MiPMap: Difference between revisions
No edit summary |
No edit summary |
||
Line 13: | Line 13: | ||
|mitopedia topic=Respiratory state, Enzyme, Medium, Inhibitor, Substrate and metabolite, Uncoupler, Permeabilization agent | |mitopedia topic=Respiratory state, Enzyme, Medium, Inhibitor, Substrate and metabolite, Uncoupler, Permeabilization agent | ||
}} | }} | ||
__TOC__ | |||
== MiPMap labels == | == MiPMap labels == | ||
'''MiPMap labels''' provide the backbone of the MiPMap project. The MiPMap labels can be considered as keywords which can be attached to various sources of information (publications). With proper labelling, multidimensional maps of information can be constructed, filtering the sources through various grids. | '''MiPMap labels''' provide the backbone of the MiPMap project. The MiPMap labels can be considered as keywords which can be attached to various sources of information (publications). With proper labelling, multidimensional maps of information can be constructed, filtering the sources through various grids. | ||
Line 49: | Line 50: | ||
=== Stress conditions === | === Stress conditions === | ||
: [[Property:Stress]] | : [[Property:Stress]] | ||
: β’β’ Cell death β’β’ | : β’β’ Cell death β’β’ Cryopreservation β’β’ Ischemia-reperfusion β’β’ Permeability transition β’β’ RONS; Oxidative Stress | ||
=== Pathological states === | === Pathological states === | ||
Line 59: | Line 60: | ||
: β’β’ Aerobic glycolysis β’β’ ADP β’β’ ATP; ADP; AMP; PCr β’β’ ATP β’β’ ATP production β’β’ Calcium β’β’ Coupling efficiency;uncoupling β’β’ Cyt c β’β’ Flux control β’β’ Inhibitor β’β’ Ion&substrate transport β’β’ Ion;substrate transport β’β’ mt-Membrane potential β’β’ O2 β’β’ PCr;Cr β’β’ pH β’β’ Pi β’β’ Redox state β’β’ Substrate β’β’ Temperature β’β’ Threshold;excess capacity β’β’ Uncoupler β’β’ Substrate; Glucose; TCA Cycle β’β’ Fatty Acid β’β’ Amino Acid | : β’β’ Aerobic glycolysis β’β’ ADP β’β’ ATP; ADP; AMP; PCr β’β’ ATP β’β’ ATP production β’β’ Calcium β’β’ Coupling efficiency;uncoupling β’β’ Cyt c β’β’ Flux control β’β’ Inhibitor β’β’ Ion&substrate transport β’β’ Ion;substrate transport β’β’ mt-Membrane potential β’β’ O2 β’β’ PCr;Cr β’β’ pH β’β’ Pi β’β’ Redox state β’β’ Substrate β’β’ Temperature β’β’ Threshold;excess capacity β’β’ Uncoupler β’β’ Substrate; Glucose; TCA Cycle β’β’ Fatty Acid β’β’ Amino Acid | ||
* O2: Oxygen kinetics, oxygen dependence of respiration and mitochondrial processes | |||
=== Coupling states === | === Coupling states === | ||
: [[Property:Coupling states]] | : [[Property:Coupling states]] | ||
Line 69: | Line 73: | ||
=== High-resolution respirometry - HRR === Β | === High-resolution respirometry - HRR === Β | ||
: [[Property:Instrument and method]] | : [[Property:Instrument and method]] | ||
: β’β’ High-resolution respirometry: Oxygraph-2k β’β’ TIP2k β’β’ | : β’β’ High-resolution respirometry: Oxygraph-2k β’β’ TIP2k β’β’ O2k-Fluorometer β’β’ pH β’β’ NO β’β’ TPP β’β’ Ca β’β’ O2k-Spectrophotometer β’β’ O2k-Manual β’β’ Protocol β’β’ Theory | ||
=== Additional labels === Β | === Additional labels === Β |
Revision as of 11:02, 15 June 2015
Description
The project Mitochondrial Physiology Map (MiPMap) is initiated to provide an overview of mitochondrial properties in cell types, tissues and species. As part of Bioblast, MiPMap may be considered as an information synthase for Comparative Mitochondrial Physiology. Establishing a comprehensive database will require global input and cooperation.
A comparative database of mitochondrial physiology may provide the key for understanding the functional implications of mitochondrial diversity from mouse to man, and evaluation of altered mitochondrial respiratory control patterns in health and disease (Gnaiger 2009).
Abbreviation: MiPMap
MitoPedia methods:
Respirometry,
Fluorometry,
Spectrophotometry
MitoPedia topics: "Respiratory state" is not in the list (Enzyme, Medium, Inhibitor, Substrate and metabolite, Uncoupler, Sample preparation, Permeabilization agent, EAGLE, MitoGlobal Organizations, MitoGlobal Centres, ...) of allowed values for the "MitoPedia topic" property.
Respiratory state"Respiratory state" is not in the list (Enzyme, Medium, Inhibitor, Substrate and metabolite, Uncoupler, Sample preparation, Permeabilization agent, EAGLE, MitoGlobal Organizations, MitoGlobal Centres, ...) of allowed values for the "MitoPedia topic" property.,
Enzyme,
Media for respirometry,
Inhibitor,
Substrate and metabolite,
Uncoupler,
Permeabilization agent
MiPMap labels
MiPMap labels provide the backbone of the MiPMap project. The MiPMap labels can be considered as keywords which can be attached to various sources of information (publications). With proper labelling, multidimensional maps of information can be constructed, filtering the sources through various grids.
The MiPMap labels (filters) are grouped into various topics (properties).
MiP areas
- Property:MiP area
- β’β’ Respiration β’β’ Instruments;methods β’β’ mt-Biogenesis;mt-density β’β’ mt-Structure;fission;fusion β’β’ mt-Membrane β’β’ mtDNA;mt-genetics β’β’ nDNA;cell genetics β’β’ Genetic knockout;overexpression β’β’ Comparative MiP;environmental MiP β’β’ Gender β’β’ Developmental biology β’β’ Exercise physiology;nutrition;life style β’β’ mt-Medicine β’β’ Patients β’β’ Pharmacology;toxicology β’β’ mt-Awareness
Mammals;models
- Property:Mammal and model
- β’β’ Human β’β’ Pig β’β’ Mouse β’β’ Rat β’β’ Guinea pig β’β’ Bovines β’β’ Horse β’β’ Dog β’β’ Rabbit β’β’ Cat β’β’ Other mammals β’β’ β’β’ Chicken β’β’ Zebrafish β’β’ Drosophila β’β’ Artemia β’β’ Caenorhabditis elegans β’β’ Saccharomyces cerevisiae
Non-mammals
- Property:Nonmammal
- β’β’ Birds β’β’ Reptiles β’β’ Amphibians β’β’ Fishes β’β’ Chelicerates β’β’ Crustaceans β’β’ Hexapods β’β’ Myriapods β’β’ Annelids β’β’ Molluscs β’β’ Nematodes β’β’ Other invertebrates β’β’ β’β’ Fungi β’β’ Plants β’β’ Protists β’β’ β’β’ Eubacteria β’β’ Archea
Tissues;cells
- Property:Tissue and cell
- β’β’ Heart β’β’ Skeletal muscle β’β’ Nervous system β’β’ Liver β’β’ Kidney β’β’ Lung;gill β’β’ Islet Cell; Pancreas; Thymus β’β’ Endothelial; Epithelial; Mesothelial Cell β’β’ Blood cells β’β’ Fat β’β’ Sex organs
Cell lines
- Property:Cell line
- β’β’ CHO β’β’ HEK β’β’ HeLa β’β’ Neuroblastoma β’β’ Fibroblast β’β’ HUVEC β’β’ Macrophage-derived Stem cells β’β’ Other cell lines
Preparations
- Property:Preparation
- β’β’ Intact Organism β’β’ Intact Organ β’β’ Intact cells β’β’ Permeabilized cells β’β’ Permeabilized tissue β’β’ Homogenate β’β’ Isolated Mitochondria β’β’ SMP β’β’ Chloroplasts β’β’ Enzyme β’β’ Oxidase; Biochemical Oxidation
Enzymes
- Property:Enzyme
- β’β’ Adenine Nucleotide Translocase β’β’ Complex I β’β’ Complex II; Succinate Dehydrogenase β’β’ Complex III β’β’ Complex IV; Cytochrome c Oxidase β’β’ Complex V; ATP Synthase β’β’ Inner mtMembrane Transporter β’β’ Marker Enzyme β’β’ Supercomplex β’β’ TCA Cycle and Matrix Dehydrogenases β’β’ Uncoupling protein
Stress conditions
- Property:Stress
- β’β’ Cell death β’β’ Cryopreservation β’β’ Ischemia-reperfusion β’β’ Permeability transition β’β’ RONS; Oxidative Stress
Pathological states
- Property:Diseases
- β’β’ Aging; senescence β’β’ Alzheimer's β’β’ Autism β’β’ Cancer β’β’ Cardiovascular β’β’ COPD β’β’ Diabetes β’β’ Inherited β’β’ Infectious β’β’ Muscular dystrophy β’β’ Neurodegenerative β’β’ Obesity β’β’ Parkinson's β’β’ Sepsis β’β’ Other
Regulation;kinetics
- Property:Respiration and regulation
- β’β’ Aerobic glycolysis β’β’ ADP β’β’ ATP; ADP; AMP; PCr β’β’ ATP β’β’ ATP production β’β’ Calcium β’β’ Coupling efficiency;uncoupling β’β’ Cyt c β’β’ Flux control β’β’ Inhibitor β’β’ Ion&substrate transport β’β’ Ion;substrate transport β’β’ mt-Membrane potential β’β’ O2 β’β’ PCr;Cr β’β’ pH β’β’ Pi β’β’ Redox state β’β’ Substrate β’β’ Temperature β’β’ Threshold;excess capacity β’β’ Uncoupler β’β’ Substrate; Glucose; TCA Cycle β’β’ Fatty Acid β’β’ Amino Acid
- O2: Oxygen kinetics, oxygen dependence of respiration and mitochondrial processes
Coupling states
- Property:Coupling states
- β’β’ LEAK β’β’ ROUTINE β’β’ OXPHOS β’β’ ETS
Substrate states
- Property:Substrate states
- β’β’ CI β’β’ CII β’β’ ETF β’β’ GpDH β’β’ CIII β’β’ CIV β’β’ CI+II β’β’ Other combinations β’β’ ROX
High-resolution respirometry - HRR
- Property:Instrument and method
- β’β’ High-resolution respirometry: Oxygraph-2k β’β’ TIP2k β’β’ O2k-Fluorometer β’β’ pH β’β’ NO β’β’ TPP β’β’ Ca β’β’ O2k-Spectrophotometer β’β’ O2k-Manual β’β’ Protocol β’β’ Theory
Additional labels
- β’β’
Publications in the MiPMap: mitochondrial properties in organisms (species), cell types and tissues
Initiation
- Presented at Bioblast 2012.
- Focus for MiPconference on Comparative Mitochondrial Physiology.
- MiP2013 Abstracts
- Link to Mitochondrial Global Network