F Rosa Rubicondior: Biology
Showing posts with label Biology. Show all posts
Showing posts with label Biology. Show all posts

Monday 29 January 2024

Creationism in Crisis - Something For Creationists to Squawk About - Parrot-Like Dinosaurs from 67 Million Years Before 'Creation Week'


OSU-CHS student discovers new dinosaur species, publishes findings | Oklahoma State University

Between about 67 and 66 million years ago, during a period that geologists call the Maastrichtian, there was a thriving ecosystem of dinosaurs in what is now the Hell Creek formation which spans parts of Montana, Wyoming, and North and South Dakota. We know this because their remains are frequently found in this fossil-rich formation known as the Hell Creek Formation.

The great thing about this formation is the way, as the layers built up, nearby volcanoes periodically spread a layer of ash (or tufa) over it forming neat bands that can be accurately dated using one of the most accurate radiometric dating methods - Uranium-Lead (U-Pb) in zircons. This gives a maximum and minimum age of the fossils found between these layers of tufa.

I wrote about U-Pb dating in a recent blogpost, but for the sake of creationists who are about to squawk "Radiometric dating is false!", I'll expand on what I said here:

Sunday 28 January 2024

Unintelligent Design - How A Virus Saved The Unintelligent Designer's Blushes Early In Multicellular History


A virus that infected animals hundreds of millions of years ago has become essential for the development of the embryo

I've remarked before how similar biological systems are to the machines the late William Heath Robinson designed for solving simple, everyday problems. Simple solutions were eschewed for more complicated ones and unlikely items were used in ways they weren't intended for, such as a grandfather clock standing on a piano to support a platform balanced on top. Everything was held together by pieces of knotted string and labour-saving devices took far more people than would have been needed to do the job more simply.

And yet, the whole contraption worked, or at least looked as though it would if were ever made, but take any part away and the whole thing would fail, in an example of what creationists call 'irreducible complexity'.

So, let's pretend that creationism's, 'intelligent'[sic] designer really is behind the design of living organisms and see how closely Heath Robinson unwittingly parodied it:
Just such an example of a Heath Robinson machine in biology was revealed a few days ago in an open access paper published in Science Advances, explaining how a virus which became incorporated in the genome of an early multicellular organism provided a solution to a problem of the designer's own making. The problem it solves was how to overcome the problem created by choosing the same method of cell replication in multicellular organisms that single-celled organisms use, where the entire genome needs to be replicated at each division.

The entire 'point' of multicellularity, and what gave it its success over single-celled organisms is division of labour, in other words, specialisation, so the organisms can be divided into tissues and organs that perform a specialised task. This means that every cell has to have the potential to carry out every function, in the genes it inherits from its parent cell, yet only a few genes are need for its particular specialty.

The process by which this is achieved is the complicated epigenetic system which turns off unneeded genes as the cells differentiate into different cell lines in the developing embryo, and these settings can't normally be reversed.

However, the sperm and egg which then fused to form the zygote from which a new embryo develops, are themselves specialised cells with all the epigenetic settings of their parent cells with an additional few of their own, and these are inherited by the zygote, so to make cell differentiation possible again, the zygote is quickly (within minutes of fertilisation) reset to a state of totipotency.

So, to overcome the epigenetic settings problem that is a problem of the designer's own making, the zygote needs to be epigenetically reprogrammed and this happens in two stages: first to produce a 'totipotent' cell with the potential to produce all the different cells in the embryo as well as the placenta, umbilical cord, and amniotic sack in which the embryo will develop, and then, soon after cell division begins, 'pluripotent' cells from which the different stem cells for the required specialised cell lines will develop.

How this was helped by a virus is the subject of the paper by researchers from the Spanish National Cancer Research Centre (CNIO), Madrid, Spain. First, a little AI background:

Saturday 27 January 2024

Creationism in Crisis - A Multicellular Organism 1.63 Billion Years Before 'Creation Week'


Fig. 1. Transmitted-light (TL) photomicrographs of Q. magnifica from the Chuanlinggou Formation.
(A to D and K) Filaments with cells of varying length and width. (E) Four-celled filament with hemispherical terminal cell. (F and G) Filament with notably decreasing cell width toward one end. Note that (F) and (G) represent the same specimen; (F) lost the narrowest part of the filament as shown in (G). (H to J) Filaments displaying more uniformity of cell dimensions. (L) Two-celled filament with ovoid terminal cell. All specimens were handpicked from organic residues of acid maceration and photographed in wet mounts, except for (K), which was photographed from a permanent strew mount. Solid and empty gray triangles in (A), (C), and (K) indicate the longest and the shortest cells, respectively, within single filaments. tb, transverse band (interpreted as cross wall); tr, transverse ring (interpreted as partially preserved cross wall). Scale bar, 50 μm [(A) to (E), (I), (J), and (L)] and 100 μm [(F) to (H) and (K)].
Fossils from North China indicate eukaryotes first acquired multicellularity by at 1.63 billion years ago---- Nanjing Institute of Geology and Palaeontology Chinese Academy of Sciences

As though the abundant evidence of life on earth before about 10,000 years ago wasn't bad enough for creationists who believe the Universe and everything in it were was magicked out of nothing in 6 days around about then, a team of scientists led by led by Professor ZHU Maoyan from the Nanjing Institute of Geology and Palaeontology, Chinese Academy of Sciences (NGIPAS), has now pushed the date of oldest-known multicellular, eukaryote organism back another 70 million years to a whapping 1.63 billion years before the supposed 'Creation Week'.

This would mean, if their superstition had any merit that creationists believe Earth has been around for just the last 0.0006% of the time that multicellular eukaryotes have existed on it.

And they wonder why people laugh!

The fossils were discovered in the Yanshan area of North China in the late Paleoproterozoic Chuanlinggou shale Formation which is about 1,635 million years old. The age of the fossils is constrained by a layer of volcanic ash ~40 m above the fossil horizon in the Kuancheng area, which has yielded a U-Pb zircon age of 1634.8 ± 6.9 Ma (23).

All complex life on Earth, including diverse animals, land plants, macroscopic fungi and seaweeds, are multicellular eukaryotes. Therefore, multicellularity is key for eukaryotes to acquire organismal complexity and large size, and often regarded as one major transition in Earth’s life history by scientists. However, it is still poorly understood when eukaryotes first evolved this innovation in their deep evolutionary history.

Fossil records with convincing evidence show that eukaryotes with simple multicellularity already appeared at 1.05 billion years ago, including red and green algae, and putative fungi. Older records claimed to be multicellular eukaryotes, but most of them are controversial due to their simple morphology and lack of cellular structure.

Unintelligent Design - The Unintelligent Evolution of Sea Grasses 100 Million Years Before 'Creation Week'


Little Neptune Grass (Cymodocea nodosa).

Photo: Thorsten Reusch, GEOMAR
Use it or lose it: How seagrasses conquered the sea - GEOMAR - Helmholtz-Zentrum für Ozeanforschung Kiel

Sea grasses are the only flowering plants to become fully submerged, having evolved from three independent lineages some 100 million years ago in fresh water and transitioned into marine plants. This appears to have been facilitated some 86 million years ago by a whole genome tripling, which created plenty of spare DNA which could mutate harmlessly to create new genetic information - something deemed 'impossible' by creationist dogma. Since then, they have undergone further evolutionary adaptation by gene loss - something else that creationist dogma says is impossible.

Now an international group of 38 researchers coordinated by Professor Dr. Yves Van de Peer, Ghent University, Belgium, Professor Dr. Jeanine Olsen, University of Groningen, Netherlands, Professor Dr. Thorsten Reusch, GEOMAR Helmholtz Centre for Ocean Research Kiel, Germany, Dr. Gabriele Procaccini, Stazione Zoologica Anton Dohrn of Napoli, Italy, and the Joint Genome Institute, Berkeley, California, United States of America, sequenced and analyzed the genomes of three of the most important seagrass species – the iconic Mediterranean endemic Neptune grass (Posidonia oceanica), the broadly distributed Little Neptune grass (Cymodocea nodosa) and the Caribbean endemic Turtlegrass (Thalassia testudinum), to discover what evolutionary changes had enabled this transition.

Anyone who has holidayed on the Mediterranean coast may be familiar with the 'Poseidon balls' that wash up on beaches. These example of emergence of order from chaos are the result of the fibrous remains of Poseidon grass leaves being rolled along the seabed at the tidal interface to form long rolls which then break up and get rolled further into balls, as I relate here.

But the question the team addressed was not how the Poseidon balls form but how did the sea grasses evolve? This is the subject of their paper in Nature Plants and a press release from GEOMAR Helmholtz Centre for Ocean Research Kiel, Germany:

Friday 26 January 2024

Closing In On Abiogenesis - How Amino Acids Become Peptides in Water Droplets - No Magic Required


A tripeptide (example Val-Gly-Ala) with green marked amino end (L-valine) and blue marked carboxyl end (L-alanine)
Chemistry professor R. Graham Cooks expands research of water droplet interfaces that offer the secret ingredient for building life - Purdue University Department of Chemistry

One of the puzzles of how the earliest proteins were built from amino acids was that the reaction of joining two amino acids together is a condensation reaction in which a molecule of water is eliminated when the -C-OH of one amino acid binds to the H2N-C- of the other amino acid in what is known as a peptide bond:

-C-OH + H2N-C- → -C-NH-C + H2O;

but how could this happen in an aqueous solution?

In 2022, Professor R. Graham Cooks' team at Purdue University found the answer: It is due to the peculiar properties at the surface of droplets of water. Because of the way electrostatic forces align the water molecules at the surface, it behaves as though it is extremely dry, and highly acidic. These conditions provide the perfect conditions for a condensation reaction to occur, resulting in a peptides.

Droplets of water are everywhere in nature, from the spray of breaking waves, the splash of raindrops, waterfalls, trickling streams to aerosols of water in clouds and fog.

And Professor Cooks's team at Purdue have now shown that these conditions also occur at the macro, centimeter scale as water evaporates on, for example rocks or the margins of hydrothermal pools. They have also shown that these reactions, in the presence of oxazolones (produced by the dehydration of amino acids) preserve the chirality of the peptides so the resulting peptides are 'L' enantiomers, as found in all living organisms.

As the Purdue University press release says:
The study adds to the body of evidence that the surface of water drops represents a uniquely active physical and chemical system. Present are very high electric fields and extreme acidity that drives dehydration of amino acids to form peptides. Studies of the chemistry at water droplet interfaces offer new insights into the early stages of life's chemical evolution.
Significance

This study provides experimental evidence identifying oxazolones as the key intermediates in prebiotic peptide synthesis. These compounds yield the dipeptides upon reaction with water and generate tripeptides in the presence of other amino acids. These key steps in protein formation occur in pure water droplets. Amino acid chirality is preserved in forming the oxazolone and the addition of amino acids during peptide chain extension shows a strong chiral preference, viz. the aqueous droplet chemistry represents a simple route to chirally pure polypeptides. A direct connection between this intermediate and the dipeptide isomer, oxazolidinone, is demonstrated by simple hydration/dehydration. The oxazolone/oxazolidinone-mediated mechanism also occurs in macroscopic wet–dry cycling, establishing a strong connection between macroscopic and microscopic peptide synthesis.

Abstract

Peptide formation from amino acids is thermodynamically unfavorable but a recent study provided evidence that the reaction occurs at the air/solution interfaces of aqueous microdroplets. Here, we show that i) the suggested amino acid complex in microdroplets undergoes dehydration to form oxazolone; ii) addition of water to oxazolone forms the dipeptide; and iii) reaction of oxazolone with other amino acids forms tripeptides. Furthermore, the chirality of the reacting amino acids is preserved in the oxazolone product, and strong chiral selectivity is observed when converting the oxazolone to tripeptide. This last fact ensures that optically impure amino acids will undergo chain extension to generate pure homochiral peptides. Peptide formation in bulk by wet-dry cycling shares a common pathway with the microdroplet reaction, both involving the oxazolone intermediate.

Qiu, Lingqi; Cooks, R. Graham
Oxazolone mediated peptide chain extension and homochirality in aqueous microdroplets
Proceedings of the National Academy of Sciences (PNAS) 121(2). DOI: 10.1073/pnas.2309360120

© 2024 PNAS.
Reprinted under the terms of s60 of the Copyright, Designs and Patents Act 1988.
And so that day that creationist frauds must be dreading, when science finally closes their favourite gap in which to force-fit their ever-shrinking little god finally slams as shut as all the other gaps it used to occupy in the minds of scientifically illiterate believers, gets a little closer. Only yesterday we learned how simple metabolic biochemical cycles can be produced from simple precursors, all of which were present on the pre-biotic Earth and without protein enzymes, and here we see how the proteins that could catalyse and improve those processes could also arise from simple precursors that were also present.

I wonder what disinformation the frauds who feed pseudo-science to the creation cult are preparing for that eventuality.

Ten Reasons To Lose Faith: And Why You Are Better Off Without It

This book explains why faith is a fallacy and serves no useful purpose other than providing an excuse for pretending to know things that are unknown. It also explains how losing faith liberates former sufferers from fear, delusion and the control of others, freeing them to see the world in a different light, to recognise the injustices that religions cause and to accept people for who they are, not which group they happened to be born in. A society based on atheist, Humanist principles would be a less divided, more inclusive, more peaceful society and one more appreciative of the one opportunity that life gives us to enjoy and wonder at the world we live in.

Available in Hardcover, Paperback or ebook for Kindle


What Makes You So Special? From The Big Bang To You

How did you come to be here, now? This books takes you from the Big Bang to the evolution of modern humans and the history of human cultures, showing that science is an adventure of discovery and a source of limitless wonder, giving us richer and more rewarding appreciation of the phenomenal privilege of merely being alive and able to begin to understand it all.

Available in Hardcover, Paperback or ebook for Kindle




Thank you for sharing!








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Malevolent Designer News - How The SARS-CoV-2 Virus Has Been Redesigned to Have Another Go


The emergence of JN.1 is an evolutionary ‘step change’ in the COVID pandemic. Why is this significant?

To anyone but a reality-denying creationist, the SARS-CoV-2 virus that causes COVID-19, is a classic example of evolution by natural selection, as it continually mutates and those mutations that make it more successful are retained, so it continually improves in its ability to infect and be passed on to another victim, so producing more offspring in the virus gene pool than rival versions.

The latest version to gain predominance, JN.1, currently spreading across the world, is yet another variation on the omicron version, which itself ousted delta as the predominant variety. This new improved version may prove to be so different to omicron that is should be given a new Greek letter designation.

One point that shouldn't go unnoticed is that because, unlike the original, the virus now exists in an environment in which most of its potential victims have a degree of immunity to it, either by vaccination or by previous infection. Because that immunity usually means the ability to produce antibodies to the 'spike' proteins on the surface of the virus, most of the mutations of progressively more successful variants are in the genes that code for those proteins - making it more difficult for antibodies to bind to them.

To a creationist, the SARS-CoV-2 virus, like all the other pathological viruses, presents the paradox of trying to believe their putative designer god is the supreme ruler of and creator of everything in, the universe and is the only entity capable of creating biological organisms, but, because it is omnibenevolent, it would not have designed SARS-CoV-2 and would not be responsible for continually redesigning it to continue making us sick, by evading the immune system it supposedly also designed to protect us from viruses and other pathogens.

Curiously, creationists who continually present what they think is evidence of design as evidence for their magic creator on the grounds that it is the only entity capable of biological design, never use evidence of malevolent design as evidence for the same magic creator. That has to be ascribed to another entity with even greater powers than their supposedly supreme-in-all-things god and with the ability to outwit it, even though that claim is blasphemous within their own religious beliefs. They need to hold those two diametrically opposite views of 'creation' simultaneously to continue to deny the evidence for evolution by natural selection of which the SARS-CoV-2 virus is a perfect example.

And those creationists who do actually believe the religion they purport to believe and who won't contemplate blasphemy, have no recourse but to believe that the SARS-CoV-2 virus was not only designed by their putative designer god but that it also regularly updates it to continue making us sick despite the efforts of biomedical scientists, because the alternative it to accept the unthinkable and ascribe it all the a god-free natural process of evolution by natural selection, just as science claims.

The following article by Suman Majumdar, Associate Professor and Chief Health Officer - COVID and Health Emergencies, Burnet Institute; Brendan Crabb, Director and CEO, Burnet Institute; Emma Pakula, Senior Research and Policy Officer, Burnet Institute; and Stuart Turville, Associate Professor, Immunovirology and Pathogenesis Program, Kirby Institute, University of New South Wales, Australia, explains why the emergence of the JN.1 variant of SARS-CoV-2 is a significant evolutionary step change. It is reprinted from The Conversation under a Creative Commons licence, reformatted for stylistic consistency:

Thursday 25 January 2024

Unintelligent Design - How Ovulation Goes Wrong Because It Wasn't Intelligently Designed


Gene expression atlas captures where ovulation can go awry | Cornell Chronicle

Back in the late 1960s and early 1970, in what seems like a different lifetime now, I was a senior research assistant in the Oxford University/MRC Neuroendocrinology Research Unit, researching the hormonal control of ovulation in guinea pigs. Two of our tools were radioimmunoassays I had adapted for measuring extremely low levels of a hormone in guinea pig anterior pituitary glands known as luteinizing hormone (LH), and another similar assay for measuring the level of the steroid progesterone in guinea pig blood.

Sadly, having worked for close on two years towards producing a research paper with hundreds of assay results, thousands of microscope slides, hundreds of electron micrographs and a freezer full of samples waiting to be assayed, the government pulled the rug from under our feet by withdrawing our research funding, and I was made redundant, so my work was never published. Disillusioned and with a young family to support, I left research and perused a career in the NHS Ambulance Service instead - but that's a different story, and not relevant to the subject of this blogpost, which illustrates how much science has progressed in the last 50-60 years.

Researchers are no longer researching the hormonal control of ovulation but the fine details of the genetic control of the process of ovulation at the cell level, and what they've found is that the process is far from intelligently designed by anything resembling a perfect, omniscient, omnipotent designer. It is a process that is so complex that it can, and does, go wrong. An intelligent designer who didn't want random women to be unable to shed viable eggs, could have designed a less complicated process, but you can depend on creationism's putative intelligent[sic] designer to never do something simple when there is a far more complicated and wasteful way to achieve the same result.

The research, published a few days ago in Proceedings of the National Academy of Sciences, was led by Iwijn De Vlaminck, associate professor of biomedical engineering in Cornell Engineering, and Yi Athena Ren, assistant professor of animal science in the College of Agriculture and Life Sciences. The paper’s lead author is Madhav Mantri, Ph.D., now a postdoctoral researcher at Stanford University.

The team used a form of RNA tagging to map the gene expressions that occur during ovarian follicle maturation and ovulation in mice.

This spatial transcriptomics map depicts the cell types of a mouse ovary undergoing hormone-induced ovulation
The research is explained in a Cornell University Press release:

Wednesday 24 January 2024

Malevolent Designer News - How Bacterial Pathogens Are Cleverly Designed to Invade Their Victim's Body


Functional model for Yen-Tc toxicity. Following ingestion of the Tc, it is likely that the surface-bound chitinases bind to and/or degrade the chitin-rich peritrophic membrane of the insect midgut. Cell surface recognition is likely facilitated by motifs within the A subunits prior to internalization. Similarities to the well characterized bacterial binary toxin systems (e.g., anthrax, cholera, diphtheria) suggest a mechanism involving receptor-mediated endocytosis followed by pore formation and translocation of the B and/or C components into the cytosol (I), although alternative mechanisms (e.g., II, III) cannot be ruled out.

Landsberg, MJ., Jones, SA., Rothnagel R., et al (2011)
24-01-18 | Max Planck Institute of Molecular Physiology

Imagine you're in charge of an invading army laying siege to your enemy's outer defences. How do you neutralise them?

One way would be to send a small group of soldiers, packed with high explosives and deadly toxins on a kamikaze mission into the defences, with instructions to detonate their explosives and so spread the toxins when inside to destroy the defences and kill the defenders. You could improve on that by removing any temptation the suicide bombers might have to not detonate their defences by automating the trigger to fire as soon as they encountered the defender.

That's exactly what a team at the Max Planck Institute for Molecular Physiology (MPI MOPH), Dortmund, Germany, have found bacteria use to gain access to their victim’s body and make their hosts sick and die. The team, led by Stefan Raunser, Director of MPI MOPH, have published their findings, open access, in Nature Microbiology. Their work is described in a MPI MOPH press release:

Tuesday 23 January 2024

Creationism in Crisis - Flying Reptiles In The Mendip Hills - 200 Million Years Before 'Creation Week'


Showing partial skeleton of gliding reptile Kuehneosaurus on rock from Emborough.
Credit: David Whiteside
January: Ancient flying reptiles | News and features | University of Bristol

200 million years, give or take a few thousand years, before creationists believe Earth and life on it were all created by magic from nothing in a week, gliding lizard-like reptiles related to ancestral crocodiles, were gliding from tree to tree, and probably hunting flying insects, in what is now the Mendip Hills, near Bristol, UK. The area around Bristol was then an archipelago of islands in a sub-tropical, shallow sea.

Fossil remains of these reptiles were found by University of Bristol Masters student Mike Cawthorne, researching numerous reptile fossils from limestone quarries, in what was then the biggest sub-tropical island at the time, called the Mendip Palaeo-island.

As the Bristol University press release explains:
The study, published today in Proceedings of the Geologists’ Association, also records the presence of reptiles with complex teeth, the trilophosaur Variodens and the aquatic Pachystropheus that probably lived similarly to a modern-day otter likely eating shrimps and small fish.

The animals either fell or their bones were washed into caves and cracks in the limestone.

“All the beasts were small,” said Mike. “I had hoped to find some dinosaur bones, or even their isolated teeth, but in fact I found everything else but dinosaurs.

“The collections I studied had been made in the 1940s and 1950s when the quarries were still active, and palaeontologists were able to visit and see fresh rock faces and speak to the quarrymen.”

Professor Mike Benton, from Bristol’s School of Earth Sciences, explained: “It took a lot of work identifying the fossil bones, most of which were separate and not in a skeleton.

“However, we have a lot of comparative material, and Mike Cawthorne was able to compare the isolated jaws and other bones with more complete specimens from the other sites around Bristol.

“He has shown that the Mendip Palaeo-island, which extended from Frome in the east to Weston-super-Mare in the west, nearly 30 km long, was home to diverse small reptiles feeding on the plants and insects.

“He didn’t find any dinosaur bones, but it’s likely that they were there because we have found dinosaur bones in other locations of the same geological age around Bristol.”

The area around Bristol 200 million years ago in the Late Triassic was an archipelago of small islands set in a warm sub-tropical sea.

Bristol’s Dr David Whiteside added: “The bones were collected by some great fossil finders in the 1940s and 1950s including Tom Fry, an amateur collector working for Bristol University and who generally cycled to the quarries and returned laden with heavy bags of rocks.

“The other collectors were the gifted researchers Walter Kühne, a German who was imprisoned in Great Britain in the 2nd world war, and Pamela L. Robinson from University College London. They gave their specimens to the Natural History Museum in London and the Geological collections of the University of Bristol.”
Abstract

During the Late Triassic and Early Jurassic, the area around Bristol and South Wales was an archipelago of islands occupied by diverse small-sized tetrapods. The largest of these palaeo-islands was Mendip Island, now forming the Mendip Hills, and the location of some famous fossiliferous sites. These sites have not been described in detail before, and we present new data on three of them. Highcroft has yielded only sparse remains of rhynchocephalians, and Batscombe famously the gliding reptile Kuehneosuchus latissimus. Emborough yielded the richest fauna of the three, abundant pseudosuchians including crocodylomorphs as well as the gliding reptile Kuehneosaurus latus, rare trilophosaurs, a probable thalattosaur, rhynchocephalians, and the mammal Kuehneotherium. These include some of the last known taxa of clades that died out in the end-Triassic mass extinction. We report a new taxon of sphenosuchid crocodylomorph similar to Saltoposuchus and a find of Pachystropheus, an aquatic reptile shared with Holwell and the bedded Rhaetian at Blue Anchor Point, Aust and Westbury Garden Cliff. The discovery of a fish vertebra strengthens the model of Emborough fissure filling in a marginal marine location. The Emborough fauna differs from coeval assemblages from Cromhall, Tytherington and Ruthin in the scarcity of sphenodontians and the absence or great rarity of procolophonids as well as the abundance of kuehneosaurids and crocodylomorphs.

1. Introduction

The Triassic (252–201 Ma) was a crucial time in the recovery, restructuring and diversification of vertebrate life (Benton and Wu, 2022). Many modern groups including lissamphibians, turtles, lizards, crocodiles, and mammals originated or diversified in the Late Triassic, part of the process of the recovery of life from the end-Permian mass extinction, but stimulated by the Carnian Pluvial Episode 233–232 Ma, following which climates became more arid, and the new groups, including dinosaurs, had opportunities to diversify (Brusatte et al., 2010; Chen and Benton, 2012; Benton et al., 2014; Bernardi et al., 2018; Dal Corso et al., 2020; Benton 2021; Benton and Wu, 2022).

The end-Triassic mass extinction (ETME), 201 Ma, was probably caused by sharp warming from greenhouse gases erupted by the Central Atlantic Magmatic Province (CAMP), associated with the beginning of rifting and opening of the North Atlantic (Blackburn et al., 2013). The environmental crisis led to widespread extinctions of many tetrapod clades including procolophonids, placodonts, kuehneosaurids, thalattosaurs, allokotosaurians and phytosaurs. Many pseudosuchians such as the rauisuchids also became extinct but the Crocodylomorpha survived leading to the modern living crocodilians. Whether the ETME was a single crisis at the end of the Triassic or began minimally 100 ka before the earliest known eruptions (Davies et al., 2017) is debated. Indeed, there is good evidence for several earlier events, one at the Norian–Rhaetian boundary (Rigo et al., 2020.1) and one equivalent to the middle of the Cotham Member in the British Rhaetian succession (Wignall and Atkinson, 2020.2), both marked by carbon isotope excursions and evidence for substantial loss of marine species. The spacing of these events is entirely dependent on estimates of the duration of the Rhaetian, with its beginning variously dated at 205.7 Ma and 201.7 Ma, making the stage either 4.2 or 0.2 Myr in duration (Maron et al., 2015; Ruhl et al., 2020.3).

These considerations around the importance of the Triassic as a whole, and the Late Triassic in particular, in documenting the origin of modern ecosystems on land and in the sea, as well as the evidence for phased bursts of extinction through the Rhaetian, place fresh importance on understanding the Late Triassic and Early Jurassic fossil faunas found bordering the Bristol Channel, around Bristol and in South Wales. These faunas are preserved across a sub-tropical archipelago (Fig. 1) in fissure fillings, deposits of soil and other debris accumulated in karstic cave systems (Whiteside et al., 2016; Lovegrove et al., 2021.1). First finds were isolated bones of the sauropodomorph dinosaur Thecodontosaurus in the Worrall Road Quarries in Bristol (Riley and Stutchbury, 1836, Riley and Stutchbury, 1840; Ballell et al., 2020.4) and then mammal remains at Holwell Quarry (Moore, 1859), and later recognition by Charles Moore that these were Mesozoic-aged fissures eroded into Carboniferous limestone. The study of the fissures began again in the late 1930s and the 1940s with the work of Walter Kühne and his discoveries of mammal remains at Holwell and elsewhere (Kühne, 1949; Savage, 1993; Whiteside and Duffin, 2017.1; Benton et al., 2024).
Fig. 1. The Bristol palaeo-archipelago, showing island locations in the latest Triassic (early Rhaetian). Overview of the whole area, showing the Mendip Palaeoisland. The blue shallow seas between the islands are areas with deposition of the Westbury beds. Fissure fill localities are marked in red, bone beds in orange. (For interpretation of the references to colour in this figure legend, the reader is referred to the web version of this article.)
Map from Lovegrove et al. (2021.1).
The fissure faunas have been reviewed several times (Robinson, 1957a; Fraser, 1994; Whiteside et al., 2016), and one of the key land masses was the Mendip Palaeoisland (Lovegrove et al., 2021.1), the site of five fossiliferous fissure sites, namely Emborough, Batscombe, Highcroft, Holwell, and Windsor Hill (Fig. 1). These sites have been reported before (Robinson, 1957a; Fraser, 1994) although not extensively, but Emborough has been featured in several publications (Robinson, 1957a, Robinson, 1957.1b, Robinson, 1962) because of the remarkable specimens of kuehneosaurids, also abundantly represented at Batscombe. These unique finds, however, are not replicated at other fossiliferous fissure sites on the Mendip Island, even at Highcroft and Holwell (Fig. 1). Likewise, although Emborough has produced abundant remains of archosauromorphs, these are very rare at Holwell.

Our aim is to document three of the five Mendip Island fissure localities, Emborough, Batscombe, and Highcroft, whose terrestrial assemblages have not been published in detail before, and to present data on geology and taphonomy as well, to allow comparison with the other Late Triassic fissure faunas around Bristol and in South Wales.
Anatomical abbreviations. a, anterior; ac, anterior condyle; ace, acetabulum; amafe, anterior margin of antorbital fenestra; amp, amphicoelous; ampl, amphyplatyan; an, angular; ap, anterior projection; ar, articulation(s); artf, facet for the articular bone; at, attachment; bic, bicapitate; bs, basipterygoid; c capitulum; ca, capitelum; ce, centrum; cfo, coracoid foramen; cn, canal; co, condyle; cx, convex (surface); di, diapophysis; dis, distal; desf, surface contacting dentary; dpc, deltopectoral crest; dor, dorsal; ec, ectopterygoid; ect, ectepicondyle; ent, entepicondyle; er, erupting; fc, fibular contact; fcp, facial process; fct, facet; fl, flat surface; fla, flange; fo, foramen; fos, fossa; gl, glenoid; gr, groove; hd, head; itfe, inferior temporal fenestra; l, lateral; ls, ligament scar; mc, medial condyle; mk, meckelian; ml, midline; ms, muscle scar; ne, neural; palf, facet for the palatine; pc, pleuracrodont; pco, posterior condyle; pozy, postzygapophysis; pr, process; prz, prezygapophysis; pm, prominance; po, posterior; pp, parapophysis; prx, proximal; rid, ridge(s); saf, surangular facet; sar, sacral rib; sc, supinator crest; ser, serrations; sf, surface; sh, shallow; slf, shelf; sp, spine; spl, splenial; stfe, superior temporal fenestra; sut, suture; t tuberculum; th, tooth (teeth); tb, tubercle; tc, trochlear groove; tcn, tibia contact; tr, trochanter; tv, transverse; ven, ventral; vmaf, ventral margin for adductor fossa; wr, wear; zy, zygapophysis.

Institutional acronyms. AMNH, American Museum of Natural History, New York, USA; BRSMG, Bristol Museum and Art Gallery, Bristol; BRSUG, University of Bristol, Geology Collection; NHMUK, Natural History Museum, London; SMNS, State Museum of Natural History Stuttgart, Germany; TTU, Museum of Texas Tech University, Lubbock; UCMP, University of California Museum of Palaeontology; UNC, Department of Geological Sciences, University of North Carolina at Chapel Hill.


Cawthorne, Michael; Whiteside, David I.; Benton, Michael J.
Latest Triassic terrestrial microvertebrate assemblages from caves on the Mendip palaeoisland, S.W. England, at Emborough, Batscombe and Highcroft Quarries
Proceedings of the Geologists' Association (2024) S0016787823000998. DOI:10.1016/j.pgeola.2023.12.003

Copyright: © 2024 The authors.
Published by Elsevier B.V., Open access.
Reprinted under a Creative Commons Attribution 4.0 International license (CC BY 4.0)
But then what did the authors of Genesis know about the climate in, and location of, what is now south-east England 200 million years earlier, when they didn't even know about Europe and thought Earth was small, flat and just a few thousand years old? This is why so much of it is now having to be reclassified as 'allegorical' or 'metaphorical' by mainstream Christians, leaving only a dwindling cult of fruitloop fanatics still believe it is the inerrant word of an omniscient creator god, laughable though that demonstrably absurd, childish notion is.

Ten Reasons To Lose Faith: And Why You Are Better Off Without It

This book explains why faith is a fallacy and serves no useful purpose other than providing an excuse for pretending to know things that are unknown. It also explains how losing faith liberates former sufferers from fear, delusion and the control of others, freeing them to see the world in a different light, to recognise the injustices that religions cause and to accept people for who they are, not which group they happened to be born in. A society based on atheist, Humanist principles would be a less divided, more inclusive, more peaceful society and one more appreciative of the one opportunity that life gives us to enjoy and wonder at the world we live in.

Available in Hardcover, Paperback or ebook for Kindle


What Makes You So Special? From The Big Bang To You

How did you come to be here, now? This books takes you from the Big Bang to the evolution of modern humans and the history of human cultures, showing that science is an adventure of discovery and a source of limitless wonder, giving us richer and more rewarding appreciation of the phenomenal privilege of merely being alive and able to begin to understand it all.

Available in Hardcover, Paperback or ebook for Kindle




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Creationism in Crisis - Hagfish Genome Shows How Genetic Information Arises Without Magic


Hagfish, until now the only vertebrate that hadn't had its genome sequenced.
Image credit: Juan Pascual Anaya
January: Hagfish | News and features | University of Bristol

One of the mysteries of vertebrate evolution is from where did all the genetic information come, but a recently completed sequencing of the hagfish genome has solved that mystery.

Creationists traditionally parrot the claim that information can't increase without magic because of some half-baked notion that it is like energy, so is subject to the third law of thermodynamics, which states that energy can neither be created nor destroyed.

But it only takes a moment's thought to realise that every time a cell replicates, the amount of genetic information normally doubles, without the help of magic, because it is simply a controlled organisation of existing matter. Similarly, if the genome gets doubled, or lengths of DNA get accidentally duplicated, this is simply the incorporation of existing matter into the resulting genome. No new matter is created yet the amount of information in the genome increases.

The other source of creationist confusion stems from them not understanding the difference between information and meaning. Meaning is information in the context of the environment. I'll illustrate this with a simple analogy:

Sunday 21 January 2024

Creationism in Crisis - How Mammalian Brains All Work The Same Way - Just Like They Evolved From A Common Ancestor


Andrea Danti/Shutterstock.com
Study reveals a universal pattern of brain wave frequencies | MIT News | Massachusetts Institute of Technology.

It's a central dogma of creationism that humans are a special form of life created distinct from all other animals. This is one of the appeals of creationism to those who have such a high opinion of themselves that they like to believe they were created by and have a special relationship with the creator of the entire Universe, which it created specifically with them in mind.

However, when we look for evidence of this biological difference, we find instead evidence that we have the same biology as all other mammals and have much more in common than the relatively small differences that, like all other species, place us in a separate taxon. The similarities for a nested hierarchy which shows how closely (or distantly) related we are to the other mammals, particularly, in descending order, the other African great apes, the other anthropoid apes, the old-world monkeys and the other primates.

But creationists particularly like to point to our greater intelligence and aesthetic appreciation of art and music, and our ability to communicate. However, they too can be shown to be fat from unique to humans, who differ in those respects only by degree. Having special abilities with an organ of our body no more makes us a special creation than an elephant's special abilities with its trunk makes elephants a special creation, or a dolphin's special abilities with sonar makes dolphins a special creation.

Now, a team of neuroscientists from Massachusetts Institute of Technology (MIT), Cambridge, MA, USA and Vanderbilt University, Nashville, TN, USA have shown that there are six distinct layers of the mammalian brain cortex and that each of these is associated with the same distinctive pattern of electrical activity. Their results were the subject of an open access paper in Nature Neuroscience a few days ago.

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