Difference between revisions of "MiPNet12.10 TIP2k-manual"

Latest revision as of 11:51, 27 July 2023

MiPNet12.10 TIP2k-manual

Titration-Injection microPump TIP2k manual.

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Oroboros (2021-07-08) Mitochondr Physiol Network

Abstract: Gradl L, Gradl P, Gnaiger E (2021) Titration-Injection microPump TIP2k manual. Mitochondr Physiol Network 12.10(09):1-20.

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» Current O2k-series: NextGen-O2k Series XB and O2k Series J

» Current software versions DatLab 8.0: MitoPedia: DatLab

Further details: » MitoPedia: O2k-Open Support

» Product: TIP2k-Module

• O2k-Network Lab: AT_Innsbruck_Oroboros

O2k-Publications: Topics

Sort in ascending/descending order by a click on one of the small symbols in squares below.
Default sorting: chronological. Empty fields appear first in ascending order.

	Was published in year	Reference	Organism	Tissue;cell
MiPNet18.10 O2k-Specifications	2024-03-26	O2k-specifications for respirometry and comprehensive OXPHOS analysis.	Human	Fibroblast
Donnelly 2023 MitoFit	2023	Donnelly C, Komlódi T, Cecatto C, Cardoso LHD, Compagnion AC, Matera A, Tavernari D, Zanou N, Kayser B, Gnaiger E, Place N (2023) Functional hypoxia reduces mitochondrial calcium uptake. MitoFit Preprints 2023.2. https://doi.org/10.26124/mitofit:2023-0002 — 2024-11-17 published in Redox Biol.	Human Mouse	Skeletal muscle Heart Nervous system Other cell lines
Baglivo 2022 BEC	2022	Baglivo E, Cardoso LHD, Cecatto C, Gnaiger E (2022) Statistical analysis of instrumental reproducibility as internal quality control in high-resolution respirometry. Bioenerg Commun 2022.8. https://doi.org/10.26124/bec:2022-0008		HEK
MiPNet12.10 TIP2k-manual	2021-07-08	Titration-Injection microPump TIP2k manual.
Malagrino 2019 Oxid Med Cell Longev	2019	Malagrinò F, Zuhra K, Mascolo L, Mastronicola D, Vicente JB, Forte E, Giuffrè A (2019) Hydrogen sulfide oxidation: adaptive changes in mitochondria of SW480 colorectal cancer cells upon exposure to hypoxia. Oxid Med Cell Longev 2019:8102936.	Human	Endothelial;epithelial;mesothelial cell
Doerrier 2018 Methods Mol Biol	2018	Doerrier C, Garcia-Souza LF, Krumschnabel G, Wohlfarter Y, Mészáros AT, Gnaiger E (2018) High-Resolution FluoRespirometry and OXPHOS protocols for human cells, permeabilized fibers from small biopsies of muscle, and isolated mitochondria. Methods Mol Biol 1782:31-70. https://doi.org/10.1007/978-1-4939-7831-1_3	Human Mouse Rat Saccharomyces cerevisiae	Heart Skeletal muscle Endothelial;epithelial;mesothelial cell Blood cells HEK Platelet
Fisar 2017 Indian J Biochem Biophys	2017	Fišar Z, Hroudová J, Namrata S, Macečková D, Kopřivová A (2017) Protocols for high-resolution respirometry experiments to test the activity of electron transfer system of pig brain mitochondria. Indian J Biochem Biophys 54:258-72.	Pig	Nervous system
MiPNet10.04 CellRespiration	2016-08-08	An experiment with high-resolution respirometry: coupling control in cell respiration.	Mouse	Blood cells
MiPNet21.07 MitoFit DatLab PT	2016-07-20	MitoFit DatLab proficiency test.	Human
Ivarsson 2016 Physiol Behav	2016	Ivarsson N, Schiffer TA, Hernández A, Lanner JT, Weitzberg E, Lundberg JO, Westerblad H (2016) Dietary nitrate markedly improves voluntary running in mice. Physiol Behav 168:55-61.	Mouse	Skeletal muscle
Schiffer 2016 Am J Physiol Cell Physiol	2016	Schiffer TA, Peleli M, Sundqvist ML, Ekblom B, Lundberg JO, Weitzberg E, Larsen FJ (2016) Control of human energy expenditure by cytochrome c oxidase subunit IV-2. Am J Physiol Cell Physiol 311:C452-61.	Human	Skeletal muscle HEK
MiPNet09.01 O2k-ParadigmShift	2015	Oxygraph-2k: Paradigm shift and features of high-resolution respirometry. Mitochondr Physiol Network 09.01.
Abou-Hamdan 2015 Methods Enzymol	2015	Abou-Hamdan A, Guedouari-Bounihi H, Lenoir V, Andriamihaja M, Blachier F, Bouillaud F (2015) Oxidation of H2S in mammalian cells and mitochondria. Methods Enzymol 554:201-28.	Human Pig Mouse Rat	Heart Nervous system Liver Kidney Genital CHO Neuroblastoma Fibroblast
Iftikar 2015 Comp Biochem Physiol A Mol Integr Physiol	2015	Iftikar FI, Morash AJ, Cook DG, Herbert NA, Hickey AJ (2015) Temperature acclimation of mitochondria function from the hearts of a temperate wrasse (Notolabrus celidotus). Comp Biochem Physiol A Mol Integr Physiol 184:46-55.	Fishes	Heart
Hezel 2015 Redox Biol	2015	Hezel MP, Liu M, Schiffer TA, Larsen FJ, Checa A, Wheelock CE, Carlström M, Lundberg JO, Weitzberg E (2015) Effects of long-term dietary nitrate supplementation in mice. Redox Biol 5:234-42.	Mouse	Skeletal muscle
Harrison 2015 J Appl Physiol	2015	Harrison DK, Fasching M, Fontana-Ayoub M, Gnaiger E (2015) Cytochrome redox states and respiratory control in mouse and beef heart mitochondria at steady-state levels of hypoxia. J Appl Physiol 119:1210-8. https://doi.org/10.1152/japplphysiol.00146.2015	Mouse Bovines	Heart
Schiffer 2014 FASEB J	2014	Schiffer TA, Ekblom B, Lundberg JO, Weitzberg E, Larsen FJ (2014) Dynamic regulation of metabolic efficiency explains tolerance to acute hypoxia in humans. FASEB J 28:4303-11.	Human	Skeletal muscle
Van Bergen 2014 Mitochondrion	2014	Van Bergen NJ, Blake RE, Crowston JG, Trounce IA (2014) Oxidative phosphorylation measurement in cell lines and tissues. Mitochondrion 15:24-33.	Human Mouse	Nervous system Blood cells
Matallo 2014 Nitric Oxide	2014	Matallo J, Vogt J, McCook O, Wachter U, Tillmans F, Groeger M, Szabo C, Georgieff M, Radermacher P, Calzia E (2014) Sulfide-inhibition of mitochondrial respiration at very low oxygen concentrations. Nitric Oxide 15:79-84.	Mouse	Lung;gill Macrophage-derived
Smith 2013 Thesis The University of Guelph - Canada	2013	Smith BK (2013) Investigations into the regulation of skeletal muscle mitochondrial metabolism. Thesis The University of Guelph - Canada 139pp.	Rat	Skeletal muscle
Reilly 2013 J Exp Biol	2013	Reilly BD, Hickey AJ, Cramp RL, Franklin CE (2013) Decreased hydrogen peroxide production and mitochondrial respiration in skeletal muscle but not cardiac muscle of the green-striped burrowing frog, a natural model of muscle disuse. J Exp Biol 217:1087-93.	Amphibians	Heart Skeletal muscle
Gnaiger 2012 Mitochondr Physiol Network Bioblast 2012	2012	Gnaiger E, Meissner B, Laner V, eds (2012) Bioblast 2012: Mitochondrial Competence. Mitochondr Physiol Network 17.12. Oroboros MiPNet Publications, Innsbruck:96 pp. ISBN 978-3-9502399-5-9
Pesta 2012 Methods Mol Biol	2012	Pesta D, Gnaiger E (2012) High-resolution respirometry. OXPHOS protocols for human cells and permeabilized fibers from small biopsies of human muscle. Methods Mol Biol 810:25-58. https://doi.org/10.1007/978-1-61779-382-0_3	Human	Skeletal muscle Other cell lines HEK Fibroblast HUVEC
Lucchinetti 2012 Anesthesiology	2012	Lucchinetti E, Awad AE, Rahman M, Feng J, Lou PH, Zhang L, Ionescu L, Lemieux H, Thébaud B, Zaugg M (2012) Antiproliferative effects of local anesthetics on mesenchymal stem cells: potential implications for tumor spreading and wound healing. Anesthesiology 116:841-56.		Stem cells
Moon 2012 J Biol Chem	2012	Moon SH, Jenkins CM, Kiebish MA, Sims HF, Mancuso DJ, Gross RW (2012) Genetic ablation of calcium-independent phospholipase A_2γ (iPLA_2γ) attenuates calcium-induced opening of the mitochondrial permeability transition pore and resultant cytochrome c release. J Biol Chem 287:29837-50.	Mouse	Liver
Hansson 2010 J Biol Chem	2010	Hansson Magnus J, Morota S, Teilum M, Mattiasson G, Uchino H, Elmer E (2010) Increased potassium conductance of brain mitochondria induces resistance to permeability transition by enhancing matrix volume. J Biol Chem 285:741-50.	Rat	Nervous system
Lagoutte 2010 Biochim Biophys Acta	2010	Lagoutte E, Mimoun S, Andriamihaja M, Chaumontet C, Blachier F, Bouillaud F (2010) Oxidation of hydrogen sulfide remains a priority in mammalian cells and causes reverse electron transfer in colonocytes. Biochim Biophys Acta 1797:1500-11.	Mouse	Heart Nervous system Liver Kidney CHO
Sjoevall 2010 Crit Care	2010	Sjoevall F, Morota S, Hansson Magnus J, Friberg H, Gnaiger E, Elmer E (2010) Temporal increase of platelet mitochondrial respiration is negatively associated with clinical outcome in patients with sepsis. Crit Care 14:R214.	Human	Blood cells Platelet
Gnaiger 2008 POS	2008	Gnaiger E (2008) Polarographic oxygen sensors, the oxygraph and high-resolution respirometry to assess mitochondrial function. In: Mitochondrial dysfunction in drug-induced toxicity (Dykens JA, Will Y, eds) John Wiley & Sons, Inc, Hoboken, NJ:327-52.	Mouse	Blood cells
Garedew 2005 Eur Shock Soc	2005	Garedew A, Hütter E, Haffner B, Gradl P, Gradl L, Jansen-Dürr P, Gnaiger E (2005) High-resolution respirometry for the study of mitochondrial function in health and disease. The Oroboros O2k. Proc 11th Congress Eur Shock Soc, Vienna, Austria (Redl H, ed) Medimond, Bologna:107-11.	Human	Fibroblast
Gnaiger 2001 Respir Physiol	2001	Gnaiger E (2001) Bioenergetics at low oxygen: dependence of respiration and phosphorylation on oxygen and adenosine diphosphate supply. https://doi.org/10.1016/S0034-5687(01)00307-3	Human Rat	Heart Liver Endothelial;epithelial;mesothelial cell HUVEC
Gnaiger 2000 Proc Natl Acad Sci U S A	2000	Gnaiger E, Méndez G, Hand SC (2000) High phosphorylation efficiency and depression of uncoupled respiration in mitochondria under hypoxia. Proc Natl Acad Sci U S A 97:11080-5. https://doi.org/10.1073/pnas.97.20.11080	Rat Artemia Crustaceans	Liver
MiPNet04.05 Titration-Injection	1999-01	From step titration to ramp injection: Uncoupling by FCCP with TIP.	Human	Endothelial;epithelial;mesothelial cell HUVEC
Gnaiger 1998 BTK-HRR	1998	Gnaiger E, Kuznetsov AV, Lassnig B, Fuchs A, Reck M, Renner K, Stadlmann S, Rieger G, Margreiter R (1998) High-resolution respirometry. Optimum permeabilization of the cell membrane by digitonin. In BioThermoKinetics in the Post Genomic Era (Larsson C, Pahlman I-L, Gustafsson L, eds) Chalmers Reproservice, Göteborg:89-95.	Human	Endothelial;epithelial;mesothelial cell HUVEC

Labels: MiParea: Instruments;methods

HRR: Oxygraph-2k, TIP2k, O2k-Manual

DatLab, DL7, O2k-Module

@@ Line 1: / Line 1: @@
-{{OROBOROS header page name}}
+{{Template:OROBOROS support page name}}
 {{Publication
-|title=[[Image:O2k-Manual.jpg|right|70px|link=O2k-Manual|O2k-Manual]] Titration-Injection microPump. TIP2k user manual.
+|title=[[Image:O2k-Manual.jpg|right|70px|link=O2k-Manual|O2k-Manual]] Titration-Injection microPump TIP2k manual.
 |info=[[File:PDF.jpg|100px|link=http://wiki.oroboros.at/images/f/f5/MiPNet12.10_TIP2k-Manual.pdf |Bioblast pdf]] »[http://www.bioblast.at/index.php/File:MiPNet12.10_TIP2k-Manual.pdf Versions]
 |authors=Oroboros
-|year=2016-08-10
+|year=2021-07-08
 |journal=Mitochondr Physiol Network
-|abstract='''Fasching M, Gradl L, Gradl P, Gnaiger E (2016) Titration-Injection microPump. TIP2k user manual. Mitochondr Physiol Network 12.10(08):1-29.''' - [http://www.bioblast.at/index.php/File:MiPNet12.10_TIP2k-Manual.pdf Versions]
+|abstract=Gradl L, Gradl P, Gnaiger E (2021) Titration-Injection microPump TIP2k manual. Mitochondr Physiol Network 12.10(09):1-20.
+{{MiPNet pdf page linking to MitoPedia}}
-The TIP2k provides unique advantages for applications which require highest accuracy of titration volumes and automatic control of complex titration-injection protocols. The TIP2k was specially developed for the O2k. The main modes of operation are automatic multi-step injections, continuous injections for steady-state respirometry, (both operated form the direct control mode), and feedback controlled operation.
+:» Product: [[TIP2k-Module]]
-''Direct Control Mode:'' Operation mode for delivering a defined volume in a short pulse. A number of cycles, N, can be defined, and the duration of the interval from injection to injection determined, repeating the process N times. Several such steps can be programmed to run in sequence to give an entire TIP2k program.
-''Feedback Control Mode:'' Operation mode to reach and maintain a certain parameter (e.g. oxygen concentration) by automatic TIP injections.
-:» Product: [[TIP2k-Module]], [[Oroboros O2k-Catalogue]]
-|keywords=HRR, TIP2k
 |mipnetlab=AT_Innsbruck_Oroboros
 }}
-{{Technical support integrated}}
-__TOC__
+* '''[[O2k-Publications: Topics]]'''
+ '''''Sort in ascending/descending order by a click on one of the small symbols in squares below'''''.
+ Default sorting: chronological. Empty fields appear first in ascending order.
+{{#ask:[[Category:Publications]] [[Instrument and method::Oxygraph-2k]] [[Instrument and method::TIP2k]]
+|?Was published in year
+|?Has title=Reference
+|?Mammal and model=Organism
+|?Tissue and cell=Tissue;cell
+|format=broadtable
+|limit=5000
+|offset=0
+|sort=Was published in year
+|order=descending
+}}
-=== Cleaning TIP2k-syringes ===
-:::# To prevent washing out effects when the needle is inserted into the chamber the inner diameter of the TIP needle has to be very small. This means that the needle is easily blocked by small particles either precipitated from the solution or introduced with the solution.
-:::# While a TIP syringe has to be considered a consumable, it is possible to lengthen its lifetime by carefully following the procedures suggested in the TIP-2k Manual.
-:::## The main way to prevent clogging of needles is to follow rigorously the cleaning procedure after each usage.
-:::## Additionally, it has to be taken care that no particles are suspended in the used solutions.
-:::## For not very well soluble substances, filtering of the solution may be necessary. Small particles can also be introduced by laboratory activities, e.g. from paper towels or from powdered gloves. Only use underpowered gloves when working with TIP syringes!
-::::* Examples for proper TIP use and cleaning protocols
-:::# Instrumental O2 background (dithionite in phosphate buffer or MiR05)
-:::## Clean (fill and empty) the syringe with water.
-:::## Fill the syringe with dithionite solution for washing, discard immediately.
-:::## Fill the syringe with dithionite solution (in buffer) for use during the assay.
-:::## After the assay empty the syringe and immediately wash the outside of the needle with water (because there is medium sticking to the outside).
-:::## Wash (fill and empty cycles) the syringe three times with water.
-:::## Store the syringe (will be partially filled with water) or after cleaning with ethanol (then it will be partially filled with ethanol.
-:::# CCCP titration (CCCP dissolved in ethanol)
-:::## Clean (fill and empty cycle) the syringe with pure ethanol.
-:::## Clean with CCCP solution (in this case more important than in example 1 because you want to have a precise CCCP concentration).
-:::## Fill with CCCP stock solution and start the experiment.
-:::## After the assay empty the syringe and immediately wash the outside of the needle with water (because there is medium sticking to the outside)
-:::## Clean (fill and empty cycles) the syringe three times with ethanol.
-:::## Store the syringe (will be partially filled with ethanol) or wash it with water and then store (then it will be partially filled with water).
-=== TIP2k syringe blocked ===
-:::: The TIP syringe is harder to operate than usually.
-:::# Start immediately with extensive cleaning procedures. Once a needle is totally blocked it is usually impossible (with exceptions) to clean it.
-:::# Suitable solvents for extensive cleaning procedures depend on the substances used.
-:::## Chloroform was successful for some fatty acids.
-:::## An ultrasonic bath may be helpful in cleaning partially blocked syringes.
-=== Programming the TIP2k for "BG_Feedback" ===
-:::: In the TIP2k window the modus can be changed by clicking on either direct control or feedback control. In the feedback control several lines can be inserted, all of which take effect during the currently selected line of the main program. In the figure the implementation of program line 1 of the example set up is shown.
-:::: In the main window (Program line), blue highlighting shows that the first program line is selected.  The first line in the feedback control window (upper right corner) sets the "start injection" value to 120 mM. The injection is only started when this condition is valid for two consecutive data points (DataN = 2). The interval is set to 200 seconds, which equals the maximum injection time when the maximum volume is set to 100 µl. These parameters are not important for the discussed purpose; however the interval has to be set to at least the (maximum) injection time calculated at the left side. Once an injection is started the program checks the following lines for "stop" instructions. If just one of these conditions is met, the injection will stop. In our example a stop condition is set at 100 µM.
-=== TIP2k Volume + Time ===
-:::: Many thanks to [[Therkelsen AIb]] from [[DK Copenhagen Quistorff B]] for pointing out this problem.
-::::* '''Problem:''' If  the user programs an injection by setting volume and time (button "Vol+Time") the required  flow is calculated by DatLab. The result is rounded to a precision that can be handled by the TIP2k. For long, slow injections this may result in significantly more or less time being necessary to inject the desired volume than the time entered by the user.  If this injection is immediately or with a short delay followed by another injection this may lead to a conflict between the not finished first and the already starting second injection. Using DatLab 4 in this situation will crash the TIP program (error "TIP already running"). In DatLab 6 the program will be executed with the start of the second injection delayed. However the TIP2k status line will behave strangely in the overlapping time and events may be set at the wrong time.
-::::# '''Suggestions:''' Use  the rounded flow as a starting point to set you own Flow + Volume or Flow + Time values that fit your experimental design.
-::::# '''Alternative, not tested for all DatLab versions:''' After entering the desired volume and time, press either the button "Vol+Flow" or "Flow+Time". DatLab will use the rounded flow to calculate a new time, or a new volume, respectively.
-== List of publications: TIP2k ==
-::::* [[O2k-Publications: TIP2k]]
 {{Labeling
 |area=Instruments;methods
 |instruments=Oxygraph-2k, TIP2k, O2k-Manual
-|additional=DatLab, DL6, DL6a7
+|additional=DatLab, DL7, O2k-Module
 }}
-[[Category:OroboPedia]]