Details about this organism
Synonyms (1)Thiobacillus caldus
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Strain details
Name | Provider name | Provider's strain ID | Genotypes | Phenotypes | Synonym | Comments | Based on |
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The main objective of the ERANET proposal Systems Biology Applications - ERASysAPP (app = application = translational systems biology) is to promote multidimensional and complementary European systems biology projects, programmes and research initiatives on a number of selected research topics. Inter alia, ERASysAPP will initiate, execute and monitor a number of joint transnational calls on systems biology research projects with a particular focus on applications - or in other words so called ...
Projects: SysVirDrug, SysMilk, SysMetEx, MetApp, IMOMESIC, WineSys, CropClock, SYSTERACT, XyloCut, RootBook, ROBUSTYEAST, LEANPROT, ErasysApp Funders
Web page: https://www.cobiotech.eu/about-cobiotech/erasysapp
The German Network for Bioinformatics Infrastructure - de.NBI offers first class bioinformatics services including training and education to users in basic and applied life sciences research. In this network 40 projects belonging to eight service centers provide services that cover a wide variety of methods (genomics, proteomics, ...) and applications (from plants to humans). de.NBI-SysBio is the Systems Biology Service Center of de.NBI. In collaboration with FAIRDOM, de.NBI-SysBio serves the ...
Projects: de.NBI-SysBio, ExtremoPharm, ZucAt, Kinetics on the move - Workshop 2016, Example use cases, MIX-UP, Working Group Nicole Radde, MPIEvolBio-SciComp, SABIO-VIS
Web page: http://www.denbi.de
Biomining is a biotechnological process carried out in many parts of the world that exploits acid loving microorganisms to extract metals from sulphide minerals. One industrial biomining method is called ‘heap bioleaching’ where typically copper containing minerals are piled into very large heaps, acid and microorganisms are added to the top and the soluble metal is collected at the heap base.
The role of the different types of microbes in the process is to speed up metal solubilisation by oxidising ...
Programme: ERASysAPP
Public web page: http://sysmetex.eu/index.html
The workshop focuses on the publication, curation, retrieval, and usage of kinetic data from the reaction kinetics database SABIO-RK and on the use of data in modeling. There will be experience reports from scientists who successfully used experimental data to formulate or verify biological hypotheses with the computer, and you will experience how experimental data can be used with computational models.
Programme: de.NBI Systems Biology Service Center (de.NBI-SysBio)
Public web page: http://www.h-its.org/event/kinetics-on-the-move/
tbd
Submitter: Malte Herold
Assay type: Experimental Assay Type
Technology type: Confocal Laser Scanning Microscopy (CLSM)
Investigation: Deep Neural Networks Outperform Human Expert’s ...
Organisms: Acidithiobacillus caldus : Acidithiobacillus caldus ATCC 51756 (wild-type / wild-type), Leptospirillum ferriphilum : Leptospirillum ferriphilum DSM 14647 (wild-type / wild-type), Sulfobacillus thermosulfidooxidans : Sulfobacillus thermosulfidooxidans DSM 9293 (wild-type / wild-type)
SOPs: No SOPs
Data files: Images of mineral colonization
Snapshots: No snapshots
Submitter: Malte Herold
Assay type: Experimental Assay Type
Technology type: Microscopy
Investigation: SysMetEx - Dataset collection
Organisms: Acidithiobacillus caldus : Acidithiobacillus caldus ATCC 51756 (wild-type / wild-type), Leptospirillum ferriphilum : Leptospirillum ferriphilum DSM 14647 (wild-type / wild-type), Sulfobacillus thermosulfidooxidans : Sulfobacillus thermosulfidooxidans DSM_9293 (wild-type / wild-type)
SOPs: SOP_Bioleaching_in_flasks_UDE
Data files: Biofilm Imaging
Snapshots: No snapshots
Submitter: Malte Herold
Assay type: Proteomics
Technology type: Technology Type
Investigation: SysMetEx - Dataset collection
Organisms: Acidithiobacillus caldus : Acidithiobacillus caldus ATCC 51756 (wild-type / wild-type), Leptospirillum ferriphilum : Leptospirillum ferriphilum DSM 14647 (wild-type / wild-type), Sulfobacillus thermosulfidooxidans : Sulfobacillus thermosulfidooxidans DSM_9293 (wild-type / wild-type)
SOPs: DNA, RNA, Protein extraction from mineral samples, In solution digestion part, SOP - RNA-Prot sampling for bioleaching, Sample Identification Code
Data files: LXX_M Proteomics, SAL_M Proteomics, SLX_M Proteomics
Snapshots: No snapshots
Rawdata for RNAseq derived from biofilms on chalcopyrite grains
Submitter: Malte Herold
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: SysMetEx - Dataset collection
Organisms: Acidithiobacillus caldus : Acidithiobacillus caldus ATCC 51756 (wild-type / wild-type), Leptospirillum ferriphilum : Leptospirillum ferriphilum DSM 14647 (wild-type / wild-type), Sulfobacillus thermosulfidooxidans : Sulfobacillus thermosulfidooxidans DSM_9293 (wild-type / wild-type)
SOPs: DNA, RNA, Protein extraction from mineral samples, SOP - RNA-Prot sampling for bioleaching, Sample Identification Code
Data files: Rawdata RNAseq
Snapshots: No snapshots
Raw proteomics data derived from planktonic cells in chalcopyrite leaching experiments
Submitter: Malte Herold
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: SysMetEx - Dataset collection
Study: Planktonic cells
Organisms: Acidithiobacillus caldus : Acidithiobacillus caldus ATCC 51756 (wild-type / wild-type), Leptospirillum ferriphilum : Leptospirillum ferriphilum DSM 14647 (wild-type / wild-type), Sulfobacillus thermosulfidooxidans : Sulfobacillus thermosulfidooxidans DSM_9293 (wild-type / wild-type)
SOPs: 003 Biomolecular Extractions from LAO (Qiagen A..., In solution digestion part, SOP - RNA-Prot sampling for bioleaching, Sample Identification Code
Data files: AAS_P Proteomics, ASS_P Proteomics, ASX_LSX_P Proteomics, LXX_P Proteomics, SAL_P Proteomics, SAX_P Proteomics, SXX_P Proteomics
Snapshots: No snapshots
Proteomics data for samples derived from continuous cultures
Submitter: Malte Herold
Assay type: Proteomics
Technology type: Technology Type
Investigation: SysMetEx - Dataset collection
Study: Continuous cultures
Organisms: Acidithiobacillus caldus : Acidithiobacillus caldus ATCC 51756 (wild-type / wild-type)
SOPs: 003 Biomolecular Extractions from LAO (Qiagen A..., In solution digestion part, SOP - RNA/Protein sampling for continuous culture, Sample Identification Code
Data files: AXX_Cn Proteomics
Snapshots: No snapshots
Link to RNAseq raw data
Submitter: Malte Herold
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: SysMetEx - Dataset collection
Study: Planktonic cells
Organisms: Acidithiobacillus caldus : Acidithiobacillus caldus ATCC 51756 (wild-type / wild-type), Leptospirillum ferriphilum : Leptospirillum ferriphilum DSM 14647 (wild-type / wild-type), Sulfobacillus thermosulfidooxidans : Sulfobacillus thermosulfidooxidans DSM_9293 (wild-type / wild-type)
SOPs: 003 Biomolecular Extractions from LAO (Qiagen A..., SOP - RNA-Prot sampling for bioleaching, Sample Identification Code
Data files: Rawdata RNAseq
Snapshots: No snapshots
RNAseq raw data derived from continuous culture samples
Submitter: Malte Herold
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: SysMetEx - Dataset collection
Study: Continuous cultures
Organisms: Acidithiobacillus caldus : Acidithiobacillus caldus ATCC 51756 (wild-type / wild-type), Leptospirillum ferriphilum : Leptospirillum ferriphilum DSM 14647 (wild-type / wild-type), Sulfobacillus thermosulfidooxidans : Sulfobacillus thermosulfidooxidans DSM_9293 (wild-type / wild-type)
SOPs: 003 Biomolecular Extractions from LAO (Qiagen A..., SOP - RNA/Protein sampling for continuous culture, Sample Identification Code
Data files: Rawdata RNAseq
Snapshots: No snapshots