Category Archives: Daily

Jessica Garcia Is This Year’s Student Veteran Of The Year

Jessica Garcia is this year’s University of Utah Student Veteran of the Year. Jessica is an undergraduate student in the lab exploring the OFF-layer branches of ON cone bipolar cells in early retinal degeneration.

Jessica came to us by way of service with the US Navy, where she served as an aviation technician before attending the University of Utah.

Congratulations Jessica! We are so proud of you.

Teleworking In Response to COVID-19

The Marclab for Connectomics is immediately implementing teleworking strategies, moving many functions off campus in response to the COVID-19 outbreak/pandemic.

I am feeling fortunate in the much of our work is computational, but we do have a substantial wet lab component in addition to the ultrastructural data capture component.

We are not shutting down completely, yet. All students and postdocs will be working from home.  We have limited capacity to process tissue as only one person at a time will be in the laboratory proper, sectioning, performing immuno procedures, or capturing ultrastructural data.

I will be working intermittently from home and the laboratory office and working to determine where we are at from a personnel standpoint and how we will be impacted by NIH funding decisions. The good news is that NIH, I believe will honor charging salaries to grants, even if we cannot maintain our planned effort.  This means no job losses for the time being.

The COVID-19 outbreak is getting bigger and bigger.  I have cancelled all of my travel for the year to date, including a trip with friends to Lisbon in two weeks to walk around with cameras that I was planning on being the highlight of my year.  Trips to California, Italy, Sweden, and Germany are also off the table, at least through May/June.  ARVO has been cancelled. FASEB has been cancelled.

Why?

– COVID-19 is far more infectious than the flu.

– COVID-19 is far more deadly than the flu. On the order of 300-1000x more deadly. The difference is that it is not as common as the flu… yet.

-Our current Surgeon General just said on the 9th that the outbreak was already “contained”. I don’t even know where to start with this one as it is gross misinformation.

-I am seeing a level of buildup in the outbreak community and in the military that I’ve never seen before. This buildup is stymied by an administration that keeps talking it down. But I’ve never before seen a military response (calling out National Guard units specialized in biowarfare management) for an outbreak. At the same time, there is no coordination between the services that I can see. Navy is not talking with Army for instance, which is bizarre.

-The President has not invoked the Defense Production Act yet… I have no idea why.

-There is nobody at CDC that is coordinating all the information from the individual states as of today. This infrastructure *used* to exist. I don’t know why it is not there and that scares me, and makes me more angry than ever with the Trump administration.

HHS is estimating that a “moderate” outbreak will have 200,000 hospitalizations required for respiratory distress from COVID-19. We only have 100,000 ICU beds total in the United States, and some percentage of those are already in use, being optimized for markets. That looks to me like Italy’s situation right now, and their advanced medical system (among the best in Europe) is starting to fail which is why Italy has just extended their quarantine to the entire country.

-Per the Johns Hopkins dashboard, there is effectively no screening being done in Africa. No screening being done in Russia, with one backchannel report to me of at least 300 active cases in Moscow, but the doctors are not allowed to report it.

-No screening being done in the former Russian republics either.

-In all of India, there are only 43 reported cases. That does not make any sense to me.

-The lack of reporting for an infectious disease that is far more infectious than the flu indicates to me that COVID-19 is already in the population and is already spreading.

-Because it is relatively asymptomatic amongst much of the younger populace, it is not being seen/found. And as such, is a potent vector for spreading rapidly in communities.

-Universities around the country (not just my institution, the University of Utah) are prohibiting travel.

All of this means that if this is in fact as bad as it sounds, then we need to take active measures to limit the spread and the impact upon our healthcare infrastructure that is already going to be strained and we need to flatten the curve.

 

This *feels* very different from previous outbreaks, and the lack of coordination from the White House to CDC and .mil folks is astoundingly disturbing. Don’t forget, back in 2018, the Trump administration shut down the CDC foreign disease outbreak monitoring program.  This was the program that helped monitor foreign disease outbreaks and help define what sequences vaccine makers should use.

We have thus been relying upon WHO for information, and they even offered us primers for COVID-19 to make test kits.  But someone in the Trump administration told the CDC not to take them and we’d develop our own. My information says that those US developed primers had problems recognizing the epitope, and now people want to know *why* we rejected WHO primers. Speculation is that they wanted to use IP from the US made primers to capitalize on those markets.

This is infuriating and another example of why we should not be using economic models to address disease outbreaks, a position I’ve been taking on Twitter for some time now.

The WHO certified this outbreak as a pandemic on the 11th.  I have some real concerns, as some, like the former CDC director are advising that in a worst case scenario, up to 1.6 million Americans could be killed by COVID-19.  My concern is that from his numbers, even if this outbreak is just 1% infectious, and just moderately severe, that means 16,350 possible deaths.  That is not the bad part though. More importantly, 16,350 deaths will likely mean ICU beds are needed, and we only *have* 100k beds in the US.  Additionally, optimal occupancy for intensive care units (ICU) in the United States is accepted to be 70-75%. This means that at 1% infection rate, and moderately severe mortality rates, ALL of our ICU bed capacity could be occupied by COVID-19.  If it is worse, and the numbers from Italy’s example suggest it is, this could reach crisis levels quickly.

For all these reasons, I am taking active measures to reduce the exposure of people in my laboratory and help to reduce pressure on our healthcare systems.

 

Bryan William Jones, PhD

 

Kevin Rapp At TEM1

This is Kevin Rapp, a technician in the lab running some test captures on our original JEOL transmission electron microscope.  This microscope is likely the highest use electron microscope on planet Earth, having been run effectively non-stop for over a decade.  This microscope, purchased through a generous gift from Martha Ann Dumke Healey made possible our entire connectomics initiatives.

From Jonesblog.

 

Becca Pfeiffer At TEM2

This is Becca Pfeiffer setting up a test capture on our new JEOL electron microscope. We’ve customized this scope, like our previous scope, and it is taking us a little while to track down some variables with a piece of equipment this complex and hammer them down. My thanks to Becca, Jamie and Kevin for working through this together.

From Jonesblog.

Tracing Neurodegenerative Disease

This is one of our undergraduates Jeebika Dahal, working to annotate in one of our pathoconnectomics databases.  This work is helping us to understand how neural degenerative disease changes wiring, and corrupts processing in neural systems.  We work in retina, but the principles apply to all neural systems with implications for Alzheimer’s, Parkinson’s, amyotrophic lateral sclerosis, epilepsy, and more.

Originally posted on Jonesblog.

Marclab Off To ARVO2019

The Marclab is off to ARVO 2019 and eager to share some of what we’ve been up to over the past year.  We have undergraduate Jeebika Dahal presenting her work on the AII Amacrine Cell Connectivity Changes In Degenerating Retina on Sunday (see poster B0013 Abstract Number: 551 – B0013).  Undergraduate Selena Wirthlin will present her work on the Comparative Anatomy and Connectivity Of The AII Amacrine Cell In Mouse And Rabbit Retina on Sunday (poster B0010 Abstract Number: 548 – B0010). Undergraduate and US Navy veteran Jessica Garcia will present her work Sunday on OFF-layer Branches Of ON Cone Bipolar Cells In Early Retinal Degeneration (B0017 Abstract Number: 555 – B0017). And postdoc Crystal Sigulinsky will present her work on Coupling Architecture Of The Aii/ON Cone Bipolar Cell Network In Degenerate Retina in a platform presentation on Thursday at 11:15am (Abstract Number: 6441).

We hope to see you there!

Selena Sullivan Wirthlin Annotating Connectomes

One of the undergraduates in the lab, Selena Sullivan has been working on an exciting project in the lab in the realm of comparative anatomy.  She will be presenting this work at this year’s ARVO conference, exploring how different cells of a single type are between species in terms of morphology and synaptic and gap junctional connectivity.

via: Jonesblog

Jessica Garcia Annotating Connectomes

One of the undergraduates in the lab, Jessica Garcia is seen here annotating conectomes in the lab prior to her presentation at this years ARVO conference.  Jessica came to us by way of service with the US Navy, and in our lab is exploring the OFF-layer branches of ON cone bipolar cells in early retinal degeneration.  This is important work as we are unraveling how circuitry in the retina changes in neurodegenerative disease.

via: Jonesblog