Tuesday, 31 March 2020

Loners help society survive, say Princeton ecologists

Liz Fuller-Wright, Office of Communications, March 27, 2020

“Eco-evolutionary significance of ‘loners’” by Fernando W. Rossine, Ricardo Martinez-Garcia, Allyson E. Sgro, Thomas Gregor and Corina E. Tarnita, appears in the Mar. 18 issue of the journal PLoS Biology (DOI: 10.1371/journal.pbio.3000642).
Their research was supported by the Gordon and Betty Moore Foundation, the Simons Foundation, the National Institutes of Health, the Burroughs Wellcome Fund, the Alfred P. Sloan Foundation, and the National Science Foundation

https://www.princeton.edu/news/2020/03/27/loners-help-society-survive-say-princeton-ecologists

When threatened with starvation, slime molds aggregate into towers topped with slimy spheres that stick to passing insects, which carry the spores out into the world. But new research shows that up to a third of slime mold amobae are “loners” that hang back from assembling into one of these swaying towers. Those loners serve an ecological purpose, says a team of Princeton scientists led by Corina Tarnita: when most of a community is rushing in one direction, the few who hang back may protect the whole population.
Photo by Usman Bashir, Washington University in St. Louis

It isn’t easy being a loner — someone who resists the pull of the crowd, who marches to their own drummer.

But loners exist across the natural world, and they might just serve a purpose, said Corina Tarnita, an associate professor of ecology and evolutionary biology. She ticked off examples of loners who sit out their species’ collective actions: the small herd that skips the great wildebeest migration, the locusts that peel off from the swarm and revert to calm grasshopper behaviors, the handful of bamboo that flower a few days before or after the rest of the species, and the slime molds that hang back from forming the swaying towers studied by Princeton luminary John Bonner.

https://youtu.be/bkVhLJLG7ug 
 Slime molds are best known for their collective behavior, as seen in these videos created by biologist John Bonner during his seven-decade career at Princeton.
Video by  Evelyn Tu

“Now that we’re starting to look for it, we realize that a whole lot of systems are not perfectly synchronized — and it’s tantalizing to think that that there may be something to this imperfect synchronization,” Tarnita said. “Individuals that are out-of-sync with the majority of a population exist in humans, too. We call them misfits or geniuses, contrarians or visionaries, very much depending on how the rest of the society feels about their behavior, but they certainly exist.”

To Tarnita, the problem with collective systems like wildebeest migrations and locust swarms is that they do not easily lend themselves to experimental manipulation, to testing whether loners are random or a predictable quantity, possibly subject to natural or cultural selection. But she and her collaborators found an ideal system in which to test these questions: the cellular slime mold, Dictyostelium discoideum. In the March 18 issue of PLoS Biology, they demonstrated that evolution could indeed select for loner behavior in slime molds. Loners are both an ecological and an evolutionary insurance plan, a way to diversify a genetic portfolio to ensure the survival of the social, collective behavior.

Consider the humble slime mold. As seen in the many videos Bonner made over his seven-decade career, when they are threatened by starvation, the tiny amoebae coalesce into slug-like creatures that then aggregate into a large, swaying tower that grows upward with a burgeoning slimy top — until that top sticks to an unwitting passing insect, the starvation-resistant spores hitchhiking out into the world, while all the individuals making up the base and stalk die. In other words, the collective phase is necessary for survival and dispersal.


Corina Tarnita
Photo by Denis Dobson Studio


“Whenever a system has a collective behavior, it’s so eye-catching, and so awesome — and as humans, we tend to look at what’s eye-catching,” said Fernando Rossine, a graduate student in Tarnita’s lab and one of two co-first authors on the paper.

But what caught Tarnita’s eye were the slime mold loners, the amoebae that resist the biochemical call to form the tower. She first noticed them the week before she started her faculty job at Princeton in 2013.

“I was at a conference, and a speaker was showing videos of slime molds doing this very complex collective behavior, all determined to reach the center of aggregation,” Tarnita said. “All but some, I noticed: Here and there, some scattered cells on the plate just didn’t seem to react at all to this aggregation process.”

She inquired about these lonely cells, and the speaker dismissed them as “mistakes.” “In other words, how could we even expect millions of cells to aggregate without a few chance stragglers being left behind?” explained Tarnita.

When she got to Princeton, Tarnita connected with Allyson Sgro, who was then a postdoctoral researcher in the lab of Thomas Gregor, a professor of physics and biophysics. Sgro is now an assistant professor of biomedical engineering and physics at Boston University.

Together, Tarnita and Sgro “just started to poke at the loners a little bit,” Tarnita said. They tested the loners to see if they were flawed in some way, but they couldn’t find anything wrong with them. The loners would eat if given food, and they could divide and make offspring and do everything a healthy slime mold does. And when they starved, their progeny could assemble into the reproductive tower that their parents had resisted previously. But they, too, left behind some loners.

As a theoretical ecologist, Tarnita is drawn to these naturally occurring puzzles, which she tackles with mathematical models. This time, she started with some fundamental questions: What if having some loners stay out of the tower is not just a mistake? What if this is actually part of the strategy of this organism? How might that work?

In a previous paper, Tarnita and her co-authors — which included Sgro and Ricardo Martinez-Garcia, Tarnita’s then-postdoc who is now an assistant professor in biological physics at the South American Institute for Fundamental Research, in Brazil — theorized that it could make sense for some fraction of the slime mold population to remain behind in order to take advantage of any resources that might return in the environment while the rest of the cells are aggregating. They showed that this was theoretically feasible, but the dream was to eventually fully characterize the loner behavior experimentally.

Over several years, multiple graduate students tackled the problem, but the challenges appeared insurmountable. For example, the very first step towards characterizing these loners required being able to rigorously and precisely count them. But amoebae have a non-descript, formless shape, which makes it hard to distinguish a single cell from a tiny group of two or three cells.

In came Rossine, whom Tarnita describes as “extraordinarily creative, both conceptually and experimentally.” With guidance from Sgro, as well as from Gregor, in whose lab all the experimental work was performed, Rossine began to master the system.

First, he was surprised to find that loners are more numerous than anyone had imagined. When he began trying to replicate the slime mold experiments of other researchers, Rossine discovered that those scientists had carefully optimized conditions to encourage the maximum number of slime molds to join the tower, but even then, a few loners held back. “Even in these very, very idealized conditions, you couldn’t exclude loners, because you just can’t — they’re part of the process,” he said. When Rossine did experiments with slime molds collected from the wild, he was startled to see that up to 30% chose the loner life over collective action.

Then came the second surprise: Tarnita’s initial proposal for the nature of these loners turned out to be only half right. When Rossine accurately counted the loners, he confirmed Tarnita’s hypothesis that they are decidedly not random mistakes, but a heritable trait. However, they were not a constant fraction of the initial population of starving cells, as she had theorized. Instead, their number depended on the density of the population. In other words, loners were not flipping a coin and deciding, by themselves, to stay back, as Tarnita had first assumed.

In the smallest populations, they found, all the cells remain loners. Above a certain threshold, there is indeed a steady fraction of amoebae that avoid tower-building — but with a large enough starting population, the number of loners plateaued.



Fernando Rossine
Photo by Elisa Klüger, Princeton University



“This was exhilarating because it meant that we had originally been right that the loners were far from boring, but it also meant that, theoretically, we needed to go back to the drawing board,” said Tarnita. Led by Martinez-Garcia (who shares first author honors), with constant input from Rossine, the modeling effort took a couple of years to develop and begin to give insight into the experimental findings.

Their combination of experimentation and theoretical modeling sets this work at the “frontier of our understanding,” said Silvia De Monte, a modeler of eco-evolutionary population dynamics with CNRS, IBENS, Paris and the Max Plank Institute, who was not involved in this research. “This interdisciplinary approach sheds new light on the processes underlying the formation and evolution of aggregative multicellularity,” she said. “Tarnita and her colleagues provide evidence that the proportion of solitary cells in the social amoeba Dictyostelium discoideum is not simply determined by each cell individually tossing a coin. It results instead from interactions between the [organism] and the environment.”

Collective actions provide huge benefits but they often come with risks, whether it is cheaters undermining the cooperation necessary to build a slime mold tower or rinderpest — an infectious disease also known as cattle plague — spreading aggressively through the dense wildebeest migrants. The loners who hang back might therefore serve as a bet-hedging strategy, ensuring that damage to the majority doesn’t wipe out the entire population or its ability to be social. In other words, and counterintuitively, the loners might be the key to preserving the social aspect of these systems — they themselves are not social, which makes them invulnerable to the kinds of threats that collectives face, but their offspring retain the ability to be social under the right conditions, so sociality is preserved.

“It’s a social bet-hedging,” said Rossine. “And a fascinating conclusion that follows from our findings is that, at least for slime molds, the decision not to become part of the collective is, in fact, taken collectively. All the cells kind of talk to each other chemically: ‘Oh, you’re going? I guess I’m staying.’ There’s communication involved in becoming a loner.”

The work was successful only because of the remarkable cross-disciplinary spirit that characterizes the Princeton campus, said Tarnita. “The high density of really smart people who are all primed to think interdisciplinarily makes it very easy to start collaborations and even to produce these kinds of papers, where all the authors are from Princeton,” she said.


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Virus and microbiota relationships in humans and other mammals: An evolutionary view

Maurício Teixeira Lima, Ana Cláudia dos Santos Pereira Andrade, Graziele Pereira Oliveira, Jacques Robert Nicoli, Flaviano dos Santos Martins, Erna Geessien Kroon, Jônatas Santos Abrahão 
March 2019
https://www.sciencedirect.com/science/article/pii/S2452231718300356

inserted by CiC from goo. search

Abstract

In the last decades, studies have revealed multiple and strong correlations between the host and its commensal microbiota consisting of bacteria, protozoa, fungi and viruses. This associated microbiota can positively or negatively influence the course of a wide range of infections. Here, we review the interactions between the host and its viral microbiota and discuss new paradigms from an evolutionary perspective. The viral adaptation to a microbial environment in a co-evolutionary approach is highlighted, as well as viral cross transmission in the context of the barriers imposed by the indigenous microbiota. In addition to reviewing the host-microbiota-virus relationships, we focus the discussion on microbiota-virus interactions that could be applied to preventive and therapeutic treatments.

1. Introduction
Viruses are the most abundant biological entities on Earth and have evolved with prokaryotes and eukaryotes for thousands of years. The abundance of viruses varies according to the environment and sometimes is relative to bacterial activity and colonization [1]. The human gut harbors a dense and complex microbial ecosystem, with presents not only prokaryotic and eukaryotic organisms but also viruses (virobiota, and their genes – virome). This indigenous microbiota can be associated with the host cells (eukaryotic virobiota) or with some of the approximately 2776 prokaryotic species that inhabit it (prokaryotic virobiota) and this interation may be beneficial or detrimental to the host [2]. An example of a positive effect is the adherence of phages to mucus forming an antimicrobial barrier in various host mucosal surfaces [3]. This co-evolutionary mechanism is called “non-host-derived immunity” and acts primarily controlling the abundance and equilibrium of bacterial populations [3], [4]. The evolutionary battle between viruses and prokaryotes was reported in the last years by studies on the “Kill the Winner” hypothesis, horizontal genetic exchange, CRISPR-encoding bacteria and viral anti-CRISPR proteins [5], [6], [7]. Investigation of these relationships has provided important biotechnological tools that can be used for genetic engineering such as CRISPR-Cas9 genome editing human cells [6].

Recent studies have shown that the host’s normal microbiota is able to influence the infections caused by various families of animal viruses [8], [9], [10]. Microbiota-virus interactions have been studied in germ-free mice or antibiotic-treated mice models highlighting the opposing modulating effects of commensal bacteria on the course of viral infections [9], [10]. Commensal bacteria can potentially influence viral infections either hindering or promoting the viral infection and sometimes aggravate the disease [8], [9]. Bacteria commonly isolates from human nasopharynx as Staphylococcus aureus, Pseudomonas species, Streptococcus pneumonia, Haemophilus influenzae and Streptococcus pyogenes has been associated with increased risk of death in adults and children infected with influenza [11].

This review highlights the important role of microbiota-virus interactions through an evolutionary perspective, emphasizing the viral adaptations to the microbial environment and the use of available resources by viruses. The cooperation or the competition with other components of the indigenous microbiota, as well as the co-evolution with host and viral cross-species transmission in the context of the barriers imposed by the endogenous microbiota are also addressed.

2. Viruses versus microbial ecosystem
Viral particles face numerous host-related challenges to reach the permissive cells, such as tissue specificities, body temperature and epithelial secretions including IgA, defensins and a mucus barrier, as well as environmental modifications due to microbiota metabolism and cellular composition such as pH, redox potential, lipopolysaccharide (LPS) and glycans. The gastrointestinal microbiota is the most complex and diverse ecosystem in mammals, quite different when compared to those present in other body sites, and there is a considerable variation in the constituents of the gut microbiota among apparently healthy individuals [12].

The presence of the microbiota or its products is associated with increases in the viral fitness for all enteric viruses studied so far, including Enterovirus C (poliovirus) [13], [14], Mammalian reovirus [13], Rotavirus A [15], Norwalk virus (norovirus) [16], [17], [18], [19] and Mouse mammary tumor virus (MMTV) [20], [21] (an enteric retrovirus). In this context, some findings suggest different mechanisms by which the enteric viruses could use bacteria and their products to withstand environmental adversities and cross the host cell barriers.

A study of poliovirus was the first to show that viral exposure to bacteria enhanced host cell binding and infection by the virus [13]. The enhancement of viral infectivity did not require live bacteria, and the presence of bacterial surface polysaccharides, including LPS and peptidoglycan (PGN), was sufficient [13]. LPS is the major cell wall component of Gram-negative bacteria with highest concentrations in the gut lumen [22]. Poliovirus can use LPS to promote attachment to the surface of permissive cells through direct facilitation of viral binding to its poliovirus receptor (Fig. 1A). In addition, LPS can enhance virion environmental stability by increasing its thermostability and resistance to chlorine bleach [13], [14]. A specific residue in the capsid protein of poliovirus VP1 was shown to be crucial for stabilization, and this ability is important to prevent premature conformational changes before uncoating [14] (Fig. 1B). A mechanism similar to the LPS-mediated stimulation of poliovirus was observed for human norovirus when it was discovered that it could infect human B cells [16]. Some specific commensal bacteria express a glycan called histo-blood group antigen (HBGA) that correlated with the ability of norovirus to attach and infect B cells [18]. The isolated HBGA was sufficient to stimulate viral attachment to the surface of B cells [19] (Fig. 1C) by using a mechanism apparently very similar to that of poliovirus-LPS attachment to its host receptor. However, the receptor used by human norovirus remains unknown precluding an understanding of the mechanism by which bacterial HBGA stimulates viral attachment [19].



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Ocean Creatures Have Been Protecting Us From Millions of Viruses This Entire Time

PETER DOCKRILL   31 MARCH 2020
https://www.sciencealert.com/marine-creatures-protect-us-from-viruses-in-the-ocean-by-eating-them-study-suggests

(Matt Hardy/Unsplash)

It's fair to say that the world has had more than enough of viruses right now. Unfortunately, the converse is not necessarily true.

The incredible vastness of the virosphere is hard to overstate. While several thousand kinds of virus have been studied in detail, scientists say we haven't even scratched the surface. There could be trillions of species overall, some think.

Even more conservative estimates are mind-boggling. In the oceans, tens of millions of different kinds may lurk, and it's not exactly hard to find them: hundreds of thousands of new species can be identified if you go looking, in abundances that defy imagination: as many as 10 million viruses can be present in a millilitre of water.

Against all this viral enormity, it's reassuring to remind ourselves of two encouraging constants, both of which are explored in a new study led by marine ecologist Jennifer Welsh from the Royal Netherlands Institute for Sea Research (NIOZ).

In short: not every virus infects every living thing, and some animals actually prey upon viruses, in a sense, by removing them from the environment. Despite this valuable and under-appreciated public service, much of what underlies the phenomenon remains a mystery.

"Viruses are the most abundant biological entities in marine environments, however, despite its potential ecological implications, little is known about virus removal by ambient non-host organisms," Welsh and her team explain in a new paper.

In a series of experiments in the lab, the researchers examined how a range of these non-host marine organisms fared at removing viral particles from their aquatic environment – either via active predation, or via passive mechanisms, such as filter feeders and organisms that create physical barriers between viral parasites and their hosts.

Of the 10 different animal species tested, crabs, cockles, oysters, and sponges turned out to be the most effective at reducing viral abundance.

"In our experiments, the sponges reduced the presence of viruses by up to 94 percent within three hours," Welsh explains, although after a full 24 hours, that figure reached even 98 percent virus removal.

"Another experiment showed that the uptake of viruses happens indeed very quickly and effectively. Even if we offered new viruses to the water every 20 minutes, the sponges remained tremendously effective in removing viruses."

In comparison to the sponges tested, crabs were the second most effective, reducing viral abundance by 90 percent over 24 hours, while cockles managed 43 percent, and oysters 12 percent.

Of course, these impressive results from lab experiments might not be equally successful in the wild, given the range of behavioural changes that can occur in bio-diverse aquatic environments, not to mention a host of other environmental variables at play under the sea.

"The situation there is much more complex, as many other animal species are present and influence one another," Welsh says.

"For example, if an oyster is filtering and a crab comes along, it closes its valve and stops filtering. In addition, there are factors such as tidal currents, temperature, and UV light to consider."

Nonetheless, the researchers think that this natural ability of non-host animals to reduce the abundance of virus particles in marine environments is something we might be able to exploit one day – especially in aquaculture farming, where organisms like sponges could be used as a kind of shield to help protect farm populations from viral pathogens.

Whether or not that will be ultimately possible to implement remains to be seen, but it's clear, the team thinks, that this ongoing process of virus removal in the oceans is something that's been underestimated so far.

"The influence of non-host organisms in the ambient environment, really is a factor that has been overlooked in virus ecology", Welsh says.

The same kinds of themes explored in the team's paper are considered at even greater length in Welsh's PhD thesis, in which she considers how parasite-host interactions do not occur in an ecological vacuum, being affected by a variety of ambient fauna and flora mechanisms.

As it happens, Welsh will be defending the thesis this week. Due to the ongoing restrictions prompted by another virus – the ongoing COVID–19 pandemic – she will be forced to conduct her defence online, which will be a first for a NIOZ researcher.

"My apartment is very small," Welsh says, "so I may end up defending my thesis on my bed with my laptop."

The findings are reported in Scientific Reports.


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Sophisticatedly engineered 'watercourts' stored live fish, fueling Florida's Calusa kingdom

MARCH 31, 2020, by Natalie Van Hoose, Florida Museum of Natural History
https://phys.org/news/2020-03-sophisticatedly-watercourts-fish-fueling-florida.html

The Calusa kingdom ranks among the most politically complex groups of hunter-gatherers of the historic world. Unusually, it was powered by fishing, not farming. Massive enclosures enabled the Calusa to store enough fish to sustain population growth and fuel large-scale construction projects.
 Credit: Merald Clark/Florida Museum

The mighty Calusa ruled South Florida for centuries, wielding military power, trading and collecting tribute along routes that sprawled hundreds of miles, creating shell islands, erecting enormous buildings and dredging canals wider than some highways. Unlike the Aztecs, Maya and Inca, who built their empires with the help of agriculture, the Calusa kingdom was founded on fishing.

But like other expansive cultures, the Calusa would have needed a surplus of food to underwrite their large-scale construction projects. This presented an archaeological puzzle: How could this coastal kingdom keep fish from spoiling in the subtropics?

A new study points to massive structures known as watercourts as the answer. Built on a foundation of oyster shells, these roughly rectangular enclosures walled off portions of estuary and likely served as short-term holding pens for fish before they were eaten, smoked or dried. The largest of these structures is about 36,000 square feet—more than seven times bigger than an NBA basketball court—with a berm of shell and sediment about 3 feet high. Engineering the courts required an intimate understanding of daily and seasonal tides, hydrology and the biology of various species of fish, researchers said.

The watercourts help explain how the Calusa could rely primarily on the sea.

"What makes the Calusa different is that most other societies that achieve this level of complexity and power are principally farming cultures," said William Marquardt, curator emeritus of South Florida Archaeology and Ethnography at the Florida Museum of Natural History. "For a long time, societies that relied on fishing, hunting and gathering were assumed to be less advanced. But our work over the past 35 years has shown the Calusa developed a politically complex society with sophisticated architecture, religion, a military, specialists, long-distance trade and social ranking—all without being farmers."


The "West Court" marked in this LiDAR map of Mound Key, the capital of the Calusa kingdom, is more than 36,000 square feet, more than seven times the size of an NBA basketball court. These courts were engineered with knowledge of tides and fish biology.
 Credit: Victor Thompson et al.


The fact that the Calusa were fishers, not farmers, created tension between them and the Spaniards, who arrived in Florida during the 16th century when the Calusa kingdom was at its zenith, said study lead author Victor Thompson, director of the University of Georgia's Laboratory of Archaeology.

"The Spanish soldiers, priests and officers were used to dealing with agriculturalists, such as the people they colonized in the Caribbean who grew maize surpluses for them," Thompson said. "This would not have been possible with the Calusa. In fact, in a late 1600s mission attempt by the Franciscans, hoes were unloaded off the ship, and when the Calusa saw this, they remarked, 'Why didn't they also bring slaves to till the ground?'"
Thompson, Marquardt and colleagues analyzed two watercourts along the southwest shore of Mound Key, an island in Estero Bay off Florida's Gulf Coast and the seat of Calusa power for about 500 years.

These courts, still visible today, flank the grand canal, a marine highway nearly 2,000 feet long and averaging 100 feet wide, which bisects the key. Both have yards-long openings in the berms along the canal, possibly to allow Calusa to drive fish into the enclosures, which could then be closed with a gate or net.

The team studied the watercourts and surrounding areas using remote sensors, cores of sediment and shell and excavations. The bisected key features two large shell mounds, one on either side of the island. Remote sensing showed slopes leading from the watercourts to the top of the mounds, which may have been causeways for transporting food. On the shoreline, researchers found evidence of burning and small post molds, possibly for racks used to smoke and dry fish.


The fish surplus stored in watercourts likely enabled the Calusa to complete large-scale construction projects. The largest watercourt was built during a key construction phase of the king's manor on Mound Key. The Spanish recorded the manor as capable of holding 2,000 people. 
Credit: Merald Clark/Florida Museum


Radiocarbon dating suggests the watercourts were built between A.D. 1300 and 1400—around the end of a second phase in the construction of a king's manor, an impressive structure that would eventually hold 2,000 people, according to Spanish documents.

A.D. 1250 also corresponds to a drop in sea level, which "may have impacted fish populations enough to help inspire some engineering innovation," said Karen Walker, Florida Museum collection manager of South Florida Archaeology and Ethnography.

Fish bones and scales found in the western watercourt show the Calusa were capturing mullet and likely pinfish and herring, all schooling species. Florida Gulf Coast University geologist Michael Savarese's analysis of watercourt core samples revealed dark gray sediment that was rich in organic material, suggesting poor circulation. High tide would have refreshed the water to some extent, Marquardt said.

"We can't know exactly how the courts worked, but our gut feeling is that storage would have been short-term—on the order of hours to a few days, not for months at a time," he said.

While researchers previously hypothesized watercourts were designed to hold fish, this is the first attempt to study the structures systematically, including when they were built and how that timing correlates with other Calusa construction projects, Marquardt said.

Archaeological specimens of mullet (Mugil sp.) fish scales recovered from a live-storage area at Mound Key, the capital of the Calusa Kingdom in Southwest Florida. 
Credit: Zachary S. Randall (Florida Museum of Natural History, Gainesville, FL).

The Calusa dramatically shaped their natural environment, but the reverse was also true, Thompson said.

"The fact that the Calusa obtained much of their food from the estuaries structured almost every aspect of their lives," he said. "Even today, people who live along coasts are a little different, and their lives continue to be influenced by the water—be it in the food they eat or the storms that roll in on summer afternoons in Southwest Florida."

The study will publish this week in the Proceedings of the National Academy of Sciences


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Tree rings could pin down Thera volcano eruption date

MARCH 30, 2020, by University of Arizona
https://phys.org/news/2020-03-tree-pin-thera-volcano-eruption.html

Minoan eruption of Thera. Satellite image of Thera, November 21, 2000. Credit: NASA, public domain

Charlotte Pearson's eyes scanned a palm-sized chunk of ancient tree. They settled on a ring that looked "unusually light," and she made a note without giving it a second thought. Three years later, and armed with new methodology and technology, she discovered that the light ring might mark the year that the Thera volcano on the Greek island of Santorini erupted over the ancient Minoan civilization. The date of the eruption, which is one of the largest humanity has ever witnessed, has been debated for decades.

Pearson, a University of Arizona assistant professor of dendrochronology and anthropology, is lead author of a paper, published in the Proceedings of the National Academy of Sciences, in which she and her colleagues have used a new hybrid approach to assign calendar dates to a sequence of tree rings, which spans the period during which Thera erupted, to within one year of a calendar date. This allows them to present new evidence that could support an eruption date around 1560 B.C.

Filling the Gaps
"In every tree ring, you have this time capsule that you can unpack," Pearson said.
Trees grow in accordance with the conditions of their local environment. Each year, trees produce a new layer of concentric growth, called a tree ring, which can record information about rainfall, temperature, wildfires, soil conditions and more. Trees can even record solar activity as it waxes and wanes.

When a sequence of rings from trees of various ages are overlapped and added together, they can span hundreds or thousands of years, providing insight about past climate conditions and context for concurrent civilizations.

"The longest chronology in the world stretches back 12,000 years. But in the Mediterranean, the problem is that we don't have a full, continuous record going back to the time of Thera," Pearson said. "We have recorded the last 2,000 years very well, but then there's a gap. We have tree rings from earlier periods, but we don't know exactly which dates the rings correspond to. This is what's called a 'floating chronology.'"

Filling this gap could help pin down the Thera eruption date and paint a climatic backdrop for the various civilizations that rose and fell during the Bronze and Iron ages, which together spanned between 5,000 and 2,500 years ago.

"Until you can put an exact year on events on a scale that makes sense to people—one year—it's not quite as powerful," Pearson said. "This study is really about taking (my co-author and tree ring lab research professor) Peter Kuniholm's chronology that he's put together over 45 years of work and dating it in a way not possible before. Most importantly, it is fixed in time, just as if we had filled our tree ring gap."

A Hybrid Approach
Since the inception of the U Arizona Laboratory of Tree-Ring Research in 1937, an assortment of tree ring samples from all over the world accumulated in less-than-ideal conditions beneath Arizona Stadium. But since the completion of the university's upgraded Bryant Bannister Tree Ring Building in 2013, the curation team, led by Peter Brewer, has been relocating, organizing and preserving samples for future research.

"This is the collection that founded the field of tree ring research, and it's by far the world's largest," Brewer said. "Researchers come from all over to use our collection."

"It's just crammed full of the remains of ancient forests and archaeological sites, which no longer exist, and it contains wood samples that were fundamental in the growth of the discipline of dendrochronology," Pearson said.

The collection includes timbers from the Midas Mound Tumulus at Gordion in Turkey—a giant tomb of a man that was likely Midas' father or grandfather. From timbers like these, Kuniholm has been building a tree ring chronology from the Mediterranean for nearly a half century. Together, Kuniholm's record from the B.C. period spans over 2,000 years, including trees growing downwind of the Thera eruption, making it key to the team's research.

Despite the length of this chronology, it remained undated. To pin it down, the team decided to try something new.

When cosmic rays from space enter the Earth's atmosphere, neutrons collide with nitrogen atoms to create a radioactive version of carbon, called carbon-14, which spreads around the planet. All other life on Earth, including tree rings, pick up the carbon-14, and because tree-rings lock away a measurement of carbon-14 for each year that they grow, they hold patterns showing how it changed over time. These patterns of carbon-14 in tree rings around the world should match.

Pearson and her team used the patterns of carbon-14 captured in the Gordion tree rings to anchor the floating chronology to similar patterns from other calendar dated tree ring sequences.

"It's a new way to anchor floating tree ring chronologies that makes use of the annual precision of tree rings," Pearson said.

To validate their findings, the team turned to the calendar-dated rings of high-elevation bristlecone pines from western North America that lived at the same time as the Gordion.

"When there are large volcanic eruptions, it often scars bristlecone by freezing during the growing season, creating a frost ring," said second author Matthew Salzer, research scientist at the tree ring laboratory. "Then we compared the dates of the frost rings with what was going on in the Mediterranean trees, which respond to volcanoes by growing wider rings. And it worked. It showed that the wide rings in the Mediterranean chronology occurred in the same years as the frost rings in the bristlecone. We took that to be confirmation that the dating was probably correct."

The team then thought to use a new piece of technology in the lab called the X-ray fluorescence machine to scan the wood for chemical changes.

"We scanned the entire period across when Thera is known to have happened," Pearson said, "and we detected a very slight depletion in calcium, right where I saw this lighter ring years ago."

While it's a slight fluctuation, it is significant and only occurs at one point in the years around 1560 B.C.

"We put that in the paper and tentatively suggest it's a possible date for Thera," Pearson said.

Something changed the chemistry of the environment in which the tree grew; acid deposition from a volcano is one possibility, wildfire is another, but because the date happens to coincide with other tree ring markers for a major eruption, Pearson she says it's worthy of further exploration.

"I think to do good science you have to investigate everything and keep an open mind until sufficient data comes together," Pearson said. "This is another little piece of the puzzle."


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Monday, 30 March 2020

How to boost immune response to vaccines in older people

MARCH 27, 2020, by Babraham Institute

A mouse lymph node from young mouse fourteen days after immunisation. B cell follicles are shown in yellow (IgD) and proliferating germinal centre cells (Blue, Ki67) are shown within the B cell follicle. T cells are shown in green.                              Credit: Babraham Institute

Research just published by the Linterman lab shows that the immune system of older mice can be given a helping hand by applying immunology expertise and some genital wart treatment (don't try this at home just yet)!

Mice and humans show similar age-dependent changes in their immune system so this finding offers hope for easily increasing the robustness of vaccination response in the older population.

As we age, the function of our immune system declines, rendering us more susceptible to infections, and making us less able to generate protective immunity after vaccination. By understanding the cellular and molecular mechanisms that underpin this poor response in older individuals, researchers in the Linterman lab were able to repurpose an existing treatment for genital warts, and demonstrate that this was effective in overcoming the age-related effects on two of the many cell types making up our immune system. The research is published online in the journal eLife.

Dr. Michelle Linterman, a group leader in the Institute's Immunology research programme, said: "The current coronavirus pandemic highlights that older members of our families and communities are more susceptible to the morbidity and mortality associated with infectious diseases. Therefore, it is imperative that we understand how the immune system in older people works, and to explore how we might be able to boost their immune responses to vaccines to ensure they work well in this vulnerable part of our society."




A mouse lymph node from an aged mouse fourteen days after immunisation. B cell follicles are shown in yellow (IgD) and proliferating germinal centre cells (Blue, Ki67) are shown within the B cell follicle. T cells are shown in green. Credit: Babraham Institute



Vaccines work by generating antibodies that are able to block the ability of pathogens to infect us. Antibody secreting cells are produced in the germinal centre, immune reaction hubs that forms after infection or vaccination. With age, the magnitude and quality of the germinal centre reaction declines.

Immune cells called T follicular helper cells are essential to the germinal centre response. In this study the team used mice and humans to investigate why T follicular helper cell numbers decline with age, and if there is a way to boost them upon vaccination.

"The germinal centre response is a highly collaborative process that requires multiple cell types to interact at the right place and the right time. Therefore, it made sense to us that defects in one or more of these cell types could explain the poor germinal centre response observed in older individuals after vaccination," explains Dr. Linterman.

The researchers found that older mice and humans form fewer T follicular helper cells after vaccination, which is linked with a poor germinal centre response and antibody response. By developing our understanding of the cellular and molecular events occurring in the germinal centre after vaccination, the researchers identified that T follicular helper cells in older mice and people received less stimulatory interactions from their immune system co-workers. By using a cream (imiquimod, currently used to treat genital warts in humans) on the site of immunisation to boost the number of stimulatory cells, they were able to restore the formation of T follicular helper cells in older mice and also rescue the age-dependent defects in another immune cell type (dendritic cells). Encouragingly, this demonstrates that the age-related defects in T follicular helper cell formation in ageing are not irreversible, and can be overcome therapeutically.

The full picture and evaluation of whether this approach will work as an intervention in humans requires more research into why the germinal centre response changes with age, and what can be done to overcome this. Once achieved, it could be that clinical trials are established to incorporate this knowledge into new vaccine formulations for older people.



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Locusta of Gaul – Nero’s Notorious Poison Maker

28 MARCH, 2020 - ALEKSA VUČKOVIĆ
https://www.ancient-origins.net/history-famous-people/locusta-gaul-0013483

Detail of ‘The Love Potion’ (1903) by Evelyn de Morgan. Unlike the creation of this woman, Locusta of Gaul’s potions were made in hatred. Source: Public Domain

Poison was always the silent killer. Kings and emperors fell prey to it as easily as an unsuspecting servant. Throughout medieval and classical history, poison and those who knew how to prepare it played a huge role in the internal affairs of many a court. Assassins were feared, and herbalists were employed to concoct the most deadly poisons possible - all with the aim to remove competitors, enemies, and usurpers. The poisoner we are discussing today is one of the most infamous in classical history - Locusta of Gaul.

Employed as the favorite poisoner of the Roman Emperor Nero, this woman ended many lives with her deadly poisons . From the wild woods of Gaul all the way to the marble courts of Rome, this woman’s story is a true deadly drama. Widely considered as one of the earliest documented serial killers, Locusta was certainly a deadly dame. But is there more to her story? Revenge? Hate? Sorrow? We’re about to find out.

The Earliest Historical Mention of Locusta of Gaul
In ancient Rome poisons were a common weapon often used with cunning skill. Emperors used them to depose unwanted pretenders and heirs to the throne, to eliminate staunch enemies, or to get rid of unwanted commanders. Murder by poison gave less involvement and a better alibi.

There was no need for weapons or bloodshed, as an assassin could simply insert the poison into food or drink in a critical moment. Fear of such an assassination became so widespread in Roman society , that many important individuals - mostly Emperors - hired special servants that would act as food tasters. These were often the cooks as well.

And to find a proper herbalist and maker of poisons, Roman Emperors did not hesitate to look in all corners of their Empire. And so it was that in the lands of their province of Gaul they discovered a skilled woman, well versed in the use of wild herbs, plants, and poisons. Locusta was her name, and she was most likely captured (sometime before 54 AD) and brought to Rome where her deadly skills would be utilized.

And her skill as a maker of poisons was quickly recognized. So it came to be that Locusta of Gaul was hired as the official poisoner of the Imperial Court. There she became the favorite of Emperor Nero - who, as we all know, had a particular affinity for all things deadly and odd.

Locusta was certainly a historical figure and what we can learn about her deeds was documented by ancient historians Tacitus, Juvenal, Cassius Dio, and Suetonius.

https://youtu.be/SY4i_ONbZyE

She is first mentioned in the service of Agrippina Minor, one of the most prominent female figures of the Julio-Claudian Dynasty of Rome, and the mother of the future emperor, Nero.

Empress Agrippina made Locusta of Gaul her poisons expert, and some sources claim that with her assistance the Empress conspired to murder her husband Claudius. Before this occurred though, Locusta is mentioned as being imprisoned in 54 AD, and condemned for a poisoning charge ( nuper veneficii damnata ).

It was at this point that Agrippina employed Locusta’s deadly services. The latter produced a poison to kill Claudius, which was purportedly sprinkled on mushrooms in his dinner. It is also possible that the mushroom itself was the poison, the Amanita Phalloides, the so-called Death Cap Mushroom.

This long and colourful story continues at:  https://www.ancient-origins.net/history-famous-people/locusta-gaul-0013483

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March 29: When Viking and Christian Sun Gods Drew Swords

29 MARCH, 2020 -  ASHLEY COWIE
https://www.ancient-origins.net/history-important-events/sun-gods-0013488

On March 29th ancient people sharpened their swords and went to battle under the power of their resurrected sun gods. Source: Oleksandr /Adobe Stock

Easter corresponds with the first Sunday following the full moon after the March equinox and as such the holy day occurs on different dates around the Christian world. However, the story of the Easter crucifixion and resurrection is symbolic of the rebirth and renewal of the cycle of the seasons, the death and the return of the Sun. This is a time for sun gods to shine.

According to the Symbol Dictionary , within the archetypes and symbols of Easter many historians find parallels between the Christian cross and the Norse tree of life, Yggdrasil, upon which the Viking God Odin was hung.

Marking the renewal of the Sun’s annual cycle, March 29th is a historical date when under the power of their resurrected sun gods ancient peoples sharpened their swords and went to battle. And while this article could cover the March 29th 1430 AD capture of Thessalonica from the Republic of Venice by the Ottomans under Murad II, or the March 29th 1461 AD Battle of Towton when Edward of York defeated Queen Margaret to become King Edward IV of England, it focuses on a holy war between Christians wielding swords of God and Viking raiders battling under the watch of their solar deity, Odin.



William Neville, Lord Fauconberg, orders his archers to take advantage of the wind and advance closer to shoot at their Lancastrian enemies in the Battle of Towton. ( Public Domain )



March 29th: Fury of the Sun Gods
Fans of History Channel’s hit-show, Vikings, know him as the legendary saga character “Ragnar Lodbrok” while historians know him as “ Reginherus”, but in Paris he will always be known as the “devil” - for on March 29th 845 AD the Viking warlord and his Norse raiders sacked the city of Paris, bringing fire and fury to one of the chief strongholds of Christian Europe.

Ragnar assembled a fleet of 120 Viking longships carrying thousands of blood thirsty and gold hungry warriors who sailed up the Seine in the cover of darkness and slaughtered over half of the Frankish king Charles’ (the Bald’s) army, causing the remaining forces to scuttle in to the wooded river banks in retreat. After plundering, raping, and torturing thousands of Parisians, the Vikings eventually withdrew - carrying a weakened king’s ransom of 7,000 French livres [2,570 kilograms (83,000 oz)] of silver and gold from Charles the Bald.

video site:   https://youtu.be/4bjo_WYgRd0

The Arrival of Odin’s Sea Dragons
According to English Heritage , the Viking’s first major raid out of Scandinavia occurred in 789 AD when “three ships of northmen” landed on the coast of Wessex and killed the king’s reeve who had been commissioned with bringing the “strangers” to the West Saxon court.

But what happened four years later on June 8, 793, on the island of Lindisfarne just off the Northumbrian coast, was an altogether different type of raid, as the Vikings attacked not a Saxon army, but the sacred church of St Cuthbert - and in doing so they slaughtered the island’s peaceful Christian monastic community.

This brutal attack on the pulsing sacred heart of the powerful Northumbrian kingdom, where “the Christian religion began in our nation, ” signaled the beginning of an international holy war. It sent a terrifying shockwave through the monarchies of Europe, and the Vikings could say: “we are coming for you all, and we fear not your one God and his son, for with us we have the fury of the Norse pantheon, with Odin at our sterns and Thor at the helms.”



Odin was the Viking sun god. (Victor villalobos/ CC BY SA 4.0 )
Stripping Paris of its God and Gold




Six years later, in 799 AD, the Viking raiders first attacked the Frankish Empire, causing King Charlemagne to fortify the northern French coast, repelling the Norse raiders in both 820 AD and 834. But in the 830s and early 840s the Frankish civil wars created the required chink in France’s armor. In mid-March 845 AD, a fleet of 120 Danish Viking ships containing more than 5,000 men sailed down the Seine under the command of their esteemed leader, Reginherus, or Ragnar.

Ragnar's Vikings first raided the town of Rouen. Determined to stop the raiders reaching the royal Abbey of Saint-Denis (near Paris), King Charles assembled an army of two parts, one on each side of the Seine. However, Ragnar’s men captured 111 French soldiers, and invoking the power of the Norse god Odin, he hung every one of them on an island on the Seine, again, sending a wave of shock and sheer terror through the Frankish forces.

A King’s Ransom that Assured Further French Slaughter
According to historian Gwyn Jones’ 2001 book, ‘ A History of the Vikings ,’ the Norsemen reached Paris on Easter Sunday, March 29, and plundered the city. But as fate would have it, a plague broke out in the Viking camp and while the Norse god Odin seemed to care little, a Christian prisoner invoked the healing forces of the Biblical god and the plague soon subsided. According to Britannica, the Vikings only retreated from Paris after the king paid a hefty ransom of “7,000 livres (French pounds) of silver and gold amounting to approximately 2,570 kilograms (5,670 lb.)”




Vikings raiding Paris on March 29, 845 AD. ( Public Domain )



But even with a king’s ransom secured in their hulls as Ragnar’s ships sailed back up the Seine, his raiders pillaged the Abbey of Saint Bertin and several other Christian sites of worship. Furthermore, another fleet of Norsemen sacked the city of Hamburg, which was made an archbishopric by Pope Gregory IV in 831 AD to oversee the introduction of Christianity to pagan Scandinavia . The Vikings’ mission was clearly twofold in nature: to strip Europe not only of its gold, but also to sever the expansion of its one God.

Never Give a Bully Your Pocket Money…Although many Vikings had died in the plague that struck during the siege of Paris, Ragnar returned home and visited the Danish King Horik. When he showed him the Parisian gold and silver he reportedly collapsed and cried, relating that the only resistance he had met in France was Saint Germain of Paris , whom he associated with causing the plague.

Being deeply religious and superstitious, when Ragnar's men began dying back home King Horik ordered the release of all Christian captives. He also received Archbishop Ansgar, the “Apostle of the North,” into his Viking Kingdom, which secured Christianity ’s foothold in Scandinavia.



Portrait of a Viking holding a Christian cross in his hand . ( Warpedgalerie /Adobe Stock)



But knowing the French king was a pushover, rogue Viking raiders returned to Paris again and again during the 860s, milking the city's gold and silver reserves, but the French forces finally resisted the largest Viking force in the Siege of Paris during 885–86 AD, lodging their one God into the throne of history, while Odin became a forgotten dream.



The failed Viking siege of Paris in 885-6 AD. ( Public Domain )







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Sunday, 29 March 2020

Early evolution of the brain's cortex revealed in new study

Date:                    March 16, 2020
Source:                 Karolinska Institutet
Summary:            Research on the lamprey brain has enabled scientists to push the birth of the cortex back in time by some 300 million years to over 500 million years ago, providing new insights into brain evolution.

Lamprey (stock image).                   Credit: © Andrei Nekrassov / Adobe Stock

A new study on the lamprey brain has enabled researchers at Karolinska Institutet in Sweden to push the birth of the cortex back in time by some 300 million years to over 500 million years ago, providing new insights into brain evolution. The study is published in the scientific journal Nature Ecology & Evolution.

The human brain is one of the most complex structures that evolution has created. It has long been believed that most of the forebrain evolution took place largely in mammals and that the brains of simpler, pre-mammalian animal groups such as fish and amphibians lack a functional cortex. The cortex, which is the outer layer of the brain, controls the more complex cerebral functions like vision and movement and higher skills such as language, memory and emotion.

"We've spent a long time studying brain evolution using the lamprey, which is one of the oldest groups of extant vertebrates," says Sten Grillner, last author of the study and professor of neurophysiology at the Department of Neuroscience, Karolinska Institutet. "Here we've made detailed studies of the lamprey brain, combining neurophysiological analyses with histochemical techniques."

In the study, the researchers show that even the lamprey, which existed hundreds of millions of years before mammals, possesses a detailed blueprint for the development of the cortex, the basal ganglia and the dopamine system -- all the vital ingredients of integrative cerebral function.

The researchers also found that the lamprey's cortex has a visual area on which different parts of its visual field are represented. Sensory and motor areas have also been discovered.

"This shows that the birth of the cortex has to be pushed back about 300 million years," says Professor Grillner. "This, in turn, means that the basic plan of the human brain was defined already over 500 million years ago, that's to say before the lamprey branched off from the evolutionary line that led to mammals and humans."

The study shows that all the main components of the human brain are also to be found in the lamprey brain, albeit with much fewer nerve cells in each part.

"That vital parts of the lamprey brain are conserved and organised in the same way as in the human brain was unexpected," he continues. "These findings are crucial to our understanding of how the brain evolved and how it has been designed through evolution."

The study was financed with grants from the Swedish Research Council, the EU's Seventh Framework Programme for Research and Technological Development, the Parkinson Foundation and Karolinska Institutet.


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