (PVY) infection

Ziva Ramsak, Tjasa Stare, Maja Križnik & Kristina Gruden
Time series response of potato cv. Désirée, which is tolerant to PVY infection, was analysed in both inoculated as well as upper non-inoculated leaves. Additionally, transgenic plants deficient in accumulation of salicylic acid (NahG- Désirée) were studied in the same setting. All the files available are published under the CC BY 4.0 license.

Metabolic analysis of effects of sucrose translocation on phenotypic traits of plants

Maksim Zakhartsev, Olga Krebs & Waltraud Schulze
Sucrose translocation between plant tissues is crucial for growth, development and reproduction of plants. Systemic analysis of this metabolic process and underlying regulatory processes can help to achieve better understanding of carbon distribution within the plant and the formation of phenotypic traits. Sucrose translocation from ‘source’ tissues (e.g. mesophyll) to ‘sink’ tissues (e.g. root) is tightly bound to the proton gradient across the membranes. The plant sucrose transporters are grouped into efflux exporters (SWEET family)...

Modelling of M. pneumoniae metabolism

Niels Zondervan
1. To develop a whole-cell dynamic model framework of the metabolism of M. pneumoniae 2. To build upon M. pneumoniae models to develop a genome-scale, constraint-based model of M. hyopneumoniae for vaccine optimization 3. To deploy the metabolic model(s) to: 1) the rational design and optimization of the vaccine chassis; 2) aid the development of a higher-growth rate chassis; 3) assist the development of a nutrient optimized a serum-free growth medium and; 4) assess, at...

Multi -omics reveal lifestyle of acidophile, mineral-oxidizing model species Leptospirillum ferriphilumT

Malte Herold
Experimental data and all related material for the publication "Multi -omics reveal lifestyle of acidophile, mineral-oxidizing model species Leptospirillum ferriphilumT".

MOA - Multiomics analysis of potato response to Potato virus Y (PVY) infection

Ziva Ramsak, Tjasa Stare, Maja Križnik & Kristina Gruden
Time series response of potato cv. Désirée, which is tolerant to PVY infection, was analysed in both inoculated as well as upper non-inoculated leaves. Additionally, transgenic plants deficient in accumulation of salicylic acid (NahG- Désirée) were studied in the same setting. All the files available are published under the CC BY 4.0 license.

Metabolic analysis of effects of sucrose translocation on phenotypic traits of Arabidopsis thaliana

Maksim Zakhartsev & Olga Krebs
Sucrose translocation between plant tissues is crucial for growth, development and reproduction of plants. Systemic analysis of this metabolic process and underlying regulatory processes can help to achieve better understanding of carbon distribution within the plant and the formation of phenotypic traits. Sucrose translocation from ‘source’ tissues (e.g. mesophyll) to ‘sink’ tissues (e.g. root) is tightly bound to the proton gradient across the membranes. The plant sucrose transporters are grouped into efflux exporters (SWEET family)...

Metabolic analysis of effects of sucrose translocation on phenotypic traits of plants

Maksim Zakhartsev, Olga Krebs & Waltraud Schulze
Sucrose translocation between plant tissues is crucial for growth, development and reproduction of plants. Systemic analysis of this metabolic process and underlying regulatory processes can help to achieve better understanding of carbon distribution within the plant and the formation of phenotypic traits. Sucrose translocation from ‘source’ tissues (e.g. mesophyll) to ‘sink’ tissues (e.g. root) is tightly bound to the proton gradient across the membranes. The plant sucrose transporters are grouped into efflux exporters (SWEET family)...

Modelling of M. pneumoniae metabolism

Niels Zondervan
1. To develop a whole-cell dynamic model framework of the metabolism of M. pneumoniae 2. To build upon M. pneumoniae models to develop a genome-scale, constraint-based model of M. hyopneumoniae for vaccine optimization 3. To deploy the metabolic model(s) to: 1) the rational design and optimization of the vaccine chassis; 2) aid the development of a higher-growth rate chassis; 3) assist the development of a nutrient optimized a serum-free growth medium and; 4) assess, at...

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