Template talk:Next oroboros ecosystem agenda

Antunes Diana (talk) 08:58, 5 May 2020 (CEST) Format for new Agenda/Alerts entries:

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e.g.,

Did you know that the proper use of TIP2k-Filter Papers may avoid an unstable O2 slope neg. signal during Instrumental background correction? - »Instrumental background« and »TIP2k Filter Papers«

See the scheme:

Bioblast alert 2020

Prep for circular done here: Talk:Bioblast alert 2020

MitoPedia alert

Next

• Sept-03 Th

How to interpret hydrogen peroxide fluxes in permeabilized muscle fibers (pfi) in relation to the high oxygen regime used? In pfi, reactive oxygen species (ROS) production may be artificially increased by high oxygen pressures, but high oxygen concentrations are needed to avoid oxygen limitation. Consequently, pfi may not be an optimum model for studies of ROS production. - »Oxygen dependence of ROS production in pfi

• Commment by Timi: is this a MitoPedia or an Open Support alert?

What are observed high hydrogen peroxide (H2O2) fluxes telling you about high oxygen regimes used for experiments with permeabilized muscle fibers (pfi)? In experiments with pfi, the high oxygen pressures used may artificially increase H2O2 production. However, the high oxygen concentrations are needed to avoid oxygen limitation. Consequently, pfi may not be an optimum model for studies of H2O2 production. - »Oxygen dependence of ROS production in pfi«

• Luiza: I would keep as MitoPedia - we don't have the "open support" badge at this page.

Version (03)

What are observed high hydrogen peroxide (H2O2) fluxes telling you about high oxygen regimes used for experiments with permeabilized muscle fibers (pfi)? In experiments with pfi, the high oxygen pressures used may artificially increase H2O2 production. However, the high oxygen concentrations are needed to avoid oxygen limitation. Consequently, pfi may not be an optimum model for studies of H2O2 production. - »Oxygen dependence of ROS production in pfi«

Version (04) (Lisa, Luiza, Timi)

Are permeabilized muscle fibers (pfi) a good model to study hydrogen peroxide production? In experiments with pfi,the high oxygen pressures used may artificially increase reactive oxygen species (ROS) production, including H2O2 production. However, the high oxygen concentrations are needed to avoid oxygen limitation due to artificial diffusion gradients resulting from the long diffusion distances in the fiber preparation. - »Oxygen dependence of ROS production in pfi«

• Sep-17 Th

Did you know that the free ROUTINE activity allows you to indirectly measure ATP production in living cells? The free ROUTINE activity is ROUTINE respiration corrected for LEAK respiration which is available for phosphorylation of ADP to ATP in living cells. - »SUIT-003 O2 ce D009

Suggestion 2 (Luiza):

Did you know that the free ROUTINE activity allows assessing the respiratory activity available for phosphorylation of ADP to ATP in living cells? SUIT protocols from the SUIT-003 family will guide you through the titrations needed to analyse free ROUTINE activity. - »SUIT-003 O2 ce D009« and »SUIT-003 O2 ce-pce D020«

Suggestion 3 (Lisa, Luiza, Timi)

Did you know that the free ROUTINE activity allows assessing the respiratory activity available for phosphorylation of ADP to ATP in living cells? SUIT protocols from the SUIT-003 family will guide you through the titrations needed to analyse free ROUTINE activity. - »SUIT-003 O2 ce D009« and »SUIT-003 O2 ce-pce D020«  - » Cardoso Luiza « and »Komlodi Timea«

* Sept-24 Th

Version 1 (Timi)

Did you know that you can measure reverse electron flow from Complex II towards Complex I in mitochondrial preparations using high-resolution respirometry? RET stands for reverse electron flow when the electrons are transferred back from Complex II via the Q-junction towards Complex I at high mt-membrane potential, which results in high hydrogen peroxide production in some mitochondrial preparations. - »SUIT-026

Version 2 (Timi)

Did you know that you can measure reverse electron flow from Complex II towards Complex I in mitochondrial preparations using Amplex UltraRed assay? RET stands for reverse electron flow when the electrons are transferred back from Complex II via the Q-junction towards Complex I at high mt-membrane potential, which results in high hydrogen peroxide production in some mitochondrial preparations. - »SUIT-026

Suggestion 2 (Luiza) - from version 2:

Did you know the reverse electron flow from Complex II to Complex I can be investigated in mitochondrial preparations by measuring hydrogen peroxide (H2O2) production using Amplex UltraRed assay? The reverse electron flow, also called reverse electron transfer (RET), happens when the electrons are transferred from Complex II to the Q-junction and then back to Complex I at high mt-membrane potential. This phenomenon results in high H2O2 production in some mitochondrial preparations. The SUIT-026 protocol was designed to investigate this effect. - »SUIT-026«  - » Komlodi Timea « and » Cardoso Luiza «

Comment (Timi): Should it be a SUIT protocol alert instead of the MitoPedia alert?

O2k-Brief alert

Next

• Sep-04 Fr (pending publication of Luiza's video communication)

Measuring ATP-ADP exchange via adenine nucleotide translocase (ANT) using the fluorophore Magnesium Green (MgG) from the O2k-Network »HU Budapest Chinopoulos C«  Chinopoulos C, Kiss G, Kawamata H, Starkov AA (2014) Measurement of ADP-ATP exchange in relation to mitochondrial transmembrane potential and oxygen consumption. Methods Enzymol 542:333-48. »Bioblast link«

O2k-Publications alert

Author names of O2k-Publications/ Brief for the Agenda vs Bioblast

1.Oroboros Ecosystem Agenda: SOP: Surname with long version and First name with short version. Please, see: Template alerts.

Example: Oroboros Ecosystem Agenda example

This means that we have to edit manually the author names within the O2k-Publications/ Brief alerts (i.e., Antunes Diana (from Bioblast) to Antunes D (to Agenda entries)) if they are long or copy from the gray box.

2.Bioblast: SOP: [1] – examples are available using both Surname and First name with long version (e.g., Antunes Diana). If in Bioblast the authors are with short surname in the links please update it to complete surname, guidelines are below.

Guidelines to update a reference

When creating an O2k-Publication/Brief alert, it is the responsibility of the author to check if the reference is accordingly to the correct guidelines:

Correct format for a person called “First Name Surname”:

In the gray box should be “Surname FN” - From where references to be used as O2k-Publication/Brief alerts are copied from.

In the links should be “ Surname First N”

How to edit:

A) Check if all authors with profiles in Bioblast (blue links) have their profiles with full name. If they have, proceed to next step (B). If not, you need to move it following the steps “How to move a profile” below.

B) Click in “Edit with form”.

C) The gray box is edited in “Reference” and the links are changed in “Author(s)”. Change it accordingly and click in “save page” at the end of the page.

How to move a profile (instructions sent by Marija):

So let’s take for example my page: Beno M [2]

As you can see there is a redirect from Beno Marija to Beno M. What has to be done is to switch the content of those pages. Here are the steps:

1. Go to e.g. “Beno M” on edit

2. Click on “Move”

3. Change the new title to the full name of the person. In my case it will be Beno M to Beno Marija

4. Now it should look like that:

5. Click on “Move” and leave all the ticked boxes

6.Done

After that you can continue in step B.

If you have any doubt you can contact Cristiane, Marija or Mario.

Next

• Sep-15 Tu - World Lymphoma Awareness Day

Classical Hodgkin lymphoma cells are highly dependent on oxidative phosphorylation from the O2k-Network »DE Frankfurt Droese S«, »DE Frankfurt Wittig I« and »NL Nijmegen Brandt U« Birkenmeier K, Droese S, Wittig I, Winkelmann R, Käfer V, Doering C, Hartmann S, Wenz T, Reichert AS, Brandt U, Hansmann ML (2015) Hodgkin and Reed-Sternberg cells of classical Hodgkin lymphoma are highly dependent on oxidative phosphorylation. Int J Cancer 138:2231-46. »Bioblast link«

• Sep-21 Mo - World Alzheimer's Day

Sentence from the O2k-Network »link« Reference »Bioblast link«

• Sep-29 Tu - World Heart Day

Sentence from the O2k-Network »link« Reference »Bioblast link«

O2k-Open Support alert

• While in Home Office: Gnaigere (talk) 14:03, 19 March 2020 (CET) https://wiki.oroboros.at/index.php/Talk:O2k-Open_Support_alert - Many labs will move to home office mode. In line with our special DL7.4 home office offer (see Agenda today), therefore, I suggest to post in our Agenda analysis-linked O2k-Open Support cases during this time, and collect real-time operation cases for future releases.

Next

• Sept-07 Mo

Why it is necessary to perform multiple hydrogen peroxide calibrations when using the Amplex UltraRed assay? Multiple calibration is needed because the sensitivity of the Amplex UltraRed assay towards H2O2 changes during the experiment. This change may be the function of: 1) experimental time, 2) changes in the optical properties, 3) radical scavenging capacity owing to the sample, and 4) concentration of the accumulating resorufin (UltroxRed in the case of Amplex UltraRed). Therefore, it is recommended to perform H2O2 calibration before sample addition, after sample addition and multiple times during the experiment. - » Komlodi 2018 Methods Mol Biol« and » SUIT A FluoRespirometry: recommended protocols

Suggestion 2 (Luiza):

Why it is necessary to perform multiple hydrogen peroxide calibrations when using the Amplex UltraRed (AmR) assay? Multiple calibration is needed because the sensitivity of the Amplex UltraRed assay towards H2O2 changes during the experiment. This change may be the function of: 1) experimental time, 2) changes in the optical properties, 3) radical scavenging capacity owing to the sample, and 4) concentration of the accumulating resorufin (UltroxRed in the case of Amplex UltraRed). Therefore, it is recommended to perform H2O2 calibration before sample addition, after sample addition and multiple times during the experiment. - »Amplex UltraRed Calibration with H2O2« and »Komlodi 2018 Methods Mol Biol«  The DLPs for AmR SUIT protocols already come with multiple steps of H2O2 titrations for calibration implemented. - » SUIT A FluoRespirometry: recommended protocols«

Suggestion 03 (Lisa, Luiza, Timi)

Why it is necessary to perform multiple H2O2 calibrations when using the Amplex UltraRed (AmR) assay? The high sensitivity of the Amplex UltraRed assay to H2O2 changes during the experiment requires multiple calibrations. This change of the sensitivity may be the function of: 1) experimental time, 2) changes in the optical properties due to sample/chmeical titration, 3) the radical scavenging capacity of the sample, and 4) the concentration of accumulating resorufin (UltroxRed in the case of Amplex UltraRed). Therefore, it is recommended to perform H2O2 calibration before sample addition, after sample addition and multiple times during the experiment. - »Amplex UltraRed Calibration with H2O2« and »Komlodi 2018 Methods Mol Biol«  The DLPs for AmR SUIT protocols already come with multiple steps of H2O2 calibrations implemented. - » SUIT A FluoRespirometry: recommended protocols«  - » Komlodi Timea« and » Cardoso Luiza«

Removed for correction

Do you perform the leaky chamber test after chamber assembly? An unnoticed leak from the chamber may affect your data, therefore we recommend performing the Leaky chamber test - especially after chamber reassembly. - »Leaky chamber test« and » https://intern.oroboros.at/index.php/Overnight_test_after_O2k-chamber_assembly«

• Aug-17 Mo

Have you observed an 'O2 slope neg.' > 4 pmol∙s−1∙mL−1 in the closed 2 mL chamber at air saturation without a biological sample? This may be due to biological contamination of the medium or the O2k-Chamber. For further details on how to clean the O2k-Chamber properly, see: - » Cleaning of the O2k-Chamber«

For discussion

Here we discuss suggestions for the Oroboros Ecosystem Agenda 2020 (if the specific alert section is yet to be attributed)

Controlled stability of the MitoKit-CII based on HPLC and LCMS analysis: No degradation of MitoKit-CII compounds MitoKit-CII/Succinate-nv (NV118) and MitoKit-CII/Malonate-nv (NV161) for following storage conditions: Proven -80 °C solid stability for more than 3 years (3 years 7 months) Proven -20 °C solid stability for 1 year Proven DMSO stability at room temperature for 1 week Proven DMSO stability at -20 °C for 6 months (ongoing)

2021

• 2021-01-06 https://www.jstor.org/stable/1706346?seq=1

Postponed events

 » FAT4BRAIN School Riga LV IOC147«

»APS2020 Chicago US«

San Diego CA US

• Abstracts deadline 10th Int. CeBiTec Research Conference Advances in Industrial Biotechnology: Prospects and challenges for the development of algal biotechnology
• Notification to oral and poster presenters - »MitoEAGLE Summit Obergurgl 2020« (2020 Nov 04-07) and »MiPschool Obergurgl 2020« (2020 Nov 09-11)

Bioenergetics Vienna 2020

IOC Schroecken AT

• Registration and late Abstract Deadline - »MitoEAGLE Summit Obergurgl 2020« and »MiPschool Obergurgl 2020«

»36th Congress Czech Nutrition Society 2020 Hradec Kralove CZ« (Sep 10-12)