Big Biology

How do biologists study the influence of heat on organisms and how can this be applied to the study of climate change? What impacts mountaineer survival at high altitudes?

On this episode of Big Biology, we talk with Professor Emeritus at University of Washington and recently elected member of the National Academy of Sciences, Ray Huey. Ray is well known for his work on the thermal physiology of lizards, but has also worked broadly in physiology, ecology, and evolution. In our conversation with Ray, we first discuss his paper, an “Acynical Guide to Graduate School,” and it ongoing relevance to graduate students. We then talk about his career path into thermal biology, how he became interested in the science of mountaineering, and his philosophy for writing science. 

Art by Keating Shahmehri. Find a transcript of this episode on our website.

Can we predict evolutionary outcomes if we know starting conditions? Do the products of evolution in nature differ from those studied in well-controlled lab experiments?

On this episode, we talk to Katie Peichel, head of the Division of Evolutionary Ecology at the University of Bern, Switzerland, and Andrew Hendry, professor in the Department of Biology at McGill University, Canada. Katie and Andrew are part of a massive research team working on the evolution of threespine sticklebacks as they are reintroduced into lakes in Alaska. Sticklebacks have been a favorite species for evolutionary biologists since almost the origins of modern evolutionary theory. Traits like spine size and lateral plate armor evolve rapidly when populations colonize new habitats, leading populations to barely resemble one another. Unlike traditional evolutionary experiments, which try to infer what occurred in the past, the Alaska  project is tracking in unparalleled detail changes in the phenotypes and genotypes of fish that went into each lake population. 

We talk to Katie and Andrew about the origins of this incredible project, the pros and cons of different approaches to studying evolution, and the need for long-term experimental studies of evolution in the wild. This is the first of a series of episodes we will be doing on the Alaskan research project, so stay tuned!

Cover art: Keating Shahmehri

Can we study evolution in the wild? Are some species “super-evolvers”?

On the episode, we talk with Alison Derry, a professor of biology at the University of Quebec in Montreal, and Andrew Hendry, a professor in the Department of Biology at McGill University, Canada. This episode is the second we’ve done on the team’s work, and Andrew was also a guest on our first episode in the series. This conversation was recorded live in front of an audience at Kenai Peninsula College, in Soldotna, Alaska. 

The college is just a few miles from the lakes where Alison, Andrew, and many of their colleagues and students carry out experiments on threespine sticklebacks. We ask Alison and Andrew about their research on the rapid evolution of these fish, which were recently reintroduced to the lakes, and how the introduction of two distinct stickleback ecotypes are affecting the evolution of zooplankton in the lakes. We also discuss the central position of sticklebacks in the food web and how the sticklebacks are impacting the ecosystems now as well as how they likely impacted the lakes in the evolutionary past. 

Art by Keating Shahmehri. Audio from Hunter Morrison at KDLL. Find a transcript of this episode on our website.

We have finished Season 6 of Big Biology. Learn more about the future of the podcast.

What is mutation bias and how can scientists study it? How does changing a population’s mutation bias influence its evolutionary trajectory?

In this episode, we talk with Deepa Agashe, an Associate Professor at the National Centre for Biological Sciences in Bangalore, India. We first talk with Deepa about mutation bias and how she uses  E. coli to understand it. We then focus on a 2023 PNAS paper about the fitness effects of experimentally changing the mutation bias in E. coli. In this research, Deepa and her team used a strain (MutY) of bacteria containing a mutation that knocks out an important DNA repair enzyme. They then isolated subsequent single mutations produced within both MutY and wildtype lines and studied the fitness effects of those mutations. Surprisingly, more than a third of mutations in the mutant lines were beneficial, and often across several different environments. Zooming out, the big picture is that shifts in mutation bias seem to generate new kinds of mutations that weren’t previously accessible to lineages, and a greater fraction of those may be beneficial in some circumstances.

Art by Keating Shahmehri. Find a transcript of this episode on our website.

This week on Big Biology we're sharing an episode from The Naked Scientists Podcast about how humans lost their tails.

Humans, chimpanzees, gorillas and orangutans do not have tails. It sets us apart from other primates, but suggests that our shared evolutionary ancestors had them. So why did we lose them, and how? Speaking with Chris Smith, from The Naked Scientists Podcast, NYU Grossman School of Medicine's Itai Yanai explains that the way this study began was literally a pain in the "tail" for one of his colleagues...

Credit: The Naked Scientists Podcast

At what levels does causation happen in biology? Are metaphors useful for understanding biology?

In this episode, we talk with Phil Ball, a science writer who was also an editor for the journal Nature for over 20 years. Phil has written over 25 books, but our conversation focuses on his most recent: “How Life Works: A User’s Guide to the New Biology.” In the book, Phil covers a wide-range of topics from cells to proteins to biological agency, and makes the argument that traditional ideas and simplified metaphors in biology often don’t hold up. We talk with Phil about the concept of the selfish gene and unpack what it actually means and when it’s useful. Then we dive into the paradox of how multicellular organisms are composed of multiple levels of agency, yet are complex agents themselves. Phil also discusses the biomedical implications of thinking about cancer as one in many possible states that cells can inhabit across a landscape.

Art by Keating Shahmehri. Find a transcript of this episode on our website.

How should biologists deal with the massive amounts of population genetic data that are now routinely available? Will AIs make biologists obsolete?

In this episode, we talk with Andy Kern, an Associate Professor of Biology at the University of Oregon. Andy has spent much of his career applying machine learning methods in population genetics. We talk with him about the fundamental questions that population genetics aims to answer and about older theoretical and empirical approaches  We then turn to the promise of machine learning methods, which are increasingly being used to estimate population genetic structure, patterns of  migration, and the geographic origins of trafficked samples. These methods are powerful because they can leverage high dimensional genomic data. Andy also talks about the implications of AI and machine learning for the future of biology research. 

Cover Art by Keating Shahmehri. Find a transcript of this episode at our website.

How should we study complex biological networks? How do cells keep time and stay in sync? What does it mean for a network to be resilient?

In this episode, we talk with Rosemary Braun, Associate Professor at Northwestern University in the Department of Molecular Biosciences and a member of the NSF-Simons Center for Quantitative Biology. Rosemary is broadly interested in learning whether “more is different” when it comes to complex molecular networks operating across different temporal and spatial scales. We talk with her about systems approaches to uncovering the “Rules of Life” and about circadian (daily) rhythms. She and her team use machine learning to understand emergent phenomena in networks, with the goal of helping medical professionals target treatments based on an individual patient’s circadian rhythm.

Cover art: Keating Shahmehri. Find a transcript of this episode on our website.

How do biologists strike a productive balance between descriptive natural history and manipulative experiments in the lab or field? Should we bring back species to areas where they’ve gone extinct and what values do we use to make these decisions? What is wildness and how do we cultivate it?

On this episode, we talk with Harry Greene, a herpetologist and adjunct professor of Integrative Biology at the University of Texas at Austin, whose distinguished career has spanned decades. Harry is an E.O. Wilson Award recipient and also received the PEN Literary award for his book, Snakes: The Evolution of Mystery in Nature. In the episode, we talk with Harry about the importance of natural history to biology. We also tackle the topic of rewilding, a type of biological restoration that involves translocating species where they still occur to regions where they no longer are found, in order to restore ecosystem function. Harry talks about how his views on rewilding have changed over time, including how rewilding ourselves could improve our health and happiness

Cover art: Keating Shahmehri. Find a transcript of this episode on our website.