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

The SEA-PHAGES Program

SEA-PHAGES (Science Education Alliance-Phage Hunters Advancing Genomics and Evolutionary Science) is a two-semester, discovery-based undergraduate research course that begins with simple digging in the soil to find new viruses, but progresses through a variety of microbiology techniques and eventually to complex genome annotation and bioinformatic analyses.

The program aims to increase undergraduate interest and retention in the biological sciences through immediate immersion in authentic, valuable, yet accessible research. By finding and naming their own bacteriophages, students develop a sense of project ownership and have a ready-made personal research project at a fraction of the cost of traditional apprentice-based research programs. Some of the positive effects of the SEA-PHAGES program have been reported here.

SEA-PHAGES is jointly administered by Graham Hatfull's group at the University of Pittsburgh and the Howard Hughes Medical Institute's Science Education division.

SEA-PHAGES IN THE NEWS

  • Thumbnail for Conference on Bacteriophages: Biology, Dynamics, Therapeutics

    Conference on Bacteriophages: Biology, Dynamics, Therapeutics

    International Antiviral Society—USA | Sept. 4, 2025

    The inaugural Conference on Bacteriophages: Biology, Dynamics, and Therapeutics, will be held on October 12 to 14, 2025, in Washington, DC, USA. Academic and other investigators will meet for this 2.5-day conference of approximately 500 US and international attendees, that includes state-of-the-art invited talks, symposia, and workshops, as well as abstract-driven presentations focused on recent scientific advances and future clinical applications of bacteriophages. CLICK TO REGISTER!read more

  • Thumbnail for How naturally occurring viruses could help treat superbug infections

    How naturally occurring viruses could help treat superbug infections

    Dr. Sanjay Gupta

    CNN International | Dec. 5, 2023

    Phages are naturally occurring viruses that infect and kill bacteria. CNN's Dr. Sanjay Gupta meets the researchers scouring the world to see if phages could be the key to treating antibiotic resistant infections.read more

    Related institution: University of Pittsburgh

2026 SEA Symposium

Below are some guidelines to help you and your students prepare for the upcoming symposium. These include guidelines for:

IMPORTANT DATES
March 31, 2026:          Deadline to register for the Symposium.
March 31, 2026:          Deadline for abstract submission.
April 3, 2026:               Those selected to give talks will be notified.
April 13, 2026:             Part.1 of the Symposium Keynote available online for viewing
April 17, 2026:             Deadline to upload Posters to the symposium website.
April 24 – 26, 2026:     Attend the Symposium.

 

REGISTRATION

Who should register?
All SEA faculty, and all SEA student-researchers from the 2025 - 2026 academic year, are invited to register and attend the 2026 SEA Symposium.

How do I register?
All SEA faculty members will receive instructions and a registration link by email on March 9, 2026. You will be asked to forward a registration email to your students. Registration will close March 31, 2026.
 

ABSTRACTS & POSTERS

Who should submit abstracts and posters?
SEA Faculty are responsible for submitting all abstracts and posters.
Poster abstracts will be submitted via the seaphages.org program website (see link within your institution's homepage on seaphages.org)
Final posters will be uploaded to the symposium meeting website. Instructions for abstract and poster submissions are provided below.

How many posters should be submitted?
We encourage each section of SEA students to submit one poster that describes their SEA research from the 2025 – 2026 academic year. If your school has multiple SEA sections, PHAGES or GENES, you may choose to submit one poster for each section or research project, or you can choose to submit one poster that summarizes the work of many sections or projects.

What is the format for each poster?
Posters should be prepared as a single Powerpoint slide using the Poster resource on QUBES prepared by SEA faculty, and saved as a PDF file. During the poster session, presenters will refer to this single slide PDF when presenting.

What should I include in my abstract(s) and poster(s)?
Given that the symposium will happen during your ongoing research semester, your poster will likely feature your ongoing work-in-progress. This is a great opportunity for your students to discuss their research with other students across the country and get feedback to inform their ongoing research. As much as possible, each poster should feature discoveries in the context of what is already known for similar phages. The Cluster Reports on QUBES can be a valuable resource for this. The QUBES Poster resource also provides guidance on how to develop your poster with your students to facilitate an exchange of ideas during the symposium.

Your abstract will represent a summary of what will be included in your poster. There is a 3,000 character-limit for abstracts.

What is the format for the poster session?

The poster sessions will be live sessions hosted in a virtual space designed as a yacht where participants can move around using the arrow keys on their keyboard and can connect with others via video and audio based on proximity.

In this virtual space, each submitted poster will have an assigned space, and 2 poster presenters should stand by their poster. As an attendee walks up to a poster, their video and audio will connect with the poster presenter. A link at each poster allows the attendee and presenter to both view the single poster slide at the same time. A video tutorial about the yacht and the poster session will be provided soon.

Here are some additional logistics and recommendations:

  • The poster session on Saturday will be for even-numbered posters, whereas the poster session on Sunday will be for odd-numbered posters.  Poster presenters will be able to locate their poster number on the Symposium meeting site and should then plan to present at their respective poster session.
  • While any individual student is unlikely to be able to visit all the posters being presented during the dedicated poster sessions, collectively your group of students may be able to. Much the same way in which a few members of a lab who attend a scientific meeting return to share the science they learned with the rest of the lab, we encourage you to consider organizing a post-symposium lab group meeting where your students can share with the group what they each learned from the various posters they attended. If you are considering implementing this, it may be worth informing students of your plans before they attend the symposium.
  • Since all symposium attendees will continue to have access to the symposium meeting site for several months after the symposium is over, we encourage you to continue engaging your students with the various posters as part of their ongoing PHAGES and GENES research.

How do I submit my abstract(s)?
Once you are signed in at seaphages.org, links to add, modify, or view an abstract are provided at the top of your institution page. Abstracts should by March 31, 2026.

How do I submit my poster(s)?
Once you have submitted your abstracts, SEA staff will send instructions to you and your students by April 10 on how to submit your poster to the Symposium Homepage. Posters should be uploaded by April 17, 2026.

 

TALKS  

Yes! If you would like your abstract to be considered for a talk, you can indicate so during the abstract submission. If your abstract is selected for a talk, you will be notified by April 3, 2026.
We encourage you to submit a poster even if you are selected to give a talk, since the poster session is an additional and important opportunity for faculty and student co-authors, and other symposium attendees to interact and discuss research.


What are the formats for talks?
We have 3 types of sessions for talks:

  • SEA Research Sessions: These sessions will include several back-to-back 10-minute talks (+3 minutes for Q&A). Talks will be presented live. Speakers will be invited to a practice session in the weeks prior to the meeting so that they are familiar with the technology.
  • SEA Lead Scientist Session: This 45-min presentation will feature our SEA-PHAGES lead scientist, Graham Hatfull and members of the Hatfull lab.
  • Keynote Session: The keynote presentation by the Paul Turner, the Rachel Carson Professor of Ecology and Evolutionary Biology at Yale School of Medicine, will be presented in two parts.
    • Part.1 will be a pre-recorded presentation that will be made available to all attendees the week of April 13. All attendees should watch Part.1 ahead of the symposium. We encourage faculty and students to watch and discuss Part.1 together. Consider dedicating one lab meeting for this.
    • Part.2, which builds on Part.1, will be a live presentation during the symposium.
       

INTERACTIONS

How will symposium attendees be able to interact?

The entire Symposium will be hosted on a virtual meeting platform, where  all attendees can connect with one another, via video and audio, throughout the meeting.

  • Talks will be hosted in a virtual auditorium, and attendees will be able to walk up to a virtual microphone to ask questions. Attendees can also use the live chat to ask questions.
  • Posters will be hosted in the virtual poster rooms, and attendees will be engage with poster presenters by video and audio during the poster session. Posters will continue to be available for viewing outside of the dedicated poster sessions.
  • For all other times, including socials, we encourage all attendees to wander the virtual spaces built for the Symposium. You will be able to interact with one another via video and audio, and more! We encourage attendees to use this space to meet between or after sessions to discuss science, or to simply catch up with old friends and to meet and make new friends.
  • To help students prepare for a virtual meeting, SEA faculty have a prepared a resource hosted on QUBES that you can download, review, and share with your students.
     

AGENDA & MEETING PAGE

A link to the Symposium homepage will be provided closer to the meeting date.

Friday, April 24
5:00 PM – 6:00 PM | Concurrent Sessions
-- A Chat with SEA Scientists (for SEA Students)
--
Faculty Meet & Greet (for SEA Faculty)

Saturday, April 25
1:00 PM – 1:45 PM |Symposium Keynote
2:15 PM – 3:10 PM |Talks by SEA Researchers
3:30 PM – 4:15 PM |Poster Session -- Even-Numbered Posters

Sunday, April 26
1:00 PM – 2:00 PM |Talks by SEA Researchers
2:30 PM – 3:30 PM |Poster Session -- Odd-Numbered Posters
4:00 PM – 5:10 PM |Talk by SEA-PHAGES Lead Scientist

 

 

 

 

 

SEA Communication: November 2025

This is our November communication, listing key upcoming events for the SEA Community


1. MEETINGS:

  • November Monthly Virtual Faculty Meeting: Friday Nov 21, 2025
    This month's meeting will focus on expanding our education research efforts to capture faculty contributions.
  • Phage Genomics Workshop: Dec 12 – 16, 2025
    The Phage Genomics workshop for faculty from Cohort 18. However, if you instruct Phage Genomics but have never attended this workshop, you can request to attend and we will do our very best to accommodate you. Email sea@hhmi.org as soon as possible to make this request.

2. ARCHIVING:

  • Tubes: 
    Archiving tubes are being shipped. If you do not receive them by Nov 14, please reach out to us at info@seaphages.org.
  • Archiving Protocol:
    Before you prep lysates for archiving, please review the protocol that contains a new video link >> HERE << 
    Lysate archives should be shipped to Pitt no later than December 15th. If you must ship your lysates later, wait until after the holiday season.
  • Phage Page on PhagesDB
    Please make a phagesDB entry for your phages once you’ve begun purifying them. Note that phage entries, including phage names, must be approved before archiving. Be sure to pre-approve all names submitted to avoid unnecessary delays! 

3. SEQUENCING:

  • Everything you need to know about phage genome sequencing for this academic year is posted in a separate blogpost, available >> HERE << 

4. ELECTRON MICROSCOPY:

  • Uranyl acetate remains the preferred stain for generating micrographs of phages with high contrast. If you are unable to use uranyl acetate, consider using Uranyless, a cheap and non-regulated stain that can produce good contrast. If you do use alternative stains, please share your experience on the forums.

5. GOVT. SHUTDOWN & GENOME ANNOUNCEMENTS

  • The ongoing government shutdown is impacting the processing of submissions to NCBI, including GenBank and SRA submissions, and consequently also our ability to complete and submit genome announcements for publication. Note, however, that if a GenBank accession number is available, you can submit your genome announcement manuscript for publication at microPublication Biology even if the link is not yet active.

6. ATTENDING SCIENCE EDUCATION MEETINGS

  • If you are planning to attend a science education meeting and are willing to present about SEA-PHAGES, as a poster, talk, or workshop, please sign up at the >> Faculty Opportunities << page on seaphages.org and a member of the SEA team will reach out to you. If approved, HHMI will cover the cost of registration, travel, and lodging.


Our very best,

the SEA Team

 

Sequencing Information: 2025-26

It's fall, who has a phage-related Halloween costume? More importantly, who wants to send us phage DNA to sequence? If you do, please read below for details on sample prep and shipping for this year. (We are also accepting photos of Halloween costumes. ;)

Contact Us/Questions

Please send any questions about the information below to Dan (dar78@pitt.edu) and Becky (rag4@pitt.edu).

Sample Submission Form

Please submit the information about the samples you are sending using this Google Form. This will help us keep track of samples, correct any spelling errors, and make sure your samples are accounted for. Please fill out a copy of this form for each sample you are submitting. The best time to fill it out is as you are getting your shipment packed, so that when your box arrives, we'll already have the information on your phages in our database.

If possible, please add a tracking number in the appropriate place on the form to help ensure all packages are accounted for. Please note whether each sample is a "Priority" or "Backup" in the Notes field, along with any other info we should have.

https://forms.gle/9aHqQyB7mwZqZHyZ8

Quantity

Each SEA-PHAGES school may have two genomes sequenced per Bioinformatics section that it is teaching during the current academic year. That way, each bioinformatics section will have two genomes to annotate if all goes well. We encourage you to send a backup sample or two as well (if you have them) in case any samples fail our QC checks. Please indicate any order of preference for which samples to prioritize, if you have one.

Deadlines

Getting samples in early, if you have them ready, is always appreciated!

Semester Schools

Please send your genomic DNA so that it arrives in Pittsburgh by Tuesday, November 25, 2025.

Quarter Schools

Please send your genomic DNA so that it arrives in Pittsburgh by Wednesday, January 7, 2026.

If you will have trouble meeting these deadlines for any reason, please contact us.

Guidelines for DNA

Buffer

Samples that are resuspended in TE are problematic, since the EDTA may interfere with enzymatic shearing of the DNA. You can resuspend your DNA in Elution Buffer (Tris), T(1/10)E, or in purified water. Avoid repeated freeze/thaw cycles or vortexing to ensure genomic DNA arrives intact.

Amount

We need a minimum of 3 µg (micrograms) of genomic DNA. If you're in the ballpark of this number but not quite there, contact Dan and Becky to see if it's okay.

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 and workable volume. Shipping a volume less than 20 µl is not recommended. 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 genomic dsDNA concentration. Please err on the high side of the amount of DNA you send when possible.

Gel Picture

Please submit—either via email 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).

Labeling

Please clearly label the tubes you are sending with the name of the phage as it appears on PhagesDB. Don't label tubes using student's initials only, or other ambiguous names like "Phage1" or "PittPhage". If possible, put a small circular sticker on the top of the tube and write the phage name only on it.

Shipping

Please ship samples, as described below, for delivery to Pittsburgh on Mon-Thurs. We sometimes have issues with Friday deliveries, and don't want any samples to sit over the weekend.

Also, we are unable to receive samples from Nov 26 to Dec 1, and again from Dec 22 to Jan 2. Please avoid shipping during these times.

Packaging

We prefer standard 1.5-ml 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. If shipping overnight (preferred), you can actually just send the samples at room temperature, as the DNA should be fine for 24 hours in transit. If shipping on a slower schedule, you should use cold packs. Aim for delivery to Pittsburgh on Tuesday-Friday. If shipping near holidays, please check with us about when we'll be around to receive samples.

You can include a packing slip with any information you think we should have about the enclosed phages.

Address

Attn: Dan Russell
University of Pittsburgh
303 Clapp Hall
4249 Fifth Ave
Pittsburgh, PA 15260
(412) 624-6976

Sequencing Additional Samples

We at Pitt aren't set up to sequence extra samples for cost. There are a number of commercial sequencing options out there, but when finding independent sequencing, we strongly recommend Illumina sequencing and a ligation-based prep rather than a tagmentation-based prep.

Archiving Samples

Just a note that archiving samples should be sent to the same address as above, and so if it's convenient to you, you can send DNA samples and archiving samples together in a single box.

Upcoming Events

2026 SEA Symposium

April 24, 2026 to April 26, 2026

2026 SEA Faculty Meeting

May 29, 2026 to June 1, 2026

2026 Phage Discovery Workshop 19A

June 12, 2026 to July 18, 2026

Recent Events

2025 Phage Genomics Workshop

December 12, 2025 to December 16, 2025

2025 Phage Discovery Workshop 18C

July 12, 2025 to July 18, 2025