Lab Knowledge Base

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==News==
==News==
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===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===
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Next lab assistants meeting
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'''TBA'''
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 +
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===Professional Enrichment===
*'''The Association of Women in Sciences (AWIS)'''
*'''The Association of Women in Sciences (AWIS)'''
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**'''About the Organization:''' AWIS brings together undergraduate and graduate women in the sciences to discuss science, careers and lifestyles in science as well as providing organized opportunities for science outreach in the local community.  There are no dues and both men and women are encouraged to join!  Contact Sana Hashmi (AWIS Undergraduate Presidentt) to be added to the AWIS listserve.
 
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**'''Outreach:'''
 
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***'''Dates:'''
 
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****September 27th, 3:30-4:30pm
 
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****October 18th, 3:30-4:30pm
 
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****November 15th, 3:30-4:30pm
 
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***'''Where:''' Oglethrope Elementary School ''(carpools are available)''
 
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***'''What:''' helping elementary students conduct small science experiments
 
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**'''First Meeting of the Semester:'''
 
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***'''When:''' 6:30pm, September 17th
 
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***'''Where:''' SLC Room 269
 
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***'''Who:''' anyone who is interested!
 
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***'''What:''' AWIS informational meeting and discussion about being a science student at UGA.  This will be a great opportunity for everyone to meet fellow science majors and discuss classes, good professors, and various other opportunities on campus.
 
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**'''First Seminar of the Semester:'''
 
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***'''When:''' time TBA, October 2nd
 
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***'''Where:''' TBA
 
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***'''Who:''' Dr. Maxia Dong, Center for Disease Control (CDC) and the National Institute of Health (NIH)
 
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***'''What:''' TBA
 
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== Pressing Things TO DO! ==
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== Things To Do ==  
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*LEARN HOW TO DO [[DNA Extraction Protocol]]...do it by yourself within ~1week (with Sarah or Tina backing you up)
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=== Priority ===
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'''Cultures:'''
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=== Next Lab Meeting January 14 2pm ===
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*'''on Monday the 17th''' - check the new Eutreptiella cultures...tubes & flasks (15C incubator, 20C incubator in ''Eutreptia pertyi'' rack, and in rack in front of window by the Farmer Lab PC)...report to Sarah results and which media/temps the organisms like best
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*start growing the MSU cultures up in a small flasks in addition to the back up tube (recently added to the culture inventory...some might already be in their appropriate rack number if they are just replacing a culture we had previously)...will need lots of AF6
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*'''on Monday the 17th''' check the GRC small flasks...2 total (we need to extract more DNA from this, so don't just toss it w/out spinning down if in log-phase growth & enough cells)
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*check big flasks & spin down if necessary '''(all done?)'''
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*check back up small flasks & "no cells" small flasks in the culture room 20C incubator '''(transfers made or back ups checked & ok?)'''
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*check on latest transfers of ENTO, PER '''(done...it's dead...re-ordering)''', ''Eutreptia pertyi'', and ''Eutreptiella'' sp. cultures (also TET in walk in, but be sure not to keep out long!)
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*make up more K & Seawater Media - MSU (the AF6 with seawater)...use multiple containers for each type of media b/c some will have to be kept at room temp. and others will have to be kept in the 15C incubator
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*Brandon will be doing fungal treatment experiments using Sharan's notes in Lab Binder
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'''Other:'''
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*drill two extra holes in the black drying rack for the culture room and mount it on the wall above the current dishwashing area (move all glassware and dishwashing items first so they don't get broken or in the way)...at least 2-3 people will be needed to lift and mount the drying rack
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=== January ===
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*move stuff from molecular/PCR area and clean off top shelves...wipe of lower bench with ethanol when done and then replace all the stuff that was moved off temporarily (check with Tina and Sarah first to be sure they don't need to work on the bench while you are doing it)
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*refill empty agarose tubes with ~amount that label says (0.4mg, 0.6mg, 0.7mg)...next to gel microwave
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*If you have any questions call/email Katy
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*update culture inventory with which racks recently added MSU cultures are actually in (edit if some are repeats)
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*Empty all tip/trash box(s)/containers on gel and molecular benches every Wed & Fri
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*wash dishes (make sure dry before putting away!)
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*Wipe down all molecular work benches with the [[FIX]] 70% Ethanol squirt bottle every Wed & Fri
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*set up new answering machine to lab phone '''(with personalized message!)'''
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*Check water bath on molecular work bench if low on water please add DI H2O check every Wed & Fri
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*clean centrifuge rotor (read manuals for how to do this...the one next to it from the Keith lab)
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*If you're not sure what to do see '''Are you a Lab Assistant with free time on your hands?'''
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*hang up SEJ's poster (& Sheila's when she brings it in)
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=== List of Organisms needed by MSU ===
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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
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*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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*Organisms with no info were not found/ are not in MSU test tube rack.
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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'''
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[[Notes for Sarah]]
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*Euglenozoa AToL
== Are you a Lab Assistant with free time on your hands? ==
== Are you a Lab Assistant with free time on your hands? ==
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*keep up with washing, drying and autoclaving the glass volumetric pipets so we don't run out (5, 10, 25mL)
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*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]])
*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)
*[[Autoclave]] media using the liquid cycle (be sure you label with autoclave tape)
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*Using sterile techniqe, add media to the autoclaved tubes or sterile culture flasks
*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.
*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.
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*Make transfers of healthy cultures
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*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
**tubes
**big/small flasks
**big/small flasks
*Spin down log phase cells in big culture flasks and rejuvenate with fresh media (aseptically)
*Spin down log phase cells in big culture flasks and rejuvenate with fresh media (aseptically)
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*Extract DNA from concentrated cells
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*Extract DNA from concentrated cells and update the [[DNA.xls]] sheet
*Qualify/Quantify DNA on Nanodrop
*Qualify/Quantify DNA on Nanodrop
*Maintain molecular buffers, reagents
*Maintain molecular buffers, reagents
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*Keep everything clean and organized
*Keep everything clean and organized
*Ask if anyone in the lab needs anything done
*Ask if anyone in the lab needs anything done
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== Lab Binder & Notebook ==
== Lab Binder & Notebook ==
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*[[Protocols]]
 
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*Media [[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 ==
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*[[Euglenophyte Phylogenies]]
*[[Euglenophyte Phylogenies]]
*[[Phylogenetic Programs]]
*[[Phylogenetic Programs]]
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*[[Farmer Lab]]
==Documents==
==Documents==
*[http://editthis.info/images/protists/5/54/PCRReactions.doc PCR Reactions]
*[http://editthis.info/images/protists/5/54/PCRReactions.doc PCR Reactions]
*[http://editthis.info/images/protists/c/c8/DnaDilutionQuickCalculation.xls DNA Dilution Quick Calculation]
*[http://editthis.info/images/protists/c/c8/DnaDilutionQuickCalculation.xls DNA Dilution Quick Calculation]
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==See Also==
==See Also==
*http://meta.wikimedia.org/wiki/Help:Wikitext_examples
*http://meta.wikimedia.org/wiki/Help:Wikitext_examples

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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