Podcasts about phylogeny

Branching diagram of evolutionary relationships between organisms

  • 71PODCASTS
  • 101EPISODES
  • 52mAVG DURATION
  • ?INFREQUENT EPISODES
  • Apr 10, 2025LATEST
phylogeny

POPULARITY

20172018201920202021202220232024


Best podcasts about phylogeny

Latest podcast episodes about phylogeny

From the Spectrum: Finding Superpowers with Autism
(Re-Release) The Roles of Oxytocin & Vasopressin in the Autistic Phenotype

From the Spectrum: Finding Superpowers with Autism

Play Episode Listen Later Apr 10, 2025 39:16 Transcription Available


In this episode, we explore Oxytocin and Vasopressin's vast roles in Human Biology. We time travel to cover the evolution of the two molecules and learn about their functions with developing and socializing. Oxytocin and Vasopressin are dynamic molecules whereby they are Peptides and Hormones. In addition, we cover previously discussed brain regions and how the molecules work alongside key Neuromodulators like Serotonin and Dopamine.Social Reward https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6214365/Social Reward Requires Oxytocin and Serotonin in Nucleus Accumbens (Parvo Path) https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4091761/Magnocellular and Parvocellular social Information Processing https://www.cell.com/neuron/fulltext/S0896-6273(20)30770-4?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0896627320307704%3Fshowall%3DtrueMagnocellular and Parvocellular https://onlinelibrary.wiley.com/doi/10.1111/jne.12284Meta-Analysis of Intranasal https://pubmed.ncbi.nlm.nih.gov/?term=intranasal+oxytocin+autism&sort=pubdate&filter=pubt.meta-analysishttps://pubmed.ncbi.nlm.nih.gov/33400920/Intranasal Review https://pubmed.ncbi.nlm.nih.gov/38579916/(0:00) Intro; Oxytocin and Vasopressin; Episode Objectives(2:46) Oxytocin and Vasopressin; 700 million year time travel (Phylogeny)(4:12) Peptides and Hormones; Modes of Transmission- Endocrine, Paracrine, Synaptic(6:35) Proteins and Peptides; Amino Acids and Aromatic Amino Acids and Light(8:58) Magnocellular and Parvocellular(12:33) Roles of Oxytocin and Vasopressin and connections to various Brain Regions(22:20) Scientific Literatures(27:12) Oxytocin and Serotonin; 1) Reward Processing, 2) Fear Response, 3) Social-Emotional Processing(30:07) Oxytocin and Dopamine(31:08) Dopamine Receptors(31:37) GABA(33:57) Intranasal Oxytocin(36:08) Take aways from Intranasal Literature(37:24) Biggest Take Away (Magnocellular versus Parvocellular and Intranasal Administration)email: info.fromthespectrum@gmail.com

BioAudio
What is a phylogeny for?

BioAudio

Play Episode Listen Later Feb 10, 2025 20:42


Send us a textIn this episode I"m joined by Bahar Roohshad, an undergraduate student from one of my classes to talk about phylogenetics. What are they? what are they for and how might we use on? 

From the Spectrum: Finding Superpowers with Autism
Biological Energy: Quantum Mechanisms, Water, DHA, and NF-kB

From the Spectrum: Finding Superpowers with Autism

Play Episode Listen Later Dec 16, 2024 35:53


For today's episode, we discussing transferring energy from the environment across our biology. We discuss a few quantum theories, atoms, molecules, water, DHA, and NF-kB. Life on Earth is driven by energy from the environment, and this could be missed with humans, and especially with developmental problems like Autism.Water Podcast 1: Rubin, Kruse, Huberman https://www.youtube.com/watch?v=0lBAcUMGIeI&t=43sWater Podcast 2: Gulhane and Kruse (Light changes the Physics of Water !) https://www.youtube.com/watch?v=l9UbguvfpysWater Podcast 3: Gulhane and Kruse https://www.youtube.com/watch?v=W5w0WainlMMhttps://www.plefa.com/article/S0952-3278(12)00147-0/abstracthttps://pmc.ncbi.nlm.nih.gov/articles/PMC5793004/#:~:text=Electrons%20exist%20in%20all%20matter,role%20in%20oxidation%2Dreduction%20reactions.Quantum-coherent energy transfer: implications for biology and new energy technologies https://pmc.ncbi.nlm.nih.gov/articles/PMC3385675/#:~:text=In%20the%20simplest%20picture%2C%20quantum,transport%20at%20the%20molecular%20scale.Quantum cognition: The possibility of processing with nuclear spins in the brain https://www.sciencedirect.com/science/article/abs/pii/S0003491615003243Role of semiconductivity and ion transport in the electrical conduction of melanin https://www.pnas.org/doi/10.1073/pnas.11199481090:00 Intro0:40 Quantum Biology, Coherence, Thermodynamics, Water, DHA, NF-kB, and transferring energy - Atoms & Molecules2:00 Oxygen and CCO; Mitochondria3:55 Quantum Biology; Environments influence Atoms & Molecules5:50 Coherence & States; Light guides Life on Earth; Light provides Energy after it hits Matter7:16 Modern Human Environments7:41 Quantum Thermodynamics; Melanin, Electrons; Rules9:03 Biophotons, Photons and Lux; Seasonal Impact11:15 Electrons & Mitochondria; Real sources of Energy12:00 Artificial Light versus 280nm-3100nm Light; Big Harma & GLP-1 sidebar14:16 Autism and Loss of Biological Energy; changes in Light15:43 Electrons in Biology; Water; Coherent Domains; Semiconductors17:15 DHA; Electron Efficiency; Cells; Photoreceptors and Converting Energy and Developing Nervous Systems (plural)19:20 Phylogeny of Oxytocin and DHA sidebar; pi-electons; DHA dictates DNA22:40 Jack Kruse Quote23:36 Cells, Tissues, & Synapses; Origins of Autism; DHA roles26:14 Autism and X, Y, Z comorbid conditions (plural); definitions of Autism (modern versus origins), Criteria29:23 DHA takeaways; efficiency31:41 NF-kB; creating the womb and nervous systems; Autism and Orbitofrontal Cortex (OFC)35:06 Reviews/Rating & Contact Info

Tierisch! – Entdeckungsreise in die wilde Welt der Tiere

Heute tauchen wir ab. Zu schwarzen Rauchern und mysteriösen Metallgebilden. Zu Seegurken und Borstenwürmern. Zu Anglerfischen und anderen leuchtenden Wesen. Wir reisen in die Tiefsee. Und so karg es dort auf den schummrigen Aufnahmen von Unterwasserrobotern aussehen mag: In der Dunkelheit wimmelt es nur so von Leben! Ging man bis zur Mitte des 21. Jahrhunderts davon aus, dass dort unten nur vereinzelte, zoologische Kuriositäten überleben können, weiß man heute: Die Artenvielfalt am Grund unserer Meere ist stellenweise mit der tropischer Regenwälder vergleichbar. Erforscht ist von dieser fremden Welt so gut wie nichts. Und doch wollen wir sie ausbeuten: Tiefseebergbau soll Metalle fördern. Mähdrescherartige Maschinen sollen über Jahrmillionen gewachsene Strukturen einsammeln. All das natürlich ohne eine Ahnung davon zu haben, welche Auswirkungen das auf das Ökosystem Tiefsee, aber auch auf unseren Planeten haben könnte.Aber bleiben wir doch lieber bei den schönen und faszinierenden Seiten dieser entlegenen Welt! Und übrigens: Wer jedes Mal, wenn die Worte“Seegurke” und “Manganknolle” fallen, einen Liegestütz macht, hat am Ende der Folge sein Workout absolviert!Weiterführende Links:alle Links zur Show und uns gibt's jetzt hier: linkt.ree/tierischpodcastAuf das Thema sind wir durch unsere Hörerin Elena gekommen, die uns diesen Artikel über Manganknollen schickte: https://www.scinexx.de/news/geowissen/tiefsee-erzeugt-dunklen-sauerstoff/Buch von Frauke: https://www.oekom.de/buch/wal-macht-wetter-9783962384197Mehr zu Bioluminiszenz bei Tierisch! #49 Die große Weichtierrevue: https://shows.acast.com/642c2103dcec3a00114ec45f/663962b955607b00121d92abMehr zum Anglerfisch bei Tierisch! #60 Fataler Sex: https://shows.acast.com/642c2103dcec3a00114ec45f/668c2fb32387098e0478fca9Interview mit Bioluminiszenz-Forscher: https://www.bundesregierung.de/breg-de/aktuelles/biolumineszenz-2019600Diversität an Wal Skeletten: https://www.researchgate.net/publication/279401832_Phylogeny_and_diversity_of_symbionts_from_whale_fall_invertebratesIhr könnt uns unterstützen: https://steadyhq.com/de/tierisch/ Hosted on Acast. See acast.com/privacy for more information.

Mornings with Simi
Full Show: The horror genre beginnings, Genetically lonely in Canada & The origin story of Halloween

Mornings with Simi

Play Episode Listen Later Oct 31, 2024 58:19


-How did horror movies come to haunt us? Guest: Dr. Gary Rhodes, Professor of Media Production at Oklahoma Baptist University -Could BC's deep sea minerals offer cures for illness? Guest: Moronke Harris, Founder of The Imaginative Scientist -Are ghosts real? Guest: Dr. Christopher French, Professor of psychology and Head of the Anomalistic Psychology Research Unit at Goldsmiths, University of London -What are Canada's most genetically lonely animals? Guest: Arne Mooers, Professor of Biodiversity, Phylogeny and Evolution at Simon Fraser University -How prevalent is misinformation in Canada? Guest: Timothy Caulfield, Professor in the Faculty of Law and the School of Public Health and Research Director of the Health Law Institute at the University of Alberta -What is the origin story of Halloween? Guest: Nicole Kilburn, Professor of Anthropology at Camosun College Learn more about your ad choices. Visit megaphone.fm/adchoices

Matters Microbial
Matters Microbial #59: Some (Microbes) Like It Hot—Discussions with the Thermal Biology Institute

Matters Microbial

Play Episode Listen Later Oct 3, 2024 70:09


Matters Microbial #59: Some (Microbes) Like It Hot—Discussions with the Thermal Biology Institute October 3, 2024 Today is an unusual episode of the podcast.  I am visiting four microbiologists in the Thermal Biology Institute at Montana State University of Bozeman, Montana.  They discuss their work exploring the unusual microbes and environments to be found in Yellowstone National Park, ranging from the history of the park to opportunities for undergraduate students, as well as up-to-the-minute research done on the microbial denizens of this microbiological landmark. Host: Mark O. Martin Guests (in order of appearance:): Brent Peyton, Dana Skorupa, Zackary Jay, Anthony Kohtzy Subscribe: Apple Podcasts, Spotify Become a patron of Matters Microbial! Links for this episode A history and overview of Yellowstone National Park. An overview of microbiology in Yellowstone National Park. The story of Yellowstone National Park and PCR. Website for the Thermal Biology Institute. A prior podcast of #MattersMicrobial involving Dr. Roland Hatzenpichler and the research done by several of today's guests. Dr. Peyton's faculty website. Dr. Peyton's laboratory website. Dr. Skorupa's faculty website. A great article on the adventurous REU (Research Experience for Undergraduates) that Dr. Skorupa supervises. Dr. Jay's faculty website. A journal article describing some of Dr. Jay's (and Dr. Kohtz') work. A page including Dr. Kohtz An article describing some of Dr. Kohtz' (and Dr. Jay's) work. Intro music is by Reber Clark Send your questions and comments to mattersmicrobial@gmail.com

Milk Crates and Turntables. A Music Discussion Podcast
Ep. 159 - Lou's Brother And Exploring the Emotional Depths of Nick Cave and Other Great Music Info

Milk Crates and Turntables. A Music Discussion Podcast

Play Episode Listen Later Sep 12, 2024 140:19 Transcription Available


Send us a textWhat happens when a dare to perform in a red Speedo turns into a legendary band memory? In this milestone 100th episode of Milk Crates and Turntables, we trip down memory lane, discussing junior high dances, the formation of early bands like Phylocinium and Phylogeny, and the wild escapades of Anthony, Todd, and Lou. Discover the hilarious origin stories, the brotherly bond between bandmates, and the iconic moments that have shaped their musical journey. With playful banter and amusing anecdotes, this episode is a celebration of camaraderie and the early days of live music.But that's not all—our episode is packed with engaging segments that are bound to keep you entertained. Join us as we debate the merits of guitar solos versus drum solos, and Southern rock versus glam rock, sparking a lively discussion about our favorite musical eras and genres. We get competitive with a music trivia game show, drawing classic vinyl records and reminiscing about hits from legendary labels like Arista and Atlantic. From the creative genius of bands like Blue Öyster Cult to the technical prowess of disco music, there's something for every music enthusiast.Finally, we dive into the melancholic yet powerful world of Nick Cave and the Bad Seeds, focusing on his recent album "Ghosteen" and the emotional depth of his music. We explore the intellectual richness of contemporary artists like PJ Harvey and Steven Wilson, reflecting on how their work adds a timeless layer to our musical landscape. Join us for an episode overflowing with nostalgia, laughter, and an unwavering love for music, as we celebrate our 100th episode with heartfelt appreciation for our loyal listeners and podcast family.

From the Spectrum: Finding Superpowers with Autism
The Roles of Oxytocin and Vasopressin in the Autistic Phenotype

From the Spectrum: Finding Superpowers with Autism

Play Episode Listen Later Jun 24, 2024 39:16


In this episode, we explore Oxytocin and Vasopressin's vast roles in Human Biology. We time travel to cover the evolution of the two molecules and learn about their functions with developing and socializing. Oxytocin and Vasopressin are dynamic molecules whereby they are Peptides and Hormones. In addition, we cover previously discussed brain regions and how the molecules work alongside key Neuromodulators like Serotonin and Dopamine.Social Reward https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6214365/Social Reward Requires Oxytocin and Serotonin in Nucleus Accumbens (Parvo Path) https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4091761/Magnocellular and Parvocellular social Information Processing https://www.cell.com/neuron/fulltext/S0896-6273(20)30770-4?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0896627320307704%3Fshowall%3DtrueMagnocellular and Parvocellular https://onlinelibrary.wiley.com/doi/10.1111/jne.12284Meta-Analysis of Intranasal https://pubmed.ncbi.nlm.nih.gov/?term=intranasal+oxytocin+autism&sort=pubdate&filter=pubt.meta-analysishttps://pubmed.ncbi.nlm.nih.gov/33400920/Intranasal Review https://pubmed.ncbi.nlm.nih.gov/38579916/(0:00) Intro; Oxytocin and Vasopressin; Episode Objectives(2:46) Oxytocin and Vasopressin; 700 million year time travel (Phylogeny)(4:12) Peptides and Hormones; Modes of Transmission- Endocrine, Paracrine, Synaptic(6:35) Proteins and Peptides; Amino Acids and Aromatic Amino Acids and Light(8:58) Magnocellular and Parvocellular(12:33) Roles of Oxytocin and Vasopressin and connections to various Brain Regions(22:20) Scientific Literatures(27:12) Oxytocin and Serotonin; 1) Reward Processing, 2) Fear Response, 3) Social-Emotional Processing(30:07) Oxytocin and Dopamine(31:08) Dopamine Receptors(31:37) GABA(33:57) Intranasal Oxytocin(36:08) Take aways from Intranasal Literature(37:24) Biggest Take Away (Magnocellular versus Parvocellular and Intranasal Administration)email: info.fromthespectrum@gmail.com

Viced Rhino: The Podcast
Ostriches are Weird...Therefore God!

Viced Rhino: The Podcast

Play Episode Listen Later May 10, 2024 47:09


Today, Dr. Todd Wood of the Core Academy of Science, summarizes his list of what I would presume is his best evidence against evolution...and it's not very good.Cards:Evidence for Evolution - Phylogenetics: https://www.youtube.com/watch?v=cf90hGT8ZeAIs it human? Ape? Both? Neither?:https://www.youtube.com/watch?v=G1KDnYlJrJ0Irreducible Complexity PROVES evolution?!?

Intelligent Design the Future
Unraveling the Mess of Arachnid Phylogeny

Intelligent Design the Future

Play Episode Listen Later Apr 24, 2024 38:17


Classifying organisms is an important function of biology. But if phylogenetics is ultimately based on a floundering theory of origins, how helpful is it to our understanding of living things? On this ID The Future, host Andrew McDiarmid and paleoentemologist Gunter Bechly unpack some of the major problems with arachnid phylogeny and its implications for the common descent hypothesis. Source

Herbarium of the Bizarre
Pitcher Plants

Herbarium of the Bizarre

Play Episode Listen Later Apr 12, 2024 7:19


Make sure you celebrate International Plant Appreciation Day tomorrow! Music by James Milor from Pixabay Information provided by: Carnivorous plants: Phylogeny and structural evolution by Victor A. Albert, Stephen E. Williams, & Mark W. Chase (1992) https://doi.org/10.1126/science.1523408 Fluid physico-chemical properties influence capture and diet in Nepenthes pitcher plants by Vincent Bazile, et al. (2015) https://doi.org/10.1093/aob/mcu266 https://www.britannica.com/plant/pitcher-plant https://www.buffalo.edu/news/releases/2023/11/how-carnivorous-Asian-pitcher-plants-acquired-signature-insect-traps.html How a sticky fluid facilitates prey retention in a carnivorous pitcher plant (Nepenthes rafflesiana) by Victor Kang, et al. (2021) https://doi.org/10.1016/j.actbio.2021.04.002 Bait, not reward: CO2-enriched Nepenthes pitchers secrete toxic nectar by Chandni Chandran Lathika, et al. (2023) https://doi.org/10.1101/2023.11.25.568661 https://www.nationalgeographic.com/environment/article/carnivorous-pitcher-plants https://en.wikipedia.org/wiki/Pitcher_plant https://www.worldwildlife.org/magazine/issues/fall-2020/articles/tropical-pitcher-plants-are-beautiful-but-deadly

BJKS Podcast
90. Brian Boyd: The life & works of Vladimir Nabokov, Lolita, and writing biographies

BJKS Podcast

Play Episode Listen Later Jan 19, 2024 100:38 Transcription Available


Brian Boyd is a Distinguished Professor in English and Drama at the University of Auckland. We talk mainly about Vladimir Nabokov: Brian wrote the defining biography on Nabokov (in addition to books on more specific aspects about Nabokov), so we discuss Nabokov's life & work, Brian's approachh to writing biographies, with some hints of the new biography Brian is writing about Karl Popper.BJKS Podcast is a podcast about neuroscience, psychology, and anything vaguely related, hosted by Benjamin James Kuper-Smith.Support the show: https://geni.us/bjks-patreonTimestamps0:00:00: Why this is a special episode for me0:07:02: Nabokov's family & childhood0:15:54: The Russian Revolution, starting in 19170:19:52: Nabokov's study years in Cambridge and emigre years in Berlin in the 1920s and 30s0:30:19: Nabokov's early American years: teaching and butterflies0:35:56: Nabokov's Russian vs English works, and the problem of translations0:41:48: Lolita0:50:13: Pale Fire1:02:46: Nabokov's writing process1:07:26: Nabokov's reception1:10:00: Writing Nabokov's biography: how it started, meeting Nabokov's family, researching and writing, and the responsibility of writing the defining work on someone1:28:26: Which Nabokov book should new readers read first?1:30:58: A book or paper more people should read1:35:03: Something Brian wishes he'd learnt sooner1:38:47: Advice for PhD students/postdocsPodcast linksWebsite: https://geni.us/bjks-podTwitter: https://geni.us/bjks-pod-twtBrian's linksWebsite: https://geni.us/boyd-webBen's linksWebsite: https://geni.us/bjks-webGoogle Scholar: https://geni.us/bjks-scholarTwitter: https://geni.us/bjks-twtReferences and linksThe estate Nabokov inherent and immediately lost in th revolution: https://en.wikipedia.org/wiki/Rozhdestveno_Memorial_EstateAda online, Brian's line-by-line annotations to Nabokov's Ada: https://www.ada.auckland.ac.nz/ Boyd (1985/2001). Nabokov's Ada: The Place of Consciousness. Boyd (1990). Vladimir Nabokov: The Russian Years. Boyd (1991). Vladimir Nabokov: The American Years.Boyd & Pyle (eds) (2000).  Nabokov's Butterflies .Boyd (2001). Nabokov's Pale Fire: The Magic of Artistic Discovery.Grass (1959). Die Blechtrommel.James (1897). What Maisie Knew. Machado de Assis (1882). The Posthumous Memoirs of Brás Cubas. [The 2 new translations are by Thomson-DeVeaux (Penguin Classics), and by Jull Costa & Patterson (Liveright)]Nabokov (1929). The (Luzhin) Defense. Nabokov (1936). Invitation to a Beheading. Nabokov (1947). Bend Sinister. Nabokov (1955). Lolita. Nabokov (1957). Pnin. Nabokov (1962). Pale Fire. Nabokov (1967). Speak, Memory. Nabokov (1969). Ada or Ardor.Tarnowsky (1908). Les femmes homicides. [Nabokov's great-aunt; see also:  Huff-Corzine & Toohy (2023). The life and scholarship of Pauline Tarnowsky: Criminology's mother. Journal of Criminal Justice]Vila, Bell, Macniven, Goldman-Huertas, Ree, Marshall, ... & Pierce (2011). Phylogeny and palaeoecology of Polyommatus blue butterflies show Beringia was a climate-regulated gateway to the New World. Proceedings of the Royal Society B: Biological Sciences.

The Mushroom Hour Podcast
Ep. 165: Underground Fungi in Patagonia - Pedomorphosis & Rethinking Evolution (feat. Dr. Francisco Kuhar)

The Mushroom Hour Podcast

Play Episode Listen Later Nov 14, 2023 80:07


Today on Mushroom Hour we have the pleasure of interviewing Dr. Francisco Kuhar. Dr. Kuhar is a Mycologist specialized in the fungal diversity of gasteroid and ectomycorrhizal fungi and biotechnological applications of fungal enzymes. He has a special interest in the evolutionary biology of sequestrate forms of fungi. Dr. Kuhar is an Associate researcher at CONICET in the Instituto Multidisciplinario de Biologia Vegetal (IMBIV - UNC), curator of Fungi at the CORD Herbarium and one of the leaders of Inommy Labs helping to pioneer a new fungi-based product platform.   TOPICS:    Freud, Linguistics and Life Sciences   Hongos in Patagonia   See the Future in a Spore   Hypogeous & Sequestrate Fungi   Pedomorphosis    Mutations Happening too Fast in the Evolutionary Record   Are We Too Obsessed with Adaptation in Evolutionary Biology?   The Story of Rhizopogon and Suillis     Alan Turing Equations Predicting Biological Forms   Approaching Scientific Questions with an Open Mind   Burning Questions on Underground Fungi   Matching Genetics to Traits in Fungi   Inommy Labs   Fungal Bioprospecting    LINKS:   Francisco Kuhar IG: https://www.instagram.com/franfungi   Innomy Labs: http://innomylabs.com/index.html   Hongos De Argentina: https://hongos.ar/   "Ontogeny and Phylogeny": https://www.hup.harvard.edu/catalog.php?isbn=9780674639416   Turing pattern: https://en.wikipedia.org/wiki/Turing_pattern   Geastrum genus: https://en.wikipedia.org/wiki/Geastrum   

The Dissenter
#860 Carrie Mongle: Hominin Phylogeny, and Micro and Macroevolution

The Dissenter

Play Episode Listen Later Nov 13, 2023 39:51


------------------Support the channel------------ Patreon: https://www.patreon.com/thedissenter PayPal: paypal.me/thedissenter PayPal Subscription 3 Dollars: https://tinyurl.com/ybn6bg9l PayPal Subscription 5 Dollars: https://tinyurl.com/ycmr9gpz PayPal Subscription 10 Dollars: https://tinyurl.com/y9r3fc9m PayPal Subscription 20 Dollars: https://tinyurl.com/y95uvkao   ------------------Follow me on--------------------- Twitter: https://twitter.com/TheDissenterYT   This show is sponsored by Enlites, Learning & Development done differently. Check the website here: http://enlites.com/   Dr. Carrie Mongle is Assistant Professor in the Department of Anthropology at Stony Brook University and the Turkana Basin Institute. She also heads the Mongle Lab. Her research aims to reconstruct the major trends and transitions that characterize hominin diversity and evolution. Her ongoing work toward that goal involves (1) the discovery and description of new hominin fossils from the Turkana Basin in Kenya; (2) quantification of morphological variation; and (3) comprehensive phylogenetic analyses founded on the careful character assessment of both craniodental and postcranial characters.   In this episode, we talk about hominin phylogenetics. We first talk about work done in the Turkana Basin in Kenya. We talk about craniodental and postcranial features looked at when studying human phylogenetics, and changes in hominin dentition. We discuss what we know about hominin phylogeny, and the cases of Ardipithecus ramidus and Australopithecus sediba. We talk about studying microevolution and macroevolution, and how they interact. We talk about the example of primate molars. We discuss the relationship between development and evolution. We talk about how we can best model hominin evolution. Finally, we discuss some unanswered questions in human phylogenetics. -- A HUGE THANK YOU TO MY PATRONS/SUPPORTERS: PER HELGE LARSEN, JERRY MULLER, HANS FREDRIK SUNDE, BERNARDO SEIXAS, OLAF ALEX, ADAM KESSEL, MATTHEW WHITINGBIRD, ARNAUD WOLFF, TIM HOLLOSY, HENRIK AHLENIUS, JOHN CONNORS, FILIP FORS CONNOLLY, DAN DEMETRIOU, ROBERT WINDHAGER, RUI INACIO, ZOOP, MARCO NEVES, COLIN HOLBROOK, PHIL KAVANAGH, SAMUEL ANDREEFF, FRANCIS FORDE, TIAGO NUNES, FERGAL CUSSEN, HAL HERZOG, NUNO MACHADO, JONATHAN LEIBRANT, JOÃO LINHARES, STANTON T, SAMUEL CORREA, ERIK HAINES, MARK SMITH, JOÃO EIRA, TOM HUMMEL, SARDUS FRANCE, DAVID SLOAN WILSON, YACILA DEZA-ARAUJO, ROMAIN ROCH, DIEGO LONDOÑO CORREA, YANICK PUNTER, ADANER USMANI, CHARLOTTE BLEASE, NICOLE BARBARO, ADAM HUNT, PAWEL OSTASZEWSKI, NELLEKE BAK, GUY MADISON, GARY G HELLMANN, SAIMA AFZAL, ADRIAN JAEGGI, PAULO TOLENTINO, JOÃO BARBOSA, JULIAN PRICE, EDWARD HALL, HEDIN BRØNNER, DOUGLAS FRY, FRANCA BORTOLOTTI, GABRIEL PONS CORTÈS, URSULA LITZCKE, SCOTT, ZACHARY FISH, TIM DUFFY, SUNNY SMITH, JON WISMAN, DANIEL FRIEDMAN, WILLIAM BUCKNER, PAUL-GEORGE ARNAUD, LUKE GLOWACKI, GEORGIOS THEOPHANOUS, CHRIS WILLIAMSON, PETER WOLOSZYN, DAVID WILLIAMS, DIOGO COSTA, ANTON ERIKSSON, CHARLES MOREY, ALEX CHAU, AMAURI MARTÍNEZ, CORALIE CHEVALLIER, BANGALORE ATHEISTS, LARRY D. LEE JR., OLD HERRINGBONE, STARRY, MICHAEL BAILEY, DAN SPERBER, ROBERT GRESSIS, IGOR N, JEFF MCMAHAN, JAKE ZUEHL, BARNABAS RADICS, MARK CAMPBELL, TOMAS DAUBNER, LUKE NISSEN, CHRIS STORY, KIMBERLY JOHNSON, BENJAMIN GELBART, JESSICA NOWICKI, LINDA BRANDIN, NIKLAS CARLSSON, ISMAËL BENSLIMANE, GEORGE CHORIATIS, VALENTIN STEINMANN, PER KRAULIS, KATE VON GOELER, ALEXANDER HUBBARD, LIAM DUNAWAY, BR, MASOUD ALIMOHAMMADI, PURPENDICULAR, JONAS HERTNER, URSULA GOODENOUGH, GREGORY HASTINGS, DAVID PINSOF, SEAN NELSON, MIKE LAVIGNE, JOS KNECHT, ERIK ENGMAN, AND LUCY! A SPECIAL THANKS TO MY PRODUCERS, YZAR WEHBE, JIM FRANK, ŁUKASZ STAFINIAK, TOM VANEGDOM, BERNARD HUGUENEY, CURTIS DIXON, BENEDIKT MUELLER, THOMAS TRUMBLE, KATHRINE AND PATRICK TOBIN, JONCARLO MONTENEGRO, AL NICK ORTIZ, AND NICK GOLDEN! AND TO MY EXECUTIVE PRODUCERS, MATTHEW LAVENDER, SERGIU CODREANU, BOGDAN KANIVETS, AND ROSEY!

MULTIVERSES
13| Phylogeny & The Canterbury Tales — Peter Robinson

MULTIVERSES

Play Episode Listen Later Aug 24, 2023 68:59


The physical solidity of books encourages notions of "the text" or "the canonical edition". The challenges to this view from post-modernist thought are well known. But there are other ways in which this model of a static text may fail. Our guest this week is Peter Robinson (my dad!) who takes us through his work on Chaucer's Canterbury Tales. This is a paradigmatic case of a work of literature that defies understanding as fixed text. Originally it would have been read, or performed. What exists now are fragments of transcripts of performances. And copies of those fragments. And copies of copies.Using techniques from phylogenetics, Peter has led efforts to piece together the relationships between these manuscripts. By tracing how transcription errors (or edits) appear to propagate, we can create a family tree of the texts, just as we can trace the propagation of biological traits through generations.Sounds simple? "After 30 years of working on this, we're really just beginning to understand what a representation of a textual tradition using these tools gives us" Peter's academic homepage Peter's article in Nature on The Canterbury Tales (there are not many articles in Nature about Chaucer!) Multiverses home

Biblical Genetics
Human vs Chimp: an honest evaluation of our genetic differences

Biblical Genetics

Play Episode Listen Later Aug 15, 2023 21:11


Several anti-creationists have made a hobby out of attacking creationists. Their best efforts, however, have generally failed. For example, see: Sanford 2013 Critic ignores reality of Genetic Entropy: the author of a landmark book on genomic decay responds to unsustainable criticisms creation.com 7 Mar 2013. Price, Carter, and Sanford 2020, Responding to supposed refutations of genetic entropy from the ‘experts', creation.com, 1 Dec 2020. Unperturbed, "Gutsick Gibbon" has recently tried to discredit Dr Jeffrey Tomkins and his work on human-chimp genetic similarities: "80% Chimpanzee" | The Bogus Creationism of Jeffery Tomkins" 26 May 2023 youtube.com/watch?v=QtTHlqhRQi0. In my analysis of her analysis, I note several flaws in her logic. Note, however, that I deliberately ignored several of her main objections. This was not because I do not have answers, mind you, but because I wanted to focus on the most salient questions. Ignored were questions about why God would have included all the chimp-like non-coding DNA when he made humans and questions about properly weighting samples. The most recent comparison I am aware of claimed 96.6% similarity between humans and chimps: Seaman and Buggs 2020 FluentDNA: nucleotide visualization of whole genomes, annotations, and alignments, Frontiers in Genetics 30;11:292. This comes from the laboratory of Richard Buggs. This is much higher than Tomkins' estimates, that, with one exception, are generally in the 80s. However, I know the first author on that paper, so I called him up to discuss his methods. Sure enough, he used entirely different methodology than earlier work from that same laboratory (which arrived at an estimate of ~85%). To reach the higher percentage similarity, they cut out everything humans and chimps do not share, including the centromeres, telomeres, copy number variations of many annotated genes, and hundreds of thousands of small insertions and deletions that must be included to align the two genomes. This "apples to apples" comparison is fine, as long as everybody acknowledges that the true similarity is necessarily less than 96.6%. Yet, if the percent similarity is much less than 99%, there is no way, mathematically, to explain how so many millions of difference arose in the (imagined) 6.5 million years since our last common ancestor. Additional links: The Waiting Time Problem, BiblicalGenetics.com, 8 Jun 2021. Hierachical clustering complicates baraminiological analysis Carter 2021 Robert Carter gets everything wrong? Responding to even more ridiculous aspersions, creation.com, 10 July 2021. “Dr. Rob Carter Gets Everything Wrong (with Gutsick Gibbon)” 20 May 2021. Sibley and Alquist. 1991. The Phylogeny and Classification of Birds. King and Wilson. 1975. Evolution at two levels in humans and chimpanzees, Science 188(4184):107–116. Moorjani et al. 2016. Variation in the molecular clock of primates, PNAS 113(38):10607–10612. Sibley and Ahlquist. 1984. The phylogeny of the hominoid primates, as indicated by DNA-DNA hybridization, J Mol Evol 20(1):2–15. Sibley, Comstock, and Ahlquist. 1990. DNA hybridization evidence of hominoid phylogeny: a reanalysis of the data, J Mol Evol 30(3):202–36. Wikipedia page on DNA reassociation kinetics. Bergman and Tomkins 2012 Is the human genome nearly identical to chimpanzee?—a reassessment of the literature, Journal of Creation 26(1):54–60, Tomkins and Bergman 2012 Genomic monkey business—estimates of nearly identical human–chimp DNA similarity re-evaluated using omitted data, Journal of Creation 26(1):94–100, Tomkins 2013 Comprehensive analysis of chimpanzee and human chromosomes reveals average DNA similarity of 70%. Answers Research Journal 8:379–390. The version of BLAST he used for this paper had a flaw in the algorithm that only manifested when using extremely large data sets. Tomkins corresponded with the bioinformatics group at the NIH to get the BLAST...

Biblical Genetics
Human vs Chimp: an honest evaluation of our genetic differences

Biblical Genetics

Play Episode Listen Later Aug 15, 2023 21:11


Several anti-creationists have made a hobby out of attacking creationists. Their best efforts, however, have generally failed. For example, see: Sanford 2013 Critic ignores reality of Genetic Entropy: the author of a landmark book on genomic decay responds to unsustainable criticisms creation.com 7 Mar 2013. Price, Carter, and Sanford 2020, Responding to supposed refutations of genetic entropy from the ‘experts', creation.com, 1 Dec 2020. Unperturbed, "Gutsick Gibbon" has recently tried to discredit Dr Jeffrey Tomkins and his work on human-chimp genetic similarities: "80% Chimpanzee" | The Bogus Creationism of Jeffery Tomkins" 26 May 2023 youtube.com/watch?v=QtTHlqhRQi0. In my analysis of her analysis, I note several flaws in her logic. Note, however, that I deliberately ignored several of her main objections. This was not because I do not have answers, mind you, but because I wanted to focus on the most salient questions. Ignored were questions about why God would have included all the chimp-like non-coding DNA when he made humans and questions about properly weighting samples. The most recent comparison I am aware of claimed 96.6% similarity between humans and chimps: Seaman and Buggs 2020 FluentDNA: nucleotide visualization of whole genomes, annotations, and alignments, Frontiers in Genetics 30;11:292. This comes from the laboratory of Richard Buggs. This is much higher than Tomkins' estimates, that, with one exception, are generally in the 80s. However, I know the first author on that paper, so I called him up to discuss his methods. Sure enough, he used entirely different methodology than earlier work from that same laboratory (which arrived at an estimate of ~85%). To reach the higher percentage similarity, they cut out everything humans and chimps do not share, including the centromeres, telomeres, copy number variations of many annotated genes, and hundreds of thousands of small insertions and deletions that must be included to align the two genomes. This "apples to apples" comparison is fine, as long as everybody acknowledges that the true similarity is necessarily less than 96.6%. Yet, if the percent similarity is much less than 99%, there is no way, mathematically, to explain how so many millions of difference arose in the (imagined) 6.5 million years since our last common ancestor. Additional links: The Waiting Time Problem, BiblicalGenetics.com, 8 Jun 2021. Hierachical clustering complicates baraminiological analysis Carter 2021 Robert Carter gets everything wrong? Responding to even more ridiculous aspersions, creation.com, 10 July 2021. “Dr. Rob Carter Gets Everything Wrong (with Gutsick Gibbon)” 20 May 2021. Sibley and Alquist. 1991. The Phylogeny and Classification of Birds. King and Wilson. 1975. Evolution at two levels in humans and chimpanzees, Science 188(4184):107–116. Moorjani et al. 2016. Variation in the molecular clock of primates, PNAS 113(38):10607–10612. Sibley and Ahlquist. 1984. The phylogeny of the hominoid primates, as indicated by DNA-DNA hybridization, J Mol Evol 20(1):2–15. Sibley, Comstock, and Ahlquist. 1990. DNA hybridization evidence of hominoid phylogeny: a reanalysis of the data, J Mol Evol 30(3):202–36. Wikipedia page on DNA reassociation kinetics. Bergman and Tomkins 2012 Is the human genome nearly identical to chimpanzee?—a reassessment of the literature, Journal of Creation 26(1):54–60, Tomkins and Bergman 2012 Genomic monkey business—estimates of nearly identical human–chimp DNA similarity re-evaluated using omitted data, Journal of Creation 26(1):94–100, Tomkins 2013 Comprehensive analysis of chimpanzee and human chromosomes reveals average DNA similarity of 70%. Answers Research Journal 8:379–390. The version of BLAST he used for this paper had a flaw in the algorithm that only manifested when using extremely large data sets. Tomkins corresponded with the bioinformatics group at the NIH to get the BLAST...

Christian Apologetics Research Ministry
Matt Slick Live 08-03-2023

Christian Apologetics Research Ministry

Play Episode Listen Later Aug 5, 2023 48:00


The Matt Slick Live daily radio show broadcast is a production of the Christian Apologetics Research Ministry -CARM-. During the show, Matt answers questions on the air, and offers insight on topics like The Bible, Apologetics, Theology, World Religions, Atheism, and other issues-- The show airs live on the Truth Network, Monday through Friday, 6-7 PM, EST -3-4 PM, PST--You can also email questions to Matt using- info-carm.org, Please put -Radio Show Question- in the Subject line--You can also watch a live stream during the live show on RUMBLE---Time stamps are approximate due to commercials being removed for PODCAST.--Topics include---04- Amillennialism, Revelation- 20- 1-3.-16- Assembly Of God Church, The AOG.-18- Is there a literal 1000 year Millennial reign.-24- Nazarene Church issues.-27- The Assyrian Church of the East, Nestorianism, Hypostatic Union.-35- Phylogeny.

Christian Podcast Community
MSL: August, 3 2023

Christian Podcast Community

Play Episode Listen Later Aug 3, 2023 48:00


The Matt Slick Live daily radio show broadcast is a production of the Christian Apologetics Research Ministry (CARM). During the show, Matt answers questions on the air, and offers insight on topics like The Bible, Apologetics, Theology, World Religions, Atheism, and other issues!  The show airs live on the Truth Network, Monday through Friday, 6-7 PM, EST (3-4 PM, PST) You can also email questions to Matt using: info@carm.org, Please put "Radio Show Question" in the Subject line! You can also watch a live stream during the live show on RUMBLE! MSL: August, 3 2023 Time stamps are approximate due to commercials being removed for PODCAST. Topics include: 04- Amillennialism, Revelation: 20: 1-3. 16- Assembly Of God Church, The AOG. 18- Is there a literal 1000 year Millennial reign. 24- Nazarene Church issues. 27- The Assyrian Church of the East, Nestorianism, Hypostatic Union. 35- Phylogeny. MSL: August, 3 2023 CARM   This show LIVE STREAMS on RUMBLE during the Radio Broadcast! Subscribe to the CARM YouTube Channel Subscribe to the Matt Slick YouTube Channel CARM on Facebook Visit the CARM Website Donate to CARM You can find our past podcast by clicking here!

Matt Slick LIVE
MSL: August, 3 2023

Matt Slick LIVE

Play Episode Listen Later Aug 3, 2023 48:00


The Matt Slick Live daily radio show broadcast is a production of the Christian Apologetics Research Ministry (CARM). During the show, Matt answers questions on the air, and offers insight on topics like The Bible, Apologetics, Theology, World Religions, Atheism, and other issues!  The show airs live on the Truth Network, Monday through Friday, 6-7 PM, EST (3-4 PM, PST) You can also email questions to Matt using: info@carm.org, Please put "Radio Show Question" in the Subject line! You can also watch a live stream during the live show on RUMBLE! MSL: August, 3 2023 Time stamps are approximate due to commercials being removed for PODCAST. Topics include: 04- Amillennialism, Revelation: 20: 1-3. 16- Assembly Of God Church, The AOG. 18- Is there a literal 1000 year Millennial reign. 24- Nazarene Church issues. 27- The Assyrian Church of the East, Nestorianism, Hypostatic Union. 35- Phylogeny. MSL: August, 3 2023 CARM   This show LIVE STREAMS on RUMBLE during the Radio Broadcast! Subscribe to the CARM YouTube Channel Subscribe to the Matt Slick YouTube Channel CARM on Facebook Visit the CARM Website Donate to CARM You can find our past podcast by clicking here!

Notes from a small scientist
Plain language summary: Mapping the phylogeny and lineage history of geographically distinct BCG vaccine strains

Notes from a small scientist

Play Episode Listen Later Aug 1, 2023 12:16


These podcasts are linked to my blog Notes from a small scientist. In this episode, I provide a plain language summary of a paper we recently published, which explores how the differences in the genomes of the bacteria used to make the BCG vaccine, used for over 100 years to prevent tuberculosis, can change how effective it is at preventing disease. All my posts have links to online resources that you might find useful, and you can find the link to this particular post here.

Trap Talk With MJ Podcast
What it's like having a sibling as a business partner | Phylogeny Reptilia

Trap Talk With MJ Podcast

Play Episode Listen Later Mar 14, 2023 120:00


JOIN PATRON FAMILY HERE: https://bit.ly/311x4gxSupport Phylogeny Reptilia : https://www.instagram.com/phylogenyreptilia/SUBSCRIBE TO THE TRAP TALK PODCAST: https://bit.ly/39kZBkZSUBSCRIBE TO TRAP TALK CLIPS:https://www.youtube.com/channel/UCA40BzRi5eeTRPmwY6XSdVASUBSCRIBE TO THE TRAP VLOGS:https://www.youtube.com/channel/UCKxLByAE_Kt06XayYFOxHqLIMITED EDITION TRAP TALK POCKET TEES:thesnaketrapsessions@gmail.comMORPH MARKET STORE: https://www.morphmarket.com/stores/exoticscartal/SUPPORT USARK: https://usark.org/memberships/Follow On IG: Trap Talk Podcast https://bit.ly/2WLXL7w MJExoticsCartal https://bit.ly/3hthAZuUnfiltered Reptiles Podcast https://bit.ly/3eSqAFMSubscribe to Unfiltered Reptiles Podcast: https://bit.ly/2WM11jsListen On Apple:Trap Talk With MJ https://bit.ly/2CVW9Bd Unfiltered Reptiles Podcast https://bit.ly/3jySnhV Listen On Spotify:Trap Talk With MJ https://bit.ly/2WMcKOO Unfiltered Reptiles Podcast https://bit.ly/2ZQ2JCbTRAP TALK w/ MJ BROUGHT TO YOU BY:ALWAYS EVOLVING PYTHONS https://www.instagram.com/alwaysevolvingpythons/FREEDOM BREEDERhttps://www.freedombreeder.com/MARC BAILEY REPTILES https://www.morphmarket.com/stores/marcbailey/SIMS CONTAINER https://www.instagram.com/simcontainer/FOCUS CUBED HABITAT https://www.instagram.com/focuscubedhabitats/RIDICULOUS RHACShttps://www.instagram.com/ridiculousrhacs/TOFAUTI ROYALS OF AFRICA https://www.instagram.com/tofauti_royals/CHIMERA REPTILEShttps://www.instagram.com/chimerareptile/GS REPTILES https://www.instagram.com/gs.reptiles/https://www.youtube.com/@gsreptiles5606CLTCHhttps://cltch.io/https://www.trappodcast.com#ballpythons #newbreederontheblock #coolestreptilepodcastintheworld

Biodiversity Speaks
Upside-Down Trees, Evolution and Phylogeny

Biodiversity Speaks

Play Episode Listen Later Jan 15, 2023 31:31


In this episode of Biodiversity Speaks, Dr. Jonathan Davies speaks about his work in phylogenetics and evolutionary biology. From underground trees to acknowledging the privilege that comes with doing fieldwork abroad, this episode has it all.

(Sort of) The Story
63. Rudyard Kipling? Not cute. (The Mother Goat Episode)

(Sort of) The Story

Play Episode Listen Later Jan 5, 2023 64:22


Happy 2023 everybody! On today's episode Max is going to tell us about a Fairy Princess who loves pot, and Janey is going re-tell John Wick but instead of Keanu Reeves, it's a goat. Enjoy!Max's Sources - The Potted Princess“Victorian Fairy Tales: The Revolt of the Fairies and Elves” by Jack Zipes Free text of Rudyard Kipling's “The Potted Princess” (with image of a grain pot) Janey's Sources - The Episode of the Mother Goat“Folktales from Syria” collected by Samir Tahhan Free PDF of “Folktales From Syria” “Such deep roots you have: How Little Red Riding Hood's tale evolved” by Alan Boyle, Science Editor (2013) The Wolf and the Seven Young Goats wikipedia The Phylogeny of Little Red Riding Hood by Jamshid J. Tehrani Check out our books (and support local bookstores!) on our Bookshop.org affiliate account!Starting your own podcast with your very cool best friend? Try hosting on Buzzsprout (and get a $20 Amazon gift card!)Want more??Visit our website!Join the Discord!Shop the merch at TeePublic!If you liked these stories, let us know on our various socials!InstagramTiktokGoodreadsAnd email us at sortofthestory@gmail.com And a huge thank you to our sound engineer, Keith! Y'know the thing about Keith, he's got... lifeless eyes, black eyes, like a doll's eyes. When he comes at ya, doesn't seem to be livin'... until he bites ya. And those black eyes roll over white, and then... oh, then you hear that terrible high-pitch screamin', the ocean turns red, and spite of all the poundin' and the hollerin', he comes in and he... rips you to pieces. 

Biblical Genetics
Genealogy vs Phylogeny: The War Continues

Biblical Genetics

Play Episode Listen Later Nov 29, 2022 15:35


Mutations are known to occur at much higher rates than can be accounted for in evolutionary theory. Given measurable rates, Y Chromosome Adam and Mitochondrial Eve would have lived only a few thousand years ago. To answer this, evolutionists generally appeal to natural selection or genetic drift. Yet, selection can only remove 'selectable' mutations, and most mutations are necessarily selectively neutral. Also, drift fails to do anything at all in answering the dilemma. In the end, Adam and Eve are recent and there is little anyone can say about it. Notes and links: Carter 2019 A successful decade for Mendel's Accountant Robert Carter gets everything wrong? Rupe and Sanford 2008 USING NUMERICAL SIMULATION TO BETTER UNDERSTAND FIXATION RATES, AND ESTABLISHMENT OF A NEW PRINCIPLE: HALDANE'S RATCHET ReMine 2005 Cost theory and the cost of substitution—a clarification International Conference on Creationism

Biblical Genetics
Genealogy vs Phylogeny: The War Continues

Biblical Genetics

Play Episode Listen Later Nov 29, 2022 15:35


Mutations are known to occur at much higher rates than can be accounted for in evolutionary theory. Given measurable rates, Y Chromosome Adam and Mitochondrial Eve would have lived only a few thousand years ago. To answer this, evolutionists generally appeal to natural selection or genetic drift. Yet, selection can only remove 'selectable' mutations, and most mutations are necessarily selectively neutral. Also, drift fails to do anything at all in answering the dilemma. In the end, Adam and Eve are recent and there is little anyone can say about it. Notes and links: Carter 2019 A successful decade for Mendel's Accountant Robert Carter gets everything wrong? Rupe and Sanford 2008 USING NUMERICAL SIMULATION TO BETTER UNDERSTAND FIXATION RATES, AND ESTABLISHMENT OF A NEW PRINCIPLE: HALDANE'S RATCHET ReMine 2005 Cost theory and the cost of substitution—a clarification International Conference on Creationism

Inside Matters
Episode 007 - Professor Julian Marchesi – microbiome analysis, probiotics, microbial therapeutics, the microbiome in cancer

Inside Matters

Play Episode Listen Later Nov 17, 2022 97:15


This was a wide-ranging and fun conversation that covered a lot of ground. We could have kept going for a lot longer.  Professor Marchesi is an expert on the application of next-generation sequencing technology and novel analytical methods to study microbial ecologies. Our understanding of the microbiome and the genomic potential of the microorganisms within the microbiome has vastly increased due improvements to DNA sequencing technology and associated reductions in the cost of sequencing a genome.  DNA sequencing has allowed us to create inventories of microbiomes based on the source of the sample collected: stool, sputum etc. These inventories allow us to understand datasets generated from research studies. However, Professor Marchesi describes there being microbial ‘dark matter' within the microbiome, in which dark matter is defined as a DNA sequence that has never been definitively linked to a strain of bacteria that has been cultured in a pure culture setting and phenotypically characterised. This is an inherent limitation to our understanding.  There are a variety of technologies and approaches available to study the microbiome beyond using next-generation sequencing technology. They can be broadly described and categorised as ‘omics'. Each of the Omics describes a different technique e.g proteomics (study of proteins) metabolomics (study of metabolites) etc. Researchers combine these techniques to study microbes and ecosystems, but there is still a lot that we do not know. To exemplify this, Professor Marceshi referenced E.coli, the most well-studied microbe on the planet. Despite all of the research that has been conducted to date to characterise E.coli, only 40% of its genome has been mapped to particular functions.  Professor Marchesi and colleagues at Imperial College have pioneered the application of intestinal microbiota transfer (IMT) to different diseases, including recurrent C.difficle infection and patients undergoing treatment for blood cancer. Looking into the future, Professor Marchesi believes that probiotics will be rationally described and selected based on specific microbiome profiles in the intended recipient (s). He also believes that donor screening for IMT will evolve and that robust analysis of the microbiome in patients before and after IMT procedures may reveal clues about the mechanism of action of IMT, which, in turn, may result in the discovery of new drug candidates.  — Some facts from the conversation with Prof Marchesi :  50% of stool biomass is bacteria. It is for this reason that we alternate between being greater or less than 50% human/microbial. They're roughly 150 species in the gut of any person and 1000's different species.  The microbiome has been shown to have an impact on drug metabolism and safety/tolerability/efficacy. There are bacteria that can cause uncontrolled growth in plants - there may be parallels between what happens in plants and what happens in human cells. There are distinct differences between the microbiomes in the small and large intestines, as well as significant differences in immunology. The differences in microbiome profile primarily relate to differences in food sources.  Microbes can be described as factories that produce chemicals and proteins. We know more about chemicals then proteins such as short-chain fatty acids (an energy source for colonocytes acetate, proportionate, butyrate and valerate. Professor Marchesi describes them as anti-inflammatory, anti-proliferative and anti-carcinogenic - i.e they reduce the risk of cancer and help with your mental health. Every one bacteria has ten viruses trying to predate it in the gut. Viruses are the most abundant organism on the planet. There are more viruses on the planet than there are stars in the Universe.  Timecodes: 00:00 Introduction 1:15 Silent retreats and isolation chambers 3:41 Artificial intelligence  6:10 Julian's journey into the microbiome  9:10 Phylogeny and morphology  12:18 Evolution of DNA sequencing  13:40 Personalised medicine   14:51 The human genome project  15:33 Finding your way as a scientist  16:05 Culture-independent approaches and culture approaches  22:08 Dark matter 26:24 Naming bacteria after people 27:30 Omics and gene profiling  30:22 Drug metabolism and microbes  34:51 Is the microbiome the passenger or the driver? 36.06 Colon cancer and cancer in plants  40:24 Intracellular bacteria  41:10 Probiotics including the segment relating to a generic probiotic and IBD drug  45:25 Single strain vs a complex ecosystem  46:26 Small intestine vs large intestine microbiomes  51:29 Probiotics  54:10 Post-antibiotic use microbial therapy 55:52 Donor screening for intestinal microbiota transfer good clip of EnteroBiotix 58:40 where I talk about scale, would be good to clip  1:00:52 Using metabolomics to screen donors  1:01:25 What is metabolomics? 1:03:50 Microbial metabolites  1:05:30 Reverse engineering FMT/IMT 1:06:35 Bariatric surgery 1:08:30 Obesity and food cravings     1:11:06 Maternal transmission and the early life microbiome , also good clip on short-chain fatty acids  1:13:00 Microbial proteins, 10% of world's biomass is below the sea floor and it's bacteria, good clip. Level of the adaptation is really good 1:15:30 Antimicrobial resistance 1:18:00 Fungi in the microbiome  1:19:10 Blastocystis hominis  1:20:50 Phage and fungi in the microbiome 1:29:22 Understanding how IMT / FMT works  

Lionel Nation
Ontogeny Recapitulates Phylogeny

Lionel Nation

Play Episode Listen Later Sep 13, 2022 60:56


The successive recapitulation of societal development (theoretically) remains a constant. If you know what to look for.

The Mushroom Hour Podcast
Ep. 130: Fungal Systematics, Mushroom Ancestry & Recognizing Patterns (feat. Dr. Andrew Wilson)

The Mushroom Hour Podcast

Play Episode Listen Later Jul 18, 2022 100:55


Today on the Mushroom Hour we are honored to be joined by Dr. Andrew Wilson - Assistant Curator of Mycology in the Sam Mitchel Herbarium of Fungi at Denver Botanic Gardens. For Dr. Wilson the discovery of mycology began back in the late 90's at San Francisco State University in taking classes from world renown mushroom taxonomist, Dr. Dennis Desjardin. Working with Dennis, Andrew earned a Masters degree studying the mushroom genus Gymnopus from Java and Bali. He later went on to earn a PhD in the lab of Dr. David Hibbett at Clark University. His project took him back to Southeast Asia, this time to study the ecology and evolution enigmatic puffball genus Calostoma and their relatives. In 2009, Andrew graduated and began a postdoc with Dr. Gregory Mueller at the Chicago Botanic Garden where he explored the systematic evolution of the Cantharellales and the model ectomycorrhizal mushroom genus Laccaria. He also did a one-year postdoc at Purdue University, in the lab of Dr. Cathie Aime, teasing apart the complex evolution of plant pathogenic rust fungi. At Denver Botanic Gardens, Dr. Wilson is working on a regional contribution to the Fungal Diversity Survey (FunDiS) that encompasses the state of Colorado, with a focus on the Southern Rockies. In this effort he is training students on how to study biodiversity using natural history collection and DNA sequence analysis. He is also working on new tools in DNA sequencing to better sample and study fungal diversity.   TOPICS COVERED:   Formed in a Family of Biologists   Intellectual Explorations at San Francisco State University   Genus Gymnopus   Expeditions to Southeast Asia   What are Systematics?   Genus Calostoma   Role of Isotopes in Understanding Fungal Ecologies   Biogeographic Histories of Fungi   Interpreting Ancestry and Evolution in Phylogenetic Data    Gondwana Supercontinent   Finding a Living, Ancient Ancestor on the Lacarria Family Tree    Denver Botanic Gardens & Sam Mitchell Fungi Herbarium   New Methods of High-Throughput DNA Sequencing    Biodiversity & Evolutionary History of Southern Rocky Mountain Fungi   EPISODE RESOURCES:   Dr. Andrew Wilson - Denver Botanic Gardens: https://www.botanicgardens.org/team/profile/andrew-w-wilson-phd   Dr. Dennis Desjardin (Mentor): https://biology.sfsu.edu/faculty/desjardin   Dr. David Hibbet (Mentor): https://www2.clarku.edu/faculty/facultybio.cfm?id=355   Gymnopus (Genus): https://en.wikipedia.org/wiki/Gymnopus   Calostoma (Genus): https://en.wikipedia.org/wiki/Calostoma   Laccaria (Genus): https://en.wikipedia.org/wiki/Laccaria   Calostoma cinnabarinum: https://en.wikipedia.org/wiki/Calostoma_cinnabarinum   Colorado Mycological Society: https://cmsweb.org/   Colorado Mycoflora Project: https://coloradomycoflora.org/   

Arthro-Pod
Arthro-Pod EP 117: The World of Carnivorous Plants Pt. 1

Arthro-Pod

Play Episode Listen Later Jul 14, 2022


 Over the next couple of episodes we are going to be dipping into a different group of life than we usually do, the plants. Mike has been getting back into carnivorous plant rearing and wants to share all he knows about the world of plants that eat bugs. How the tables can turn!    Darwin's drawings of the leaves and tentacles of a sundew (Drosera rotundifolia), Figures 1, 4, and 5 from "Insectivorous Plants" (1897), in the public domain.  Aphids and other small insects caught in the sticky trichomes of Nicotiana insecticida, a newly described species of tobacco from Australia. Photograph by Maarten Christenhusz, Figure 1 in Chase & Lambkin (2021).   Phylogeny angiosperm plants with carnivorous taxa indicated by numbered circles. Illustration by Andreas Fleischmann, in Fleischmann et al. (2017) "Evolution of carnivory in angiosperms" in Ellison & Adamec (eds) "Carnivorous Plants: Physiology, ecology, and evolution".A wetland in Loyalsock State Forest, Lycoming County, Pennsylvania that is home to temperate sundews. Photography by Nicholas_T via Flickr, used under a CC BY 2.0 license.  Tropical swamp in New Caledonia, habitat for Drosera neocaledonica. Photograph by  Boaz Ng via Flickr, used under a CC BY-NC-ND 2.0 license.Utricularia jamesoniana growing as an epiphyte on a tree. Photography by Dr. Alexey Yakovlev via Flickr, used under a CC BY-SA 2.0 licenseUtricularia corunta growing as a dense matt in an aquatic habitat. Photograph by peupleloup via Flickr, used under a CC BY-SA 2.0 license.Catopsis berteroniana in the Florida Everglades growing as an epiphyte in the upper branches of mangrove trees. Photograph by  Scott Zona via Flickr, used under a CC BY-NC 2.0 license.Albany pitcher plant (Cephalotus follicularis) in culture. Photograph by Lucas Arrrrgh via Flickr, used under a CC BY-NC-ND 2.0 license.Wild Nepenthes mirabilis growing in Hong Kong. Photograph by  Boaz Ng via Flickr, used under a CC BY-NC-ND 2.0 license.Nepenthes albomarginata growing from on a cliff side above a beach. This species has white trichomes around the rim of the pitcher that are attractive to foraging termites. Photograph by Bernard DUPONT via Flickr, used under a CC BY-SA 2.0 license.Nepenthes ampularia are a species that have adapted away from carnivory and instead capture leaves that fall from the canopy. Photograph by CIFOR via Flickr, used under a CC BY-NC-ND 2.0 license.A spoon-leaved sundew, Drosera spatulata. This species has a circumboreal distribution with an isolated population also found in the highlands of Borneo. Photograph by  Boaz Ng via Flickr, used under a CC BY-NC-ND 2.0 license.Forked-leaf sundews (Drosera binata) in the wild. Photograph by Doug Beckers via Flickr, used under a CC BY-SA 2.0 license. Oblong-leaved sundews (Drosera intermedia), showing the semi-aquatic habitat of this species. Photograph by Ashley Basil via Flickr, used under a CC BY 2.0 license.Vining sundew showing the round sticky traps along the vine and flowers. Photograph by Jean and Fred Hort via Flickr, used under a CC BY 2.0 license.Wild Venus fly trap in a natural environment. Photograph by NC Wetlands via Flickr, in the public domain.Venus fly traps being sold commercially. Photograph by Mike Mozart via Flickr, used under a CC BY 2.0 license.A waterwheel plant (Aldrovanda vesiculosa), which have snap traps and are closely related to Venus fly traps. This species is at risk in their native range but have been introduced into North America, where they may be invasive. This specimen was photographed at Fort AP Hill in New York, USA. Photograph by the U.S. Government, in the public domain.Individual Aldrovanda nodes showing the whorl of leaves and snap traps. Photograph by David Short via Flickr, used under a CC BY 2.0 license.A young dewy pine (Drosophyllum lusitanicum) grown in culture. While this sticky-leaved plant may look like a sundew, they are only distantly related to one another. Photograph by incidencematrix via Flickr, used under a CC BY 2.0 license.Abundant prey captured by a dewy pine. Photograph by incidencematrix via Flickr, used under a CC BY 2.0 license.Young Triphyophylum plants showing the characteristic wavy primary leaves. Photograph by  Carel Jongkind via iNaturalist, used under a CC BY-NC 4.0 license.Secondary carnivorous leaves of Triphyophylum. Photograph by Lotus-Salvinia.de via Flickr.Tertiary leaves of Triphyophylum, note the the apical hooks. Photograph by  Carel Jongkind via iNaturalist, used under a CC BY-NC 4.0 license. Questions? Comments? Follow the show on Twitter @Arthro_PodshowFollow the hosts on Twitter @bugmanjon, @JodyBugsmeUNL, and @MSkvarla36Get the show through Apple Podcast, Stitcher, Spotify, or your favorite podcatching app!If you can spare a moment, we appreciate when you subscribe to the show on those apps or when you take time to leave a review!Subscribe to our feed on Feedburner!  This episode is freely available on archive.org and is licensed under Creative Commons: By Attribution 3.0. http://creativecommons.org/licenses/by/3.0/

The Phil Ferguson Show

Long chat with AronRa.We talk about electric cars, science, Phylogeny, religion and many other things.Aron Ra's YouTubehttps://www.youtube.com/c/aronra

Credible Faith
Ontogeny Does NOT Recapitulate Phylogeny: Embryology's Failure to Support Universal Common Ancestry (with Casey Luskin) (Clip)

Credible Faith

Play Episode Listen Later Mar 1, 2022 7:51


Casey looks at embryology's failure to provide significant support in favor of the theory of universal common ancestry.

Crime Pays But Botany Doesn't
Legume Phylogeny Dungeon

Crime Pays But Botany Doesn't

Play Episode Listen Later Jan 20, 2022 111:18


The family Fabaceae is one of the most ecologically successful and diverse plant families in the world, especially in arid and subtropical regions. In this episode we talk Legumes - their ecology, floral morphology and evolution - with Marty Wojciechowski at ASU. We talk about the 50kb inversion, psychoactive and poisonous secondary chemistry, subfamily classifications elucidated by molecular phylogenetics, how mimosoids lack Rhizobium root affiliations (bummer) and a bunch more interesting sh#t. Plant in the thumbnail photo is Schotia afra. 

Beautifully Empowered
85: Kirsten Lindsmith - Autism & Neurodiversity ✨

Beautifully Empowered

Play Episode Listen Later Jan 6, 2022 93:30


85: Kirsten Lindsmith - Autism & Neurodiversty ✨ In today's podcast I am joined by Kirsten Lindsmith to talk about Autism and Neurodiversity. Kirsten Lindsmith is an author, artist, consultant, and autism advocate from New York City. After receiving an ASD diagnosis at the age of 19, she began co-hosting the online television show Autism Talk TV and speaking at conferences and events about her experience as a young woman on the spectrum. Kirsten has written columns for Wrong Planet and Autism After 16, and was profiled in The New York Times. Kirsten graduated from the University of Massachusetts Amherst with a degree in Vertebrate Ontogeny and Phylogeny. She currently works as a therapist in partnership with Melody of Autism, and as a consultant for behavioral and sensory needs. In the conversation Kirsten speaks about what Autism is and what it is not. The misconception and stereotypes of Autism. The division between Aspergers and Autism, and the divisions between ‘Low functioning' and ‘high functioning' and its implications. Kirsten also addresses why Autistic women are misdiagnosed with Bipolar, Borderline Personality Disorder, and Schizophrenia, Autism and Empathy and mistaking the autistic individual as sociopathic, masking, cognitive looping and how it refers to Autistics special interests, how autistic traits affect social and romantic relationships, sensory processing disorder, and more. Kirsten also address the overlap of ADHD, OCD, Bipolar and Autism. Kirsten Lindsmiths Blog: https://kirstenlindsmith.com Listen to Kirsten talk about Neurologically Mixed Relationships https://youtu.be/e7TqYkzGaUU If you enjoyed this episode, share on Instagram @amyletitia777 Don't forget if your listening on Apple Podcast, and your benefitting from this podcast in anyway, please leave a review and a 5 star rating (if you feel it's deserved

Crime Pays But Botany Doesn't
Orchid Crash Course - Phylogeny, Taxonomy, Morphology & what the sh1t

Crime Pays But Botany Doesn't

Play Episode Listen Later Dec 21, 2021 149:32


After a 40 minute opening rant, we explore the nuances of the Orchid Family - the most species-rich and diverse family of flowering plants, and we touch on a few of the things that make this family so ecologically successful. This is a good crash course for anybody interested in learning about this plant family and understanding the differences between the five subfamilies Apostasioideae, Vanilloideae, Cypripedioideae, Orchidoideae and the largest subfamily of them all - Epidendroideae. 

The Mushroom Hour Podcast
Ep. 103: Exploring Fungal Taxonomy, Phylogeny & the Future of Conservation (feat. Else Vellinga)

The Mushroom Hour Podcast

Play Episode Listen Later Nov 24, 2021 76:51


Today on the Mushroom Hour Podcast we are honored to be joined by Else Vellinga.  In her career as a mycologist, Else has described 22 new mushroom species in California. Her most recent work is at the University and Jepson Herbaria at UC Berkeley, and at UCSF, on the Microfungi Collections Digitization project. She received her training at the National Herbarium of the Netherlands, and earned her PhD at the University of Leiden (layden).  Additionally, Else is a researcher and professor with the Bruns Laboratory at UC Berkeley. The main motivation for her taxonomic work is that it lays the basis for efforts to include mushroom species in nature management and conservation plans.  She has proposed several species for the International Union for Conservation of Nature (IUCN), a global database of endangered species. She concentrates especially on Lepiotas, or Parasol mushrooms.  Else is an avid knitter and uses mushroom dyed yarn for her creations.   TOPICS COVERED:   Growing up in Netherlands Wilderness  What are Scientific Names Based On?  Importance of Physical Features   Impact of DNA Sequences on Taxonomy  ITS, Multiple Gene Sequence and Whole Genome Phylogenetic Information  Monophyletic vs Paraphyletic Genera  What is Sufficient Difference to Make a New Taxonomic Grouping?  Relationship Between Genera and Clades  How are Names Selected? Does There Need to be a Consensus?  Process of Naming a Species  Potential Taxonomic Shakeups  Fungal Conservation  Fungal Diversity Survey  Official State Mushrooms  Education, Outreach and Awareness Central to Conservation Efforts  EPISODE RESOURCES:   Else Vellinga ResearchGate: https://www.researchgate.net/profile/Else-Vellinga  University and Jepson Herbaria: https://ucjeps.berkeley.edu/  National Herbarium of the Netherlands: https://plants.jstor.org/partner/NHN  Bruns Laboratory: https://nature.berkeley.edu/brunslab/  IUCN Fungi List: https://www.iucn.org/commissions/ssc-groups/plants-fungi/fungi  Global Fungal Redlist Initiative: http://iucn.ekoo.se/en/iucn/welcome  Fungal Diversity Survey (FunDiS): https://fundis.org/  Lepiota (Fungal Genus): https://en.wikipedia.org/wiki/Lepiota  Entoloma (Fungal Genus): https://www.mushroomexpert.com/entoloma.html  Cryptomarasmius (Fungal Genus): https://en.wikipedia.org/wiki/Cryptomarasmius  

The Mushroom Hour Podcast
Ep. 87: Cryptic Fungi, Laboulbeniales & Pushing the Boundaries of Fungal Exploration (feat. Danny Haelewaters PhD)

The Mushroom Hour Podcast

Play Episode Listen Later Jul 8, 2021 75:47


Today on Mushroom Hour we are joined by adventurer and mycologist Danny Haelewaters PhD. Danny Haelewaters holds a Bachelor's in Veterinary Sciences, a Master of Science in biology, and a PhD in Organismic and Evolutionary Biology. During his Masters program he developed a new technology to analyze forensic relevant fungi in casework at the Netherlands Forensic Institute. Between 2012 and 2018, he worked at the Farlow Herbarium of the Harvard University Herbaria (Cambridge, MA) as a PhD student. In 2018, he did a short postdoc at the University of South Bohemia in the Czech Republic, and from November 2018 until late 2020 he was a USDA-funded postdoctoral research assistant at Purdue University, where he worked on characterizing the fungal microbiota of Romaine lettuce. Currently he works at Ghent University as a junior postdoctoral fellow on a project dealing with Laboulbeniales associated with bat flies. In addition, he  writes popular science articles for different sources. Since the very beginning of his student career at Ghent University (Belgium), he has has loved the interdisciplinary research in biology. It probably contributed to his choice to study the ecto-parasitic Laboulbeniales fungus. I'm excited to learn more about these unique organisms as well as the secrets of other little-known parasitic fungi. TOPICS COVERED:From Vet to MycologistFungal Inspiration at the University of GhentDiscovering LaboulbenialesUncovering Phylogeny of Rare, Microscopic FungiBat Fly Research in PanamaTripartite System of Bats, Bat Flies and FungiFuture of Laboulbeniales Research on Bat FliesOther Entomopathogens Including HerpomycesPhysiology of LaboubienialesInvasive Species & "Enemy Release” HypothesisImportance of Conserving Fungal PathogensExploring Laboubeniales as a BioControl AgentDiscovering new Clades of Cryptic Fungal OrganismsUnderstudied Habitats (Romaine Lettuce & Dead Bodies?!)EPISODE RESOURCES:Danny Haelewaters Website: http://www.dannyhaelewaters.com/Danny Haelewaters Twitter: https://twitter.com/dhaelewa/Laboulbeniales (Fungal Order): https://en.wikipedia.org/wiki/LaboulbenialesHerpomyces (Fungal Genus): https://en.wikipedia.org/wiki/HerpomycesBeauveria bassiana (Fungal Species): https://en.wikipedia.org/wiki/Beauveria_bassianaMetarhizium brunneum (Fungal Species Complex):https://en.wikipedia.org/wiki/Metarhizium_brunneumOphiocordyceps (Fungal Genus): https://en.wikipedia.org/wiki/Ophiocordyceps

Whale Facts
Taxonomy 1 – Phylogeny

Whale Facts

Play Episode Listen Later Jun 21, 2021 3:24


From en.wikipedia.org/wiki/Whale

This Week in Virology
TWiV 760: SARS-CoV-2 origins with Peter Daszak, Thea Kølsen Fischer, Marion Koopmans

This Week in Virology

Play Episode Listen Later May 27, 2021 87:52


Peter Daszak, Thea Kølsen Fischer, and Marion Koopmans, members of the WHO team investigating the origins of SARS-CoV-2 join TWiV to explain the work done by the committee during phase one, their conclusions, and the extent of work that remains to be done in phase two. Hosts: Vincent Racaniello, Rich Condit, and Kathy Spindler Guests: Peter Daszak, Thea Kølsen Fischer, and Marion Koopmans Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiV! Links for this episode Peter on TWiV 615, 623 Thea on TWiV 576 Marion on TWiV 413, 548 WHO report on origins of SARS-CoV-2 Timestamps by Jolene. Thanks! Weekly Picks Kathy – My Octopus Teacher Rich – John Wyndam classic Sci Fi: The Chrysalids, The Day of the Triffids Vincent – SARS-CoV-2 Phylogeny and Spatiotemporal Spread (paper) Intro music is by Ronald Jenkees Send your virology questions and comments to twiv@microbe.tv

This Week in Virology
TWiV 760: SARS-CoV-2 origins with Peter Daszak, Thea Kølsen Fischer, Marion Koopmans

This Week in Virology

Play Episode Listen Later May 27, 2021 87:52


Peter Daszak, Thea Kølsen Fischer, and Marion Koopmans, members of the WHO team investigating the origins of SARS-CoV-2 join TWiV to explain the work done by the committee during phase one, their conclusions, and the extent of work that remains to be done in phase two. Hosts: Vincent Racaniello, Rich Condit, and Kathy Spindler Guests: Peter Daszak, Thea Kølsen Fischer, and Marion Koopmans Subscribe (free): iTunes, Google Podcasts, RSS, email Become a patron of TWiV! Links for this episode Peter on TWiV 615, 623 Thea on TWiV 576 Marion on TWiV 413, 548 WHO report on origins of SARS-CoV-2 Timestamps by Jolene. Thanks! Weekly Picks Kathy – My Octopus Teacher Rich – John Wyndam classic Sci Fi: The Chrysalids, The Day of the Triffids Vincent – SARS-CoV-2 Phylogeny and Spatiotemporal Spread (paper) Intro music is by Ronald Jenkees Send your virology questions and comments to twiv@microbe.tv

The Molecular Ecologist Podcast
Darwin Day, a glow-in-the-dark phylogeny, and pandemic PopGroup

The Molecular Ecologist Podcast

Play Episode Listen Later Mar 10, 2021 42:59


In this episode, Stacy Krueger-Hadfield, Kelle Freel, and Rishi De-Kayne chat with Jeremy Yoder about a pandemic-focused Darwin Day symposium, the phylogenetic conservation of a bioluminescence symbiosis, and the online iteration of a venerable population genetics conference. Links to the things we discuss: The UAB Darwin Day event — and online video of the talks The phylogenetics of cardinalfishes, which host light-producing, environmentally acquired symbiotic bacteria Rishi's PopGroup conference interviews The music in this episode is Leroy Anderson's "The Syncopated Clock," performed on piano by Markus Staab and available under a Creative Commons license via Musopen. --- Send in a voice message: https://anchor.fm/molecular-ecologist/message

The APsolute RecAP: Biology Edition
The APsolute Recap: Biology Edition - Phylogeny

The APsolute RecAP: Biology Edition

Play Episode Listen Later Mar 10, 2021 7:40


Join Melanie on a 5K in episode 73. Phylogeny studies the evolutionary history amongst groups of organisms. It tells the story of relatedness, the branches in the road. (1:37). Be careful - just because two organisms are physically adjacent on a diagram, does not mean they are more closely related (4:05). The episode concludes with unit connections and exam tips (5:34).The Question of the Day asks (6:50) Ernst Haeckel coined the phrase “ontogeny recapitulates phylogeny.” What is ontogeny?Thank you for listening to The APsolute RecAP: Biology Edition!(AP is a registered trademark of the College Board and is not affiliated with The APsolute RecAP. Copyright 2021 - The APsolute RecAP, LLC. All rights reserved.)Website:www.theapsoluterecap.comEMAIL:TheAPsoluteRecAP@gmail.comFollow Us:INSTAGRAMTWITTERFACEBOOKYOUTUBE

The Mushroom Hour Podcast
Ep. 66: Madagascar's Marasmius & the Ecology of Monkeyflower Endophytes (feat. Jackie Shay)

The Mushroom Hour Podcast

Play Episode Listen Later Jan 20, 2021 63:53


Today on Mushroom Hour we have the pleasure of learning from Jackie Shay. Jackie is a fungal evolutionary biologist and microbial ecologist fascinated with the intimate history and future significance of symbiotic relationships between plant hosts and their microbial communities. Her goal is to use integrative techniques to explore these interactions in the natural world and learn how we can apply these partnerships to promote conservation and resilience through climate change. Jackie received a master's in Ecology, Evolution, and Conservation Biology from the Desjardin lab at San Francisco State University studying the evolution of wood decaying mushrooms (Marasmius) from Madagascar. She is currently a Ph.D. student in the Sexton and Frank labs in the Quantitative and Systems Biology Program at the University of California, Merced. This interdisciplinary team has set out to uncover the mystery behind the Monkeyflower microbiome and discover whether these microbes influence their plant hosts across its range. Topics Covered: From Urban Dweller to Forest Lover Desjardin Lab at SFSU Marasmius Research in Madagascar Unseen Ecological Importance of Saprobic Fungi Fungal Genetics Importance of "ITS" Region in Fungal Gene Sequencing Discovering New Species of Marasmius Monkeyflower Microbiome Bioinformatics Endophytes Defined Endophytes and Climate Change Mysteries of "Dark" Endophytes We Need More Mycologists! New Pedagogic Career Path & Future Plans Episode Resources:Jackie Shay Website: https://www.jackieshay.com/ Castilleja miniata: https://en.wikipedia.org/wiki/Castilleja_miniataMarasmius (Fungi Genus): https://en.wikipedia.org/wiki/MarasmiusDesjardin Lab SFSU: http://biology.sfsu.edu/people/dennis-desjardin Mimulus "Monkeyflower" (Plant Genus): https://en.wikipedia.org/wiki/MimulusSexton and Frank labs UC Merced: http://sextonlab.ucmerced.edu/ Merced Center for Engaged Teaching and Learning: https://cetl.ucmerced.edu/Cordyceps (Fungi Genus): https://en.wikipedia.org/wiki/Cordyceps

The Mushroom Hour Podcast
Ep. 58: Unwinding Mushroom Mysteries, Decoding Fungal Genetics (feat. Todd Osmundson PhD)

The Mushroom Hour Podcast

Play Episode Listen Later Dec 4, 2020 70:41


Today on Mushroom Hour we have the pleasure of speaking with the distinguished Todd Osmundson PhD, Associate Professor of Biology at The University of Wisconsin Lacrosse. Todd is a faculty member in the Department of Biology and his research specialties include studying the ecology, genetic relationships, geographic distributions, and conservation biology of bacteria and especially fungi, using fieldwork, microscopy, and molecular genetic (DNA-based) tools. His professional mycology career really began during a fateful encounter with a local mushroom club in Montana. Todd has conducted mycological fieldwork in the U.S., French Polynesia, China, Mexico, Costa Rica, Guatemala, Svalbard, Thailand, and Australia. His varied research projects have seen him span alpine, arctic, tropical, and temperate habitats in search of fungi. There are few people more familiar with the process of finding, observing, extracting DNA, and genetically sequencing fungi. Let's learn more about where “we” are in cataloging fungal populations, what that means for mycology and how citizen scientists can be a part of this process. Topics Covered:Seizing Opportunity to Begin a Mycology CareerMorea & French PolynesiaModel Ecosystem Modeling with GeneticsPCR Analysis and SequencingInterpreting Genetic DataChallenges of Identifying Fungal SpeciesWhat are Clades and How Do We Use Them?165 Million Species of Fungi?!MicrosporidiansMysteries of Burn MorelsDifferentiating Individuals with GeneticsFungal Herbarium Collections as Genetic Vaults?Biogeography & Evolutionary HistoryDiversity Surveys & Fungi ConservationEpisode Resources:Todd Osmundson Website: https://www.uwlax.edu/profile/tosmundson/Larry Evans (Inspiration): http://www.montanamushrooms.com/tag/larry-evans/Dr Cathy Cripps (Inspiration): https://plantsciences.montana.edu/alpinemushrooms/investigators/principal.htmlMicrosporidians (fungi): https://en.wikipedia.org/wiki/MicrosporidiaAndy Bruce (student): https://andibruce.com/Alan Rockefeller (Inspiration): https://www.instagram.com/alan_rockefeller/Boletus separans (Mushroom): https://boletes.wpamushroomclub.org/product/xanthoconium-separans/Tylopilus (mushroom): https://en.wikipedia.org/wiki/Tylopilus

Darwin's Deviations
12. Volvox: Corporate Unification of Systematic Multicellularity

Darwin's Deviations

Play Episode Listen Later Nov 25, 2020 67:45


Ever feel the existential dread induced by the realization that you are just another corporate entity from the moment of your inception? Well you should, because you are. ALL OF US ARE! The show gets more philosophical and professional, as today we present you our brand new product: a huge episode, on a huge topic, for the huge fan willing to donate a huge portion of their daily attention, and risk having their brain reprogrammed forever! We will tell you not just the meaning of life, but the meaning of reality itself! And as all great philosophers..we will constantly repeat ourselves and never shut up :) ====================== Diagram 1 Diagram 2 Diagram 3 ====================== Send us suggestions and comments to darwinsdeviations@gmail.com Intro/outro sampled from "Sequence (Mystery and Terror) 3" by Francisco Sánchez (@fanchisanchez) at pixabay.com Sound effects obtained from https://www.zapsplat.com Image Credit Frank Fox, CC BY-SA 3.0 DE, via Wikimedia Commons (Episode image is heavily edited, the image owner reserves all rights to their image, and is not affiliated with our podcast) SOURCES: A LOT of Wikipedia articles I cannot possibly list AlgaeBase: Volvox Linnaeus, 1758 MicrobeWiki: Volvox carteri Umen, James. (2020). Volvox and volvocine green algae. EvoDevo. 11. 10.1186/s13227-020-00158-7. Herron, Matthew & Nedelcu, Aurora. (2015). Volvocine Algae: From Simple to Complex Multicellularity. 10.1007/978-94-017-9642-2_7. Szövényi, Péter & Waller, Manuel & Kirbis, Alexander. (2018). Evolution of the plant body plan. 10.1016/bs.ctdb.2018.11.005. Herron, Matthew & Michod, Richard. (2008). Evolution of Complexity in the Volvocine Algae: Transitions in Individuality Through Darwin's Eye. Evolution; international journal of organic evolution. 62. 436-51. 10.1111/j.1558-5646.2007.00304.x. Herron, Matthew & Hackett, Jeremiah & Aylward, Frank & Michod, Richard. (2009). Triassic origin and early radiation of multicellular volvocine algae. Proceedings of the National Academy of Sciences of the United States of America. 106. 3254-8. 10.1073/pnas.0811205106. Kirk DL. Evolution of multicellularity in the volvocine algae. Curr Opin Plant Biol. 1999;2(6):496-501. doi:10.1016/s1369-5266(99)00019-9 Kirk, David. (2000). Volvox as a Model System for Studying the Ontogeny and Phylogeny of Multicellularity and Cellular Differentiation. Journal of Plant Growth Regulation. 19. 265-274. 10.1007/s003440000039. Domozych, David & Domozych, Catherine. (2014). Multicellularity in green algae: Upsizing in a walled complex. Frontiers in plant science. 5. 649. 10.3389/fpls.2014.00649. Matt, Gavriel & Umen, James. (2016). Volvox: A simple algal model for embryogenesis, morphogenesis and cellular differentiation. Developmental Biology. 419. 10.1016/j.ydbio.2016.07.014. Starr, R.. “Colony Formation in Algae.” (1984).

PaperPlayer biorxiv bioinformatics
BAli-Phy version 3: Model-based co-estimation of Alignment and Phylogeny

PaperPlayer biorxiv bioinformatics

Play Episode Listen Later Oct 10, 2020


Link to bioRxiv paper: http://biorxiv.org/cgi/content/short/2020.10.10.334003v1?rss=1 Authors: Redelings, B. D. Abstract: BAli-Phy is a Markov chain Monte Carlo (MCMC) program that jointly estimates phylogeny, alignment, and other parameters from unaligned sequence data. Version 3 is substantially faster for large trees, and implements covarion models, RNA stem models, and other new models. It implements ancestral state reconstruction, allows prior selection for all model parameters, and can also analyze multiple genes simultaneously. Availability: Software is available for download at http://www.bali-phy.org. C++ source code is freely available on Github under the GPL2 License. Copy rights belong to original authors. Visit the link for more info

PaperPlayer biorxiv bioinformatics
Genome-scale reconstructions to assess metabolic phylogeny and organism clustering

PaperPlayer biorxiv bioinformatics

Play Episode Listen Later Oct 7, 2020


Link to bioRxiv paper: http://biorxiv.org/cgi/content/short/2020.10.07.329516v1?rss=1 Authors: Schulz, C., Almaas, E. Abstract: Approaches for systematizing information of relatedness between organisms is important in biology. Phylogenetic analyses based on sets of highly conserved genes are currently the basis for the Tree of Life. Genome-scale metabolic reconstructions contain high-quality information regarding the metabolic capability of an organism and are typically restricted to metabolically active enzyme-encoding genes. While there are many tools available to generate draft reconstructions, expert-level knowledge is still required to generate and manually curate high-quality genome-scale metabolic models and to fill gaps in their reaction networks. Here, we use the tool AutoKEGGRec to construct $975$ genome-scale metabolic draft reconstructions encoded in the KEGG database without further curation. The organisms are selected across all three domains, and their metabolic networks serve as basis for generating phylogenetic trees. We find that using all reactions encoded, these metabolism-based comparisons give rise to a phylogenetic tree with close similarity to the Tree of Life. While this tree is quite robust to reasonable levels of noise in the metabolic reaction content of an organism, we find a significant heterogeneity in how much noise an organism may tolerate before it is incorrectly placed in the tree. Furthermore, by using the protein sequences for particular metabolic functions and pathway sets, such as central carbon-, nitrogen-, and sulfur-metabolism, as basis for the organism comparisons, we generate highly specific phylogenetic trees. We believe the generation of phylogenetic trees based on metabolic reaction content, in particular when focused on specific functions and pathways, could aid the identification of functionally important metabolic enzymes and be of value for genome-scale metabolic modellers and enzyme-engineers. Copy rights belong to original authors. Visit the link for more info

PaperPlayer biorxiv bioinformatics
Phylogeny of the COVID-19 Virus SARS-CoV-2 by Compression

PaperPlayer biorxiv bioinformatics

Play Episode Listen Later Jul 23, 2020


Link to bioRxiv paper: http://biorxiv.org/cgi/content/short/2020.07.22.216242v1?rss=1 Authors: Vitanyi, P. M. B., Cilibrasi, R. L. Abstract: We analyze the phylogeny and taxonomy of the SARS-CoV-2 virus using compression. This is a new alignment-free method called the "normalized compression distance" (NCD) method. It discovers all effective similarities based on Kolmogorov complexity. The latter being incomputable we approximate it by a good compressor such as the modern zpaq. The results comprise that the SARS-CoV-2 virus is closest to the RaTG13 virus and similar to two bat SARS-like coronaviruses bat-SL-CoVZXC21 and bat-SL-CoVZC4. The similarity is quantified and compared with the same quantified similarities among the mtDNA of certain species. We treat the question whether Pangolins are involved in the SARS-CoV-2 virus. Copy rights belong to original authors. Visit the link for more info

Bob Enyart Live
Real Science Radio on Race and Black Racism

Bob Enyart Live

Play Episode Listen Later Jun 12, 2020


Charles Darwin's theory of evolution dramatically increased the arguments for racism according to Harvard's famed evolutionist Stephen Jay Gould, as The Origin of Species book is subtitled, "Preservation of Favoured Races". Darwin also wrote that "the negro" is closer to "the gorilla" than is the evolutionist's own "civilized" race. * Racist Darwin's Racist Writings: * Darwin Claimed Blacks Are Closer to Apes: Later editions of Darwin's Origin of Species dropped the phrase "Favored Races" from the book's title. But then in his second book, after asking whether man has given rise to races that "must be classed as doubtful species", Darwin ominously wrote: At some future period, not very distant as measured by centuries, the civilised races of man will almost certainly exterminate and replace throughout the world the savage races. At the same time the anthropomorphous apes, as Professor Schaaffhausen has remarked, will no doubt be exterminated. The break [between humans and animals] will then be rendered wider, for it will intervene between man in a more civilised state, as we may hope, than the Caucasian, and some ape as low as a baboon, instead of as at present between the negro... and the gorilla. -Charles Darwin, The Descent of Man, p. 156. * Darwin's Racism Spreads Fast and Furious: A famed 20th-century evolutionist, Harvard's Stephen Jay Gould, admitted: Biological arguments for racism may have been common before 1850, but they increased by orders of magnitude following the acceptance of evolutionary theory. * True White Privilege Given to Whites by Liberals: RSR hosts Bob Enyart and Fred Williams discuss the true white privilege, that our own white children are warned not to be racist while cruelly, black children are told by liberals that they are not able to be racist. That dehumanizing absurdity is a primary reason for the seething and unchecked systemic racism within the black community. Further, the epidemic of black violence is the main reason for tension between overwhelmingly non-racist police departments and the broadly racist black community. Black Lives Matter to the cops but not to Black Lives Matter. So the guys air audio from scholars Heather Mac Donald and Voddie Bacham but not before quoting God's Word, that God "has made from one blood every nation of men to dwell on all the face of the earth..." * Ballotopedia News: Bob was quoted this week by this news outlet in their article, Coloradans will decide a ballot initiative in November that would prohibit abortions after 22 weeks gestational age: Bob Enyart, a spokesman for Colorado Right to Life, told Rewire.News, "Our misguided pro-life allies have presided over decades of regulating child-killing. You don’t regulate crime; you deter crime." * Cops Save Black Lives: The police have saved tens of thousands of black lives which is far more than any other government program or department. "The Police" haven't killed a black man in living memory. "A police officer" or "officers" have rarely unjustifiably killed the innocent. The left's rage would be not one speck less if no police officer had killed any unarmed black over the last thirty years. See also our kgov.com/ways-to-reduce-crime. * See Also Scholar Voddie Baucham on Race:    

Open Metalcast
Open Metalcast Episode #124: Returning We Hear the Metal

Open Metalcast

Play Episode Listen Later Mar 1, 2016


Eight months ago Open Metalcast went on hiatus. The short of it was because my father-in-law was needing more elder care and we needed to shore up resources for his care. Unfortunately he passed away last year. This show is dedicated to him, even though he likely never heard it or knew it existed. We miss you, Dad. So I have eight months to catch up on of sharing Creative Commons Metal Music with you. Let's get started with music from Phylogeny, The Afterthought Ecstasty, Sonus Mortis, Wildernessking, Negative Voice, Akaitsuki, two tracks from EWÏG FROST, and Lèpoka. It's good to be back, though I wish it were under better circumstances. (00:12) Seizure of the Tremoctopus by Phylogeny from Phylogeny (BY-SA) (04:55) Paradoxal Subjugation by First Fragment from The Afterthought Ecstasy (BY-NC) (10:04) The Crypt Of The Death Prophet by Sonus Mortis from War Prophecy (BY-NC-ND) (16:32) With Arms Like Wands by Wildernessking from Mystical Future (BY-NC-ND) (24:47) Limitation by Negative Voice from Limitation [single release] (BY-NC) (30:09) Ryujin by Akaitsuki from Akaitsuki (BY-SA) (34:00) A1-The Railroad to Hell by EWÏG FROST from The Railroad to Hell EP (BY-NC-ND) (36:32) A2- Black Rollin' Thunder Clouds by EWÏG FROST from The Railroad to Hell EP (BY-NC-ND) (41:26) Beerserkers by Lèpoka from Beerserkers [2016 album] (BY-NC-ND) Please support the bands in this show! Buy a T-Shirt, head to the shows, or give them a hug. Whatever you can do to help these bands keep making music, please do it! Also check out the other great podcasts at Metal Injection, as well as news, videos, interviews, reviews and more. If you have any suggestions for Creative Commons licensed metal, send me a link at craig@openmetalcast.com. Open Metalcast #124 (MP3) Open Metalcast #124 (OGG)