Lab Knowledge Base

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===Wiki===
===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.
*Welcome to the Lab Wiki for Mark Farmer's Lab.  This is the place to find procedures, news, and answers to commonly asked questions.
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*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.
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*If you are new to this wiki, you will need an account in order to edit pages.  Talk to [[Katy]] about getting an account set up if you would like to contribute.
*You can upload pictures, word, excel, and pdf documents.
*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.
*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.
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===Cultures & Lab Announcements===
===Cultures & Lab Announcements===
 +
Next lab assistants meeting
 +
'''TBA'''
 +
===Professional Enrichment===
===Professional Enrichment===
*'''The Association of Women in Sciences (AWIS)'''
*'''The Association of Women in Sciences (AWIS)'''
 +
== Things To Do ==
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== Pressing Things TO DO! ==  
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=== Priority ===
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=== Next Lab Meeting (3Apr09 @ 2:30pm) ===
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=== Next Lab Meeting January 14 2pm ===
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#Updates on Sarah's culture stuff (i.e. Large flask status, backup tube status, incubator 2 stuff, backup backup racks)
 
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#Discuss new labels for test tubes.
 
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#Discuss Seawater.
 
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=== Today (12May09) ===
 
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'''Things that must be done today or tomorrow:'''
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=== January ===
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*call SEJ or CC if you have any questions (if not at lab, then working from home)
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*If you have any questions call/email Katy
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*Check large flasks of RBS and PLO and small flasks of DIP for spin downs. '''PLO and DIP  done CS 11May09 - see note below RBS'''
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**PLO (6C) - Try to spin down on Monday and Friday
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***Scrape with sterile scraper. Do quick spin down first before starting normal spin down.
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**RBS (6A) - Try to spin down on Monday and Friday.
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***Do not scrape. Just pour to avoid most of soil in spin down. Still do quick spin before starting normal spin down.
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***Make new large flasks once a month.
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***'''the number of cells in large flasks are extremely low, (two large flasks were inoculated with media from the 2 small flasks); need to check Friday CS 11May09'''
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**DIP (6D) - Spin down on Monday, Wednesday, and Friday
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***Start new flask before spin down (Make sure you know how to properly do it before you start). Do not scrape. Rock gently.
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*Check that all new test tubes are doing well before throwing flasks out. '''done, need to make new test tubes from the big flasks based on how the new test tubes are doing'''
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**Spin down the flasks and toss them.
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*Start checking test tube racks and update [[Sarah's Rack]]
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*Colorless Organism Refresh for 20May09:
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**start new flasks for all colorless organisms that use media ATCC 802
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**refresh PLC and ENT too (on colorless organism sheet - get transferred every 3 weeks'''
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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).
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'''Priority:'''
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*ZG - update UGA flasks sheet as to what we have in flasks...there were a bunch of small flasks at the bottom of incubator 4 that were completely dried down and never transferred to big flasks, so SEJ tossed these and they shouldn't be on the list now unless there are big flasks for them
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*Empty all tip/trash box(s)/containers on gel and molecular benches every Wed & Fri
*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
*Wipe down all molecular work benches with the [[FIX]] 70% Ethanol squirt bottle every Wed & Fri
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*Check water bath on molecular work bench if low on water please add DI H2O check every Wed & Fri
 +
*If you're not sure what to do see '''Are you a Lab Assistant with free time on your hands?'''
 +
=== List of Organisms needed by MSU ===
 +
Please find these organisms and make an additional tube of them.  If any are not alive or contaminated please indicate below next to the three letter codes, please email Katy with any questions
 +
*CCM '''xx, ok'''
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*EDS '''not moving'''
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*EPE
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*ETM
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*ELU '''NOTHING IN HERE'''
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*HYO
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*KHQ
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*LXC '''x NOT MOVING'''
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*PET
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*SXD '''xx, ok, some dead'''
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*SXE  '''xx, ok, but some dead'''
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*SUL '''xx, good'''
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*TRT
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*TUB '''xx, good, but may be CONTAMINATED'''
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*TUV '''xxx, very good'''
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*TUY '''xxx, very good'''
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*TUX '''xx, good'''
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*TUM '''xx, good'''
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*TUP '''xxx, very good'''
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*TUO '''xxxx, very good'''
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*LXB '''xxx, good'''
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*LXF '''x CONTAMINATED'''
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*LXH '''xx, ok'''
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*LXJ '''xx, ok'''
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*LXR '''xxx, very good contam?'''
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*LXT '''xx, good'''
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*LYE '''xxx, good'''
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*LYF
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*LYI '''xx good but contaminated'''
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*LUF '''xxx, very good'''
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*LUK '''xx, good'''
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*LUT '''xxx, very good'''
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*LUY '''xxx, very good'''
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*TSP '''xxxx, very good'''
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'''Cultures:'''
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*Organisms with no info were not found/ are not in MSU test tube rack.
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*JI & AI - work on eliminating backup backup racks in 2E
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*Check old flasks in 2E (5 large and 2 small). See if alive, still contaminated and with what they are contaminated. Post here on wiki. '''Done - CC; Only 3 alive; Checked tubes to see if alive or better than dead/contaminated flasks; Updated organism status in Culture Sheet; Made new flasks of contaminated EPE (tubes are dead); Need to SCI later 4/3/09'''
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*check flasks and '''spin down''' if ready... (don't forget the flasks in the #2 and #3 incubators)...switch over any of Sarah's in closed flasks into vented flasks
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'''Lab Assistants, Please Update Sarah/Christina On:'''
 
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*'''Updates for Sarah'''
 
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**list of all cultures I need in small flasks that have been started (any moved to big flasks yet?)
 
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**list of all cultures I need in small flasks that are contaminated (and preferably what they are contaminated with)
 
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*'''Updates for Christina'''
 
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*'''Updates for Katy'''
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**katy, i have posted the info on how to prep and ship the cultures to MSU on this page [[Shipping Cultures Tubes to MSU]]...let me know if you have any questions '''SEJ 08Oct09'''
[[Notes for Sarah]]
[[Notes for Sarah]]
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== Lab Binder & Notebook ==
== Lab Binder & Notebook ==
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*[[Protocols]]
 
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*Media and Molecular [[Recipes]]
 
*[[Culture Inventory]]
*[[Culture Inventory]]
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*[[Inventory]]
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*[[Culture Ordering Information]]
*[[Instructional Information]]
*[[Instructional Information]]
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*[[Lab Supplies]]
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*Media and Molecular [[Recipes]]
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*[[Protocols]]
*[[Recipes not Currently Used]]
*[[Recipes not Currently Used]]
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*[[Culture Ordering Information]]
 
== Phylogenetics and Systematics of Euglenozoa ==
== Phylogenetics and Systematics of Euglenozoa ==

Current revision as of 18:57, 14 January 2010

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 Katy 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

Next lab assistants meeting TBA


Professional Enrichment

  • The Association of Women in Sciences (AWIS)

Things To Do

Priority

Next Lab Meeting January 14 2pm

January

  • If you have any questions call/email Katy
  • 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
  • Check water bath on molecular work bench if low on water please add DI H2O check every Wed & Fri
  • If you're not sure what to do see Are you a Lab Assistant with free time on your hands?

List of Organisms needed by MSU

Please find these organisms and make an additional tube of them. If any are not alive or contaminated please indicate below next to the three letter codes, please email Katy with any questions

  • CCM xx, ok
  • EDS not moving
  • EPE
  • ETM
  • ELU NOTHING IN HERE
  • HYO
  • KHQ
  • LXC x NOT MOVING
  • PET
  • SXD xx, ok, some dead
  • SXE xx, ok, but some dead
  • SUL xx, good
  • TRT
  • TUB xx, good, but may be CONTAMINATED
  • TUV xxx, very good
  • TUY xxx, very good
  • TUX xx, good
  • TUM xx, good
  • TUP xxx, very good
  • TUO xxxx, very good
  • LXB xxx, good
  • LXF x CONTAMINATED
  • LXH xx, ok
  • LXJ xx, ok
  • LXR xxx, very good contam?
  • LXT xx, good
  • LYE xxx, good
  • LYF
  • LYI xx good but contaminated
  • LUF xxx, very good
  • LUK xx, good
  • LUT xxx, very good
  • LUY xxx, very good
  • TSP xxxx, very good
  • Organisms with no info were not found/ are not in MSU test tube rack.


  • Updates for Katy
    • katy, i have posted the info on how to prep and ship the cultures to MSU on this page Shipping Cultures Tubes to MSU...let me know if you have any questions SEJ 08Oct09

Notes for Sarah

  • Euglenozoa AToL

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

  • keep up with washing, drying and autoclaving the glass volumetric pipets so we don't run out (5, 10, 25mL)
  • put cotton in the tops of pasteur pipets and fill the containers (by the dishwashing station) and autoclave them
  • 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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