Lab Knowledge Base

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Revision as of 17:56, 7 March 2008 by Joy (Talk | contribs)

Contents

News

Wiki

  • Welcome to the Lab Wiki for Mark Farmer's Lab. This is the place to find procedures, news, and answers to commonly asked questions.
  • If you are new to this wiki, you will need an account in order to edit pages. Talk to Sarah about getting an account set up if you would like to contribute.
  • You can upload pictures, word, excel, and pdf documents.
  • If you are new to wiki editing, check out the wiki help for how to edit articles in a wiki, then use the existing pages as templates and examples of how to create links, upload files, and display images.


Cultures & Lab Announcements

  • Friday the 22nd is Brandon's 19th Birthday and we will have cake during lab meeting (Wednesday the 27th, Thanks for volunteering to make the cake, Caitlin!)


Professional Enrichment

  • The Association of Women in Sciences (AWIS)


Pressing Things TO DO!

Next Lab Meeting (5March08)

  1. Updated Colorless Organisms Culture Inventory sheet on wiki. Please look at it if you have any questions about culture media, incubation temp and incubator number, 3-Letter codes, etc.

Today (7Mar08)

Things that must be done today:

If not finished, the last person to leave should e-mail SEJ or CC what's left to be done (depending on who it's for).

  • Spin down the Tina's blue rack (1B) and the large flasks of PCT (2A). Please replace the media in PCT and add 4-5 grains of rice per flask. Also, please put the tubes in the blue rack back in the white rack in 1C. I didn't have time to finish, cultures are infront of the centrifuge tubes CS
  • Autoclave disposable glass pipettes.


Priority:

  • Refill agarose tubes with GenePure LE Quick Dissolve Agarose (use small bottle first...in drawer with measuring supplies for your ease...please make a couple more ~0.6g tubes) done JI 27Feb08
  • Please check small flasks on 2D
  • SEJ's - Please do DNA extractions on the following organisms (be sure to check if they original spin down was done on Log phase cells before you combine/extract them)....(SEJ has a list of more that are less pressing, but can be extracted b/c there are too many tubes of them in the cell box(s), so be sure to check with her if you want to start on those too)
    • TUM (cell box 3 - check info on tubes prior to combining)Done BP
  • do spin downs of big flasks this week if they are ready...and don't forget you still need to do ELU by window and ETM in incubator #1!!! ...(JI labeled all big flasks to spin down 20Feb08. Check post-its in incubator 4 or lab notebook!)
  • switch any of SEJ's big flasks that are in the plug-sealed big flasks into the vented big flasks if they are still healthy and if they are not healthy or are dead/contaminated, then start new big flask from uncontaminated tube(Done ST, 29feb08)
  • Empty all tip/trash box(s)/containers on gel and molecular benches every Wed & Fri
  • Wipe down all molecular work benches with the FIX 70% Ethanol squirt bottle every Wed & Fri



Cultures:

  • When checking cultures, please put aside any cultures with fungus for BP fungal treatments. Let him know where they've been put.
  • Brandon will be doing fungal treatment experiments using Sharan's notes in Lab Binder
    • Need to make 2 small flasks (one labeled microscopy) of the following (indicates test tube location):
      • LUV (4C-backup)test tube contaminated with rodifers; used older test tube to make small flask; need to watch for contamination
      • TCI (4g)done CS
      • LXF (1g)done CS
      • LXI (4c-backup)done BP
      • LXJ (9h)test tubes contaminated with ciliates
      • LXH (1f)done CS
      • TUB test tubes contaminated
      • TUO JI did small flask (currently in 4), but seems like two different sizes of Trachs, redo small flask from uncontaminated tube or single cell isolate to get both types of cells isolated and grown up in small flasks done CS
      • SNB done CS
      • THB done CS
      • LUT (13d) done CS
      • TUN (?) can't find
      • TUK done CS
      • LUF (8f) done CS
      • LXR (6c) done CS
      • TUX done CS
      • LXT done CS
      • LYI (2d) done CS
      • LUK (9a) done CS
      • LYE (7f) done CS
    • Need to make 1 small flask for DNA (indicated test tube location):
      • LYA (7C)Contaminated with cilliates + rodifers; made a small flask - need to watch for contamination
      • SXD (4i) Dead in notebook 30Jan08
      • LXL (1d) done CS
      • SXE (5f)done BP
      • TSP (10b)done BP
      • TUY (3b)done BP
      • TXB (4d) done CS
      • TXG (1c) done CS...please do again b/c no trach cells on 26Feb08, only ciliates in small flask test tubes contain no living cells or ciliates; may have 1 cell in test tube 4 Oct 07 - did not make small flask
      • LXW (6f) done CS
      • LXX (1i) done CS
      • LYB (?) Can't find
      • LUW (9b) done CS
      • LUO (4c-backup) can't find CS;This was thrown out 30Jan08, but we still have a good big flask for it- JI
      • LYS (13j done CS
      • LYT (13i) done CS
      • LUA (13h) done CS
      • LUC (13g) done CS
      • LUD (13f) done CS
      • LUG (13e) done CS
      • LYP (?) Can't find
      • LYD (7e) done CS
      • LYG (7h) done CS
      • LXN (?) Can't Find
      • SUM (?) Can't Find
      • TVL test tubes contaminated
      • LYU test tubes contaminated
      • LXW done CS
      • LUW done CS
      • LXZ done CS
      • LXP done CS
      • LUU done CS
      • SUL done CS


Lab Assistants, Please Update Sarah/Christina On:

  • Updates for Sarah
    • list of all cultures I need in small flasks that have been started (any moved to big flasks yet?)
    • list of all cultures I need in small flasks that are contaminated (and preferably what they are contaminated with)
  • Updates for Christina



Notes for Sarah

Are you a Lab Assistant with free time on your hands?

  • Make any media that needs to be made (generally AF-6 Medium, ESNW or Hay Infusion)
  • Autoclave media using the liquid cycle (be sure you label with autoclave tape)
  • Using sterile technique, add any additional ingredients to complete media post-autoclaving (eg. vitamins)
  • Wash test tubes, media containers and their respective caps (keep LIVE and FIX glassware separated)
  • Autoclave the test tubes, media containers, 9" pasteur pipets, pipet tip box(es), volumetric pipets, etc. in appropriate containers with containers underneath if available
  • Using sterile techniqe, add media to the autoclaved tubes or sterile culture flasks
  • Check and make notes of cultures without opening the tubes or culture flasks using the appropriate microscopes. Some cultures need to be checked daily, weekly, bi-weekly or monthly depending on their growth patterns.
  • Make transfers of healthy cultures (all culture information can be found on the Cumulative Culture Inventory.xls sheet on the Farmer Lab PC desktop)
    • tubes
    • big/small flasks
  • Spin down log phase cells in big culture flasks and rejuvenate with fresh media (aseptically)
  • Extract DNA from concentrated cells and update the DNA.xls sheet
  • Qualify/Quantify DNA on Nanodrop
  • Maintain molecular buffers, reagents
  • Maintain at least one carboy of DI water
  • Keep everything clean and organized
  • Ask if anyone in the lab needs anything done



Lab Binder & Notebook

Phylogenetics and Systematics of Euglenozoa

Documents



See Also

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