SEA-PHAGES Logo

The official website of the HHMI Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science program.

2015 Sequencing Information

The leaves are changing and the weather is cooling, which can only mean: time to sequence some phage genomes!

A quick reminder that each SEA-PHAGES school can have two genomes sequenced per in silico section they are teaching this year. We recommend that you send at least one backup sample in case one of your samples fails our QC.

Once again this year, all "official" (HHMI-supported) SEA-PHAGES sequencing will take place at the University of Pittsburgh. This post contains some basic info about prepping and shipping your DNA samples.

Deadlines

Semester Schools

Please send your genomic DNA so that it arrives in Pittsburgh by Friday, November 20, 2015.

Quarter Schools

Please send your genomic DNA so that it arrives in Pittsburgh by Friday, January 8, 2015.

If you will have trouble meeting these deadlines for any reason, please contact Dan Russell at dar78@pitt.edu.

Guidelines for DNA

Buffer

We can't use samples that are resuspended in TE. The EDTA interferes with enzymatic shearing of the DNA. You can resuspend your DNA in Elution Buffer (Tris) or in purified water.

Amount

We need a minimum of 5 µg (micrograms) of genomic DNA.

Concentration

At least 40 ng/µl. Ideal is 100-300 ng/µl. If you're above 300 ng/µl please consider diluting to a workable concentration. Keep in mind that spec-based quantifications (like Nanodrop) count all absorbance at 260 nm, not just genomic DNA, so they often overestimate the real concentration. Err on the high side of the amount of DNA you send.

Gel Picture

Please submit—either via email to dar78@pitt.edu or in the shipping box—an image of the gDNA being run on an agarose gel. We use these to look for sample integrity (not already sheared/degraded) and purity (no RNA).

Shipping

Packaging

We prefer standard microcentrifuge tubes, and strongly recommend wrapping the caps with Parafilm to prevent spilling or evaporation. The tubes can be packed into a 50 ml conical tube with some KimWipes to stabilize them during shipment. The shipment should be sent on "wet ice" (cold packs) with overnight shipping for delivery to Pittsburgh on Tuesday-Friday.

Address

Dan Russell
344 Crawford Hall
Department of Biological Sciences
4249 Fifth Avenue
Pittsburgh, PA 15260

Next entry:

Previous entry:

Related entries

comments powered by Disqus

Current Events

Phage Discovery Workshop 10A

June 24, 2017 to June 30, 2017

Upcoming Events

Phage Discovery Workshop 10B

July 8, 2017 to July 14, 2017

Prepare & Test Reagents for Phage Discovery

July 17, 2017 to August 31, 2017

Receive Shipment of Biologicals from Program

July 17, 2017 to August 31, 2017

Recent Events

2017 Genome Announcement Workshop

June 11, 2017 to June 13, 2017

9th Annual SEA-PHAGES Symposium

June 9, 2017 to June 11, 2017

Forum Activity

leblancstraj posted in New Features in PECAAN

leblancstraj posted in Phage can not be added

Claire Rinehart posted in New Features in PECAAN

FORUMS HOME PAGE