Suggestions for new school lab DIYBio

[jrd210]

I am trying to advise a local High School here in Canada on a series of basic DNA/genetics experiments. I will help them set up a full lab (except for -80 freezer) as I have most of the stuff already in my garage and may well move it to the School. I would rather share all my equipment with keen students than just do stuff on my own (last year out so). But I have been asked to give some basic experiments. 

I am looking for suggestions beyond and above basic transformation with E Coli or even the basic Odin CRISPR experiment as having done them in my garage they are already on my list for the school. 

After that I am open to suggestions of a practical nature, even if we have to send the odd sample off for sequencing. Any thoughts on practicality of DNA barcoding and how to tackle it?? Might try catching local fish species and extracting DNA and collecting samples for sequencing. Are there reasonable cheap individual sequencing companies--either Canada or USA (but preferably in Canada due to shipping and customs etc).

[Cabalen sciences]

Have you heard of this the Biomanufacturing program

http://solano.edu/biomanufacturing/

http://solano.edu/biomanufacturing/courses.php

http://solano.edu/biomanufacturing/timeline.php

http://solano.edu/biomanufacturing/faculty.php

http://biomanufacturing.org/nbc2-workshops/protein-is-cash-workshops/protein-is-cash-2016

http://biomanufacturing.org/about-nbc2/people/advisory-board-members

http://biomanufacturing.org/about-nbc2/people/national-visiting-committee-members

http://biomanufacturing.org/curriculum-resources/program-units

http://biomanufacturing.org/about-nbc2/people/principal-investigators

You should contact people on the Biomanufacturing.org Website or the Solano Community College Website for that. These places are currently running Biomanufacturing/ Biotech programs in their areas.

 

Biomanufacturing Department Contact Information

School of Mathematics & Science
Email: biomanuf...@solano.edu
Phone: 707-864-7211
Fax: 707-646-2054
Office: Bldg. 300, Room 335 (Enter building through door 309 or 349) 

These People can help you with your Specific Issue.

Meet the Solano Community College Biotech Faculty

Gulnur Sanden

Professor of Biomanufacturing

Professor Gulnur Sanden serves as the Director of the Biomanufacturing program. She started at Solano College in May 2017, making the transition from industry where she served as Project Engineer that headed several projects designing cardiac devices for Oscor Incorporated, a medical device design and manufacturing company. Dr. Sanden earned her Ph.D in Biomedical Engineering from the University of South Florida. She also earned two Master’s degrees in Physics, one from Indiana University of Pennsylvania, and the other from Kocaeli University in Turkey. She also earned her Bachelor of Science degree in Physics from Kocaeli University.

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Jim DeKloe

Professor of Biological Sciences and Biotechnology

Jim DeKloe, Professor of Biological Sciences and Biotechnology, serves as the director and founder of the Industrial Biotechnology program at Solano Community College. In the past, he served as the regional director of the Southwest Region of Bio-Link, the nationwide consortium of community and technical colleges that teach biotech. On sabbatical he worked in the manufacturing department of biotech pioneer Genentech Inc. He also served as a consultant to help biotech giant Amgen redesign the training programs for their biomanufacturing technicians and for their quality assurance associates. He currently serves on the advisory committee for the Explorer Education Division of BioRad, and on the advisory committees of multiple college and high school biotechnology programs. In 2000, the Association of Community College Trustees chose Jim as the Distinguished Faculty Member of the Pacific Region which includes the Western United States and Canada, Hawaii Alaska and Guam. In 2011 Solano College faculty chose Jim as the Distinguished Faculty Member of the Year. In 2015, he became a finalist for the Award of Excellence for Faculty Innovation by the American Association of Community Colleges.

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Ed Re

Professor of Biological Sciences and Biotechnology

Ed Re, Professor of Biological Sciences and Biotechnology, has taught biotechnology at Solano College since 2004. Dr. Re earned his PhD and B.S from the University of California, Davis. Before joining the faculty of Solano College, he worked as a scientist at Novozyme and developed industrial enzymes that are important in the production of biofuels. In 2015, he became a finalist for the Award of Excellence for Faculty Innovation by the American Association of Community Colleges.

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Mike Silva

Professor of Biological Sciences and Biotechnology

Mike Silva, Professor of Biological Sciences and Biotechnology, is one of Solano’s own. After completing an AS from Solano College in 2008, Mike completed his undergraduate education at UC Santa Barbara and completed a Master’s degree in Biotechnology from CSU Channel Islands. He conducted research at the City of Hope in Duarte, CA, and currently works in biomanufacturing at the Genentech Vacaville facility. Watch this video with Mike discussing why he pursued science, and how he supports SCC’s Biomanufacturing students.

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Jennifer Low

Laboratory Technician

Jennifer Low, the laboratory technician in charge of the Biotechnology Laboratory at Solano College's main campus, has served as the lab director for a decade. Jennifer earned a Bachelor's Degree in Food Science from UC Davis. In 2015, she received the Classified Employee of the Year award at Solano College.

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Ruhpreet Bains

Laboratory Technician

Ruhpreet Bains serves as a laboratory technician working to prepare labs for the Industrial Biotechnology and the Biomanufacturing Bachelor's degree programs. After taking her lower division biology and chemistry courses at Solano College, Ruhpreet transferred to the University of California, Davis where she earned a Bachelor of Science in Biotechnology. After graduation she worked in several labs including working as a chemist for Delta Environmental Laboratories and as a quality control specialist for the Anheuser-Busch brewery in Fairfield. Ruhpreet is currently working to complete Masters of Science in Environmental Management at the University of San Francisco. Her MS will have a concentration in climate change and energy. She is also working on a GIS (Geographic Information Systems) certification.

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Christine Kucala

Laboratory Technician

Christine Kucala, laboratory technician in charge of the laboratories on Solano College’s Vacaville Center has worked at Solano College for over six years. She earned a Chemistry degree from St. Louis University and a Masters of Business Administration. She has extensive industry experience. She worked for Anheuser-Busch for 15 years full-time and 6 years part-time, working in the analytical labs, in the research pilot brewery, as a group manager of the Brewing Department, and as the Quality Assurance group manager. She also has experience in the wine industry as a quality manager overseeing Robert Montavi, Franciscan, Simi, and Ravenswood wineries. She works part-time in the laboratory of the Solano County Public Health department, performing tests to assure the quality of drinking water. In 2007, her peers chose her as Classified Employee of the Year award for Solano College.

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Irene Camins

Laboratory Technician

Irene Camins, laboratory technician in charge of the laboratories on the campus of Solano College's Vallejo Center. She completed a masters degree, and has worked in a variety of positions for various companies in the biotechnology industry, including Cetus, the pioneering Bay Area biotech company.

[Cabalen sciences]

https://www.youtube.com/watch?v=HXIc_9mLZQo

On Friday, November 9, 2018 at 3:45:23 PM UTC-8, jrd210 wrote:

[Explorer E]

I am thinking on the same lines. Apparently your thread did not get enough interest. Did you get some more suggestions in the mean time?

[Dakota Hamill]

You have one of the worlds largest DNA Barcoding facilities in Canada. Barcode of life from memory. They will sequence for you.

Fish is easy, I'd check samples from stores that sell fish to see if they're the real species.

The primers can be had for $20 or $30 or cheaper a pair from IDT.  Plant, insect, fish, bacterial, fungal. 

Barcode of life I'm pretty sure, but this was 5 years ago, has entire protocols and primers and everything you need plus background info, and how to analyze data after. 

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[Christopher Monaco]

We did some DNA barcoding recently down in Atlanta, Ga. I reached out to Cold Spring Harbor Labs and they were more than happy to send us everything we needed to perform 30+ reactions for free to to help us get started.

[José María Espinosa]

I think the barcoding is perfect for the students. It's simple, cheap and very motivating. It also allows to obtain real scientific data, which are then incorporated into the NBCI. 
I am doing it with my students in Spain and they are enjoying it a lot

[Explorer E]

Thanks everyone for sharing your thoughts and experience.

What about bacterial genome editing using CRISPR? Has anyone tried anything else than streptomycin resistant?

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[Yoshi Goto]

Hi Christopher,

That's interesting that CSHL was able to do that for you. Is that through some program they have? Or did you just cold contact someone there?

[Patrik D'haeseleer]

On Thursday, May 16, 2019 at 4:05:49 AM UTC-7, Explorer E wrote:

What about bacterial genome editing using CRISPR? Has anyone tried anything else than streptomycin resistant?

Streptococcus thermophilus is the main bacteria used to make yogurt. And it has an active Cas9 system! So in theory all you'd need to reengineer its entire genome is an artificial CRSIPR casette...

Patrik

[Christopher Monaco]

Hi Yoshi,

I should clarify that they just sent us reagents and primers (not equipment like pipettors or thermal cyclers) but still hugely helpful in getting us started. I just reached out to the general contact form on https://www.dnabarcoding101.org/ expressing interest in their barcoding program and asking what it would take to get involved. One of the program leads reached out and said they were happy to help us out and send us some starting materials. They were super great to work with and happy to answer any questions we had along the way.

I’m happy to give you the contact information to the person I was working with. Just shoot me a DM.

[AdrianMolecule]

Hi JRD,

Where about in Canada are you?

Cheers,

Adrian

On Friday, November 9, 2018 at 6:45:23 PM UTC-5, jrd210 wrote: