This Week In Evolution

Nels and Vincent discuss an analysis of the drivers of evolution of SARS-CoV-2 during chronic infections, indicating that a tradeoff exists between antibody evasion and fitness. Hosts: Nels Elde and Vincent Racaniello Click arrow to play Download TWiEVO 79  (103 MB .mp3, 86 min) Subscribe (free): Apple Podcasts, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode SARS-CoV-2 evolution during chronic infection (Nat Med) Letters read on TWiEVO 79 Time stamps by Jolene. Thanks! Science Picks Nels – NASA scientists say images from the Webb telescope nearly brought them to tears Vincent – FDA: Don’t rush a move to change the Covid-19 vaccine composition Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent provide an update on cases of monkeypox, and summarize a biochemical view of three changes in the SARS-CoV-2 spike protein that may balance positive and negative selection. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): Apple Podcasts, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode ECDC monkeypox risk assessment (pdf) Monkeypox virus genomes (Nextstrain) Discussion of monkeypox virus genome sequencing (virological.org) Balancing positive and negative selection in spike protein (Biochem) Time stamps by Jolene. Thanks! Science Picks Nels – Science on the Side podcast by Morgan Nelson and Ty Chiaro  Vincent – Richard Ernst Lecture 2022 Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Alex joins Nels and Vincent to discuss his work which demonstrates that somatic mutation rates scale with lifespan in mammals. Hosts: Nels Elde and Vincent Racaniello Guest: Alex Cagan Subscribe (free): Apple Podcasts, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Somatic mutation and age (Nature) Zombie gene in elephants (TWiEVO 26) Time stamps by Jolene. Thanks! Science Picks Alex – Paper.app Nels – Fifty years since Lewontin’s apportionment of human diversity Vincent – An Exceptional Village Listener Pick Martha – Plagues Upon the Earth by Kyle Harper Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent describe how a single amino acid change can allow E. coli to replace the essential gut symbiont of the stinkbug Plautia stali. Hosts: Nels Elde and Vincent Racaniello Click arrow to play Download TWiEVO 75  (103 MB .mp3, 86 min) Subscribe (free): Apple Podcasts, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Making E. coli an insect mutualist (bioRxiv) Letters read on TWiEVo 76 Time stamps by Jolene. Thanks! Science Picks Nels – Inequality in science and the case for a new agenda Vincent – Foundations of Virology by Fred Murphy Listener Pick Sam – Saturday Morning Breakfast – Evolutionist Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent review isolation of SARS-CoV-2-like viruses from bats in Laos that can replicate in human cells. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): Apple Podcasts, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode SARS-CoV-2 like viruses in bats in Laos (Nature) Vampire vax (TWiV 809) Time stamps by Jolene. Thanks! Science Picks Nels – Erich Jarvis on scientists and public engagement Vincent – Polio type 1 in Africa Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Joe Graves joins Nels and Vincent to discuss his career in evolutionary biology and his recent book that answers questions about race and racism. Hosts: Nels Elde and Vincent Racaniello Guest: Joe Graves Subscribe (free): Apple Podcasts, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode On Racism, Not Race (Amazon) African Americans in evolutionary science (Behav Ecol Sociobiol) Biological variation and the normal (Am J Hum Biol) Time stamps by Jolene. Thanks! Science Picks Nels – Where is Webb? Vincent – Black Microbiologists Association Joe – Biology versus bias Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent review three aspects of SARS-CoV-2: phylogenetics of Omicron, a two-step fitness selection for variants, and putative RNA insertions from host genomes. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Two-step fitness selection for SARS-CoV-2 variants (Cell Rep) Host origins of SARS-CoV-2 genome insertions (Virological) Time stamps by Jolene. Thanks! Science Picks Nels – Plant virus satellite accelerates wing formation in insect Vincent – A plant virus that switched to vertebrates Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent discuss evolutionary evidence for an epidemic of coronavirus infection over 20,000 years ago in East Asia, and reconstruction of the membrane differences between bacteria and Archaea reveals unexpected differences in permeability. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Ancient coronavirus epidemic in East Asia (Curr Biol) Gene-culture coevolution and human evolutionary transition (Proc Roy Soc B) Membrane permeability at the lipid divide (bioRxiv) Time stamps by Jolene. Thanks! Science Picks Nels – Slowed canonical progress in large fields of science Vincent – Virology Live Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent explain a method to calculate the mutation rate of SARS-CoV-2, and the role of a single amino acid change in spike in enhancing fitness of the delta variant and enabling it to out-compete the alpha variant. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode SARS-CoV-2 mutation rate (Genome Biology Evolution) Delta spike change enhances fitness (bioRxiv) Time stamps by Jolene. Thanks! Science Picks Nels – Leading Edge Symposium Vincent – Epidemiological and evolutionary dynamics of SARS-CoV-2 Listener Pick Thomas – The gene’s-eye view of evolution by J. Arvid Ågren Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Carl Zimmer joins Nels to talk about science writing, science communication, viruses, and his new book, On Life’s Edge. Host: Nels Elde Guest: Carl Zimmer Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode On Life’s Edge by Carl Zimmer Time stamps by Jolene. Thanks! Science Picks Nels – Remembrance of Dick Lewontin Carl – From telomere to telomere: the transcriptional and epigenetic state of human repeat elements Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent discuss the identification of novel bat coronaviruses that shed light on the evolution of SARS-CoV-2, dating the first cases of COVID-19 to mid-November 2019, and recovery of deleted genome sequences from early in the Wuhan outbreak. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Identification of novel bat coronaviruses (Cell) Dating first cases of COVID-19 (PLoS Path) Recovery of deleted SARS-CoV-2 sequences (bioRxiv) Time stamps by Jolene. Thanks! Science Picks Nels – The Last—And Only—Foreign Scientist in the Wuhan Lab Speaks Out Vincent – Human Behavior During the Pandemic Is More Important Than Any Covid Variant Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent explain a new method for calculating the most recent common ancestor of SARS-CoV-2, which concludes that the ancestral virus was circulating in October/November 2019, before its first detection in China. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Evolutionary portrait of SARS-CoV-2 (Mol Biol Evolution) Letters read on TWiEVO 68 Time stamps by Jolene. Thanks! Science Picks Nels – Ed Yong pandemic trauma and We’re Not Ready for the Next Pandemic Vincent – Furin cleavage site is not a smoking gun Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent review evidence for recombinant SARS-CoV-2 genomes arising in the B.1.1.7 lineage within the United Kingdom. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Recombination in B.1.1.7 lineage (Virological) CoVariants Letters read on TWiEVO 67 Time stamps by Jolene. Thanks! Science Picks Nels – Mars rover helicopter flight! Vincent – TWiN 17: Worms see the light with Michael Nitabach Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent review a preprint demonstrating that changes in the genomes of the SARS-CoV-2 variants B1.351 and P.1 allow the viruses to reproduce in mouse cells in culture and in laboratory mice. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Tony Schountz on TWiV 668 SARS-CoV-2 variants infect mice (bioRxiv) CoVariants Letters read on TWiEVO 66 Time stamps by Jolene. Thanks! Science Picks Nels – Billion years of plate tectonics Vincent – Sapiens a Graphic History by Yuval Noah Harari Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent review evidence that a single amino acid change in the SARS-CoV-2 spike protein has driven adaptation to humans, followed by an update on the status of variants of concern. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Selective sweep drove SARS-CoV-2 adaptation (bioRxiv) Novel coronavirus haplotypes Letters read on TWiEVO 65 Time stamps by Jolene. Thanks! Science Picks Nels – Radio Garden Vincent – Our World in Data – Coronavirus Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent consider evolution of antibody immunity to SARS-CoV-2, and update the situation on novel virus variants of concern with potentially altered fitness and reactivity with antibodies. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Evolution of SARS-CoV-2 antibodies (Nature) mRNA vaccine-elicited antibodies to variants (bioRxiv) Scott Hensley thread (Twitter) Analysis of B.1.17 lineage (virological) Trevor Bedford thread (Twitter) Andrew Rambaut on variant naming (Twitter) Letters read on TWiEVO 64 Time stamps by Jolene. Thanks! Science Picks Nels – Biden Administration PCAST and The Hill We Climb Vincent – Four inaugural quotations – Lincoln, Roosevelt, Kennedy, Biden Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent wrap up 2020 with a discussion of novel variants of SARS-CoV-2 that have emerged in the United Kingdom and South Africa, how to interpret the rapidly emerging genome sequence data and what to look for in the coming weeks as these variants spread across the globe. Hosts: Nels Elde and Vincent Racaniello Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Preliminary genomic characterization of UK variant (virological) Clinical outcomes of infection with Orf8 variants (Lancet) Global Report Investigating Novel Coronavirus Haplotypes (GRINCH) South African SARS-CoV-2 lineage (medRxiv) Time stamps by Jolene. Thanks! Science Picks Nels – Katalin Karikos’ career and mRNA vaccines Vincent – Reverse Engineering of mRNA vaccine Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Daniel joins Nels and Vincent to discuss his new book on army ants, the wickedest insects ever to roam the planet, and his research on them and clonal raider ants. Hosts: Nels Elde and Vincent Racaniello Guest: Daniel Kronauer Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode This Week in Ants (TWiEVO 13) Raiders of the Lost Orco (TWiEVO 18) Army Ants by Daniel Kronauer Time stamps by Jolene. Thanks! Science Picks Daniel – Desert Navigator by Rüdiger Wehner and Insects of Suriname by Maria Sibylla Merian Nels – NPR Scicommers Vincent – The Vintage Beauty Of Soviet Control Rooms Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

Nels and Vincent discuss an opinion piece on 12 evolutionary insights into how the COVID-19 pandemic is shaping human nature, and prolonged SARS-CoV-2 reproduction in an immunosuppressed patient. Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Links for this episode Microbe.TV on instagram Pandemic exposes human nature (PNAS) Carl Bergstrom calls BS (Twitter) Prolonged SARS-CoV-2 reproduction in patient (J Inf Dis) Letters read on TWiEVO 61 Time stamps by Jolene. Thanks! Science Picks Nels – Scott Edwards bikes across US; support diversity in evolution Vincent – 30 computers sculpture project Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv

On the fifth anniversary of TWiEVO, Nels and Vincent invite 12 evolutionary biologists to describe exciting future directions for the field and their laboratory in the next five years. Hosts: Nels Elde and Vincent Racaniello Guests: Lillian Fritz Laylin, Talia Karasov, Andrew Kern, Sarah Tishkoff, Dmitri Petrov, Nancy Chen, Amanda Larracuente, John McCutcheon, Ambika Kamath, Chip Aquadro, Rebekah Rogers, Yaniv Braindvain, and Harmit Malik Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiEVO Science Picks Nels - Science Mill Virtual Tour and Benefit Vincent - Das Coronavirus summaries Music on TWiEVO is performed by Trampled by Turtles Send your evolution questions and comments to twievo@microbe.tv