Category: Phenomena (page 1 of 2)

How Creatures End Up Miles Below the Surface of Earth, and Maybe Mars Too

Poikilolaimus oxycercus is a microscopic nematode, or roundworm, found alive and well more than a mile below the surface in South Africa, where its ancestors had lived for hundreds or thousands of years. (Gaetan Borgonie)


When scientists speculate about possible life on Mars, they generally speak of microbial or other simple creatures living deep below the irradiated and desiccated surface.  While Mars long ago had a substantial period that was wetter and warmer when it also had a far more protective atmosphere,  the surface now is considered to be lethal.

But the suggestion that some potential early Martian life could have migrated into the more protected depths is often discussed as a plausible, if at this point untestable possibility.  In this scenario, some of that primitive subsurface life might even have survived the eons in their buried, and protected, environments.

This thinking has gotten some support in the past decade with the discovery of bacteria and nematodes (roundworms) found as far down as three miles below the surface of South Africa, in water dated as being many thousands or millions years old.  The lifeforms have been discovered by a team that has regularly gone down into the nation’s super-hot gold and platinum mines to search for life coming out of boreholes in the rock face of deep mine tunnels.


Borgonie setting up a water collector for a borehole at the Driefontein mine in the Witwatersrand Basin  of South Africa.  He said he stopped counting his journeys into the deep mines at 50, but that the number now is much higher. (Courtesy of Borgonie)

Now a  new paper describes not only the discovery of additional deep subsurface life, but also tries to explain how the distant ancestors of the worms and bacteria and algae might have gotten there. 

Their conclusion:  many were pulled down when fractures opened in the aftermath of earthquakes and other seismic events.  While many lifeforms were swept down, only a small percentage were able to adapt, evolve and thus survive.

The is how Gaetan Borgonie, lead author of the paper in Scientific Reports, explained it to me via email:

“After the discovery of multicellular animals in the deep subsurface up to 3.8 km (2.5 miles) in South Africa everyone was baffled and asked the question how did they get that deep? This question more or less haunted us for more than a decade as we were unable to get our head around it.Read more “How Creatures End Up Miles Below the Surface of Earth, and Maybe Mars Too”

All About Emergence

A swarm of birds act as an emergent whole as opposed to a collection of individual birds. The workings of swarms have been fruitfully studied by artificial life scientists, who look for abstracted insights into life via computers and other techniques. (Walerian Walawski)


If there was a simple meaning of the often-used scientific term “emergence,” then 100-plus scientists wouldn’t have spent four days presenting, debating and not infrequently disagreeing about what it was.

But as last month’s organizers of the Earth-Life Science Institute’s “Comparative Emergence” symposium in Tokyo frequently reminded the participants, those debates and disputes are perfectly fine and to be expected given the very long history and fungibility of the concept.

At the same time, ELSI leaders also clearly thought that the term can have resonance and importance in many domains of science, and that’s why they wanted practitioners to be exposed more deeply to its meanings and powers.

Emergence is a concept commonly used in origins of life research, in complexity and artificial life science; less commonly in chemistry, biology, social and planetary sciences; and — originally – in philosophy. And in the 21st century, it is making a significant comeback as a way to think about many phenomena and processes in the world.

So what is “emergence?” Most simply, it describes the ubiquitous and hugely varied mechanisms by which simple components in nature (or in the virtual or philosophical world) achieve more complexity, and in the process become greater than the sum of all those original parts.

The result is generally novel, often surprising, and sometimes most puzzling – especially since emergent phenomena involve self-organization by the more complex whole.

Think of a collection of ants or bees and how they join leaderless by the many thousands to make something – a beehive, an ant colony – that is entirely different from the individual creatures.


The Eagle nebula is an intense region of star formation, an emergent phenomenon
that clearly creates something novel out of simpler parts. (European Space Observatory.)

Think of the combination of hydrogen and oxygen gases which make liquid water. Think of the folding of proteins that makes genetic information transfer possible. Think of the processes by which bits of cosmic dust clump and clump and clump millions of times over and in time become a planetesimal or perhaps a planet. Think of how the firing of the billions of neurons in your brain results in consciousness.Read more “All About Emergence”

The Northern Lights (Part Two)

Northern Lights at a latitude of about 70 degrees north, well within the Arctic Circle. These photos were taken about 30 miles from the town of Alta. (Lisa Braithwaite)

In my recent column about The Northern Lights, the Magnetic Field and Life,  I explored the science and the beauty of our planet’s aurora borealis, one of the great natural phenomenon we are most fortunate to see in the far North (and much less frequently in the not-quite-so-far North.)

I learned the hard way that an IPhone camera was really not up to the job;  indeed, the battery froze soon after leaving my pocket in the 10 degrees F cold.  So the column had few images from where I actually was — about a half hour outside of the Arctic Circle town of Alta.

But here now are some images taken by a generous visitor to the same faraway lodge, who was present the same time as myself.

Her name is Lisa Braithwaite and she is an avid amateur photographer and marketing manager for two popular sites in the English Lake District.  This was her first hunting trip for the Northern Lights, and she got lucky.  Even in the far northern Norway winter the lights come and go unpredictably — though you can increase your chances if you show up during a time when the sun is actively sending out solar flares.

She came with a Panasonic Lumix DMC-G5 camera and did a lot of research beforehand to increase her chances of capturing the drama should the lights appear.  Her ISOs ranged from 1,600 to 64,000, and her shutter speed from 5 to 15 seconds.  The aperture setting was 3.5.

In addition to showing some of her work, further on I describe a new NASA-led and international program, based in Norway, to study the still incompletely understood dynamics of what happens when very high energy particles from solar flares meet Earth’s atmosphere.

Partnering with the Japanese Aerospace Exploration Agency (JAXA,) the University of Oslo an other American universities, the two year project will send eleven rockets filled with instruments into the ionosphere to study phenomenon such as the auroral winds and the turbulence that can cause so much trouble to communications networks.

But first, here are some morre of Braithwaite’s images, most taken over a one hour period on a single night.

Arcs are a common feature of the lights, sometimes reaching across the sky.

Read more “The Northern Lights (Part Two)”

The Northern Lights, the Magnetic Field and Life

Northern Lights over a frozen lake in Northern Norway, inside the Arctic Circle near Alta. The displays can go on for hours, or can disappear for days or weeks. It all depends on solar flares. (

May I please invite you to join me in the presence of one of the great natural phenomena and spectacles of our world.

Not only is it enthralling to witness and scientifically crucial, but it’s quite emotionally moving as well.

Why? Because what’s before me is a physical manifestation of one of the primary, but generally invisible, features of Earth that make life possible. It’s mostly seen in the far northern and far southern climes, but the force is everywhere and it protects our atmosphere and us from the parched fate of a planet like Mars.

I’m speaking, of course, of the northern lights, the Aurora Borealis, and the planet’s magnetic fields that help turn on the lights.

My vantage point is the far northern tip of Norway, inside the Arctic Circle. It’s stingingly cold in the silent woods, frozen still for the long, dark winter, and it’s always an unpredictable gift when the lights show up.

But they‘re out tonight, dancing in bright green and sometimes gold-tinged arches and spotlights and twirling pinwheels across the northerly sky. Sometimes the horizon glows green, sometimes the whole sky fills with vivid green streaks.

It can all seem quite other-worldly. But the lights, of course, are entirely the result of natural forces.


Northern Lights over north western Norway. Most of the lights are green from collisions with oxygen, but some are purple from nitrogen. © Copyright George Karbus Photography

It has been known for some time that the lights are caused by reactions between the high-energy particles of solar flares colliding in the upper regions of our atmosphere and then descending along the lines of the planet’s magnetic fields. Green lights tell of oxygen being struck at a certain altitude, red or blue of nitrogen.

But the patterns — sometimes broad, sometimes spectral, sometimes curled and sometimes columnar — are the result of the magnetic field that surrounds the planet. The energy travels along the many lines of that field, and lights them up to make our magnetic blanket visible.

Such a protective magnetic field is viewed as essential for life on a planet, be it in our solar system or beyond.

But a magnetic field does not a habitable planet make.… Read more “The Northern Lights, the Magnetic Field and Life”

2.5 Billion Years of Earth History in 100 Square Feet

Scalding hot water from an underground thermal spring creates an iron-rich environment similar to what existed on Earth 2.5 billion years ago. (Nerissa Escanlar)

Along the edge of an inlet on a tiny Japanese island can be found– side by side – striking examples of conditions on Earth some 2.4 billion years ago, then 1.4 billion years ago and then the Philippine Sea of today.

First is a small channel with iron red, steaming and largely oxygen-free water – filled from below with bubbling liquid above 160 degrees F. This was Earth as it would have existed, in a general way, as oxygen was becoming more prevalent on our planet some 2.4 billion years ago. Microbes exist, but life is spare at best.

Right next to this ancient scene is region of green-red water filled with cyanobacteria – the single-cell creatures that helped bring masses of oxygen into our atmosphere and oceans.  Locals come to this natural “onsen” for traditional hot baths, but they have to make their way carefully because the rocky floor is slippery with green mats of the bacteria.

And then there is the Philippine Sea, cool but with spurts of warm water shooting up from below into the cove.

All of this within a area of maybe 100 square feet.

It is a unique hydrothermal scene, and one recently studied by two researchers from the Earth-Life Science Institute in Tokyo – evolutionary microbiologist Shawn McGlynn and ancient virus specialist Tomohiro Mochizuki.

They were taking measurements of temperature, salinity and more, as well as samples of the hot gas and of microbial life in the iron-red water. Cyanobacterial mats are collected in the greener water, along with other visible microbe worlds.

Shawn McGlynn, associate professor at the Earth Life Science Institute in Tokyo scoops some iron-rich water from a channel on Shikine-jima Island, 100 miles from Tokyo. (Nerissa Escanlar)

The scientific goals are to answer specific questions – are the bubbles the results of biology or of geochemical processes? What are the isotopic signatures of the gases? What microbes and viruses live in the super-hot sections? And can cyanobacteria and iron co-exist?

All are connected, though, within the broad scientific effort underway to ever more specifically understand conditions on Earth through the eons, and how those conditions can help answer fundamental questions of how life might have begun.

“We really don’t know what microbiology looked like 2.5 billion or 1.5 billion years ago,” said McGlynn, “But this is a place we can go where we can try to find out.… Read more “2.5 Billion Years of Earth History in 100 Square Feet”

Messy Chemistry: A New Way to Approach the Origins of Life

Astrobiologist and chemist Irena Mamajanov and prebiotic chemist Kuhan Chandru in their messy chemistry garb at the Earth-Life Science Institute (ELSI) in Tokyo. Mamajanov leads an effort at the institute to study a new “messy” path to understanding how some prebiotic chemical systems led to building blocks of life on early Earth. (Nerissa Escanlar)

More than a half century ago, Stanley Miller and Harold Urey famously put water and gases believed to make up the atmosphere of early Earth into a flask with water, sparked the mix with an electric charge, and produced amino acids and other chemical building blocks of life.

The experiment was hailed as a ground-breaking reproduction of how the essential components of life may have been formed, or at least a proof of concept that important building blocks of life could be formed from more simple components.

Little discussed by anyone outside the origins of life scientific community was that the experiment also produced a lot of a dark, sticky substance, a gooey tar that covered the beaker’s insides. It was dismissed as largely unimportant and regrettable then, and in the thousands of parallel origins of life experiments that followed.

Today, however, some intrepid researchers are looking at the tarry residue in a different light.

Tarry residue from an experiment — a common result when organic compounds are heated.

Just maybe, they argue, the tar was equally if not more important as those prized amino acids (which, after all, were hidden away in the tar until they were extracted out.) Maybe the messy tar – produced by the interaction of organic compounds and an energy source — offers a pathway forward in a field that has produced many advances but ultimately no breakthrough.

Those now studying the tar call their research “messy chemistry,” as opposed to the “clean” chemistry that focused on the acclaimed organic compounds.

There are other centers where different versions of “messy chemistry” research are under way — including George Cody’s lab at the Carnegie Institution for Sciences and Nicholas Hud’s at the Georgia Institute of Technology — but it is probably most concentrated at the Earth-Life Science Institute in Tokyo (ELSI.)

There, messy chemistry is viewed as an ignored but promising way forward, and almost a call to arms.

“In classical origin-of-life synthetic chemistry and biology you’re looking at one reaction and analyzing its maximum result. It’s A+B = C+D,” said Irena Mamajanov, an astrobiologist with a background in chemistry who is now a principal investigator ELSI and head of the overall messy chemistry project.… Read more “Messy Chemistry: A New Way to Approach the Origins of Life”

Nobel Laureate Jack Szostak: Exoplanets Gave The Origin of Life Field a Huge Boost

Jack Szostak, Nobel laureate and pioneering researcher in the origin-of-life field, was the featured speaker at a workshop this week at the Earth-Life Science Institute (ELSI) in Tokyo.  One goal of his Harvard lab is to answer this once seemingly impossible question:  was the origin of life on Earth essentially straight-forward and “easy,” or was it enormously “hard” and consequently rare in the universe. (Nerissa Escanlar)

Sometimes tectonic shifts in scientific disciplines occur because of discoveries and advances in the field.  But sometimes they occur for reasons entirely outside the field itself.  Such appears to be case with origins-of-life studies.

Nobel laureate Jack Szostak was recently in Tokyo to participate in a workshop at the Earth-Life Science Institute (ELSI) at the Tokyo Institute of Technology on “Reconstructing the Phenomenon of Life To Retrace the Emergence of Life.”

The talks were technical and often cutting-edge, but the backstory that Szostak tells of why he and so many other top scientists are now in the origins of life field was especially intriguing and illuminating in terms of how science progresses.

Those ground-shifting discoveries did not involve traditional origin-of-life questions of chemical transformations and pathways.  They involved exoplanets.

“Because of the discovery of all those exoplanets, astronomy has been transformed along with many other fields,” Szostak said after the workshop.

“We now know there’s a large range of planetary environments out there, and that has stimulated a huge amount of interest in where else in the universe might there be life.  Is it just here?  We know for sure that lots of environments could support life and we also would like to know:  do they?

“This has stimulated much more laboratory-based work to try to address the origins question.  What’s really important is for us to know whether the transition from chemistry to biology is easy and can happen frequently and anywhere, or are there one or many difficult steps that make life potentially very rare?”

In other words, the explosion in exoplanet science has led directly to an invigorated scientific effort to better understand that road from a pre-biotic Earth to a biological Earth — with chemistry that allows compounds to replicate, to change, to surround themselves in cell walls, and to grow ever more complex.

With today’s increased pace of research, Szostak said, the chances of finding some solid answers have been growing.  In fact, he’s quite optimistic that an answer will ultimately be forthcoming to the question of how life began on Earth.… Read more “Nobel Laureate Jack Szostak: Exoplanets Gave The Origin of Life Field a Huge Boost”

The Magma Ocean and Us

A vast magma ocean covered the very early Earth in its late period of formation, the likely result of heat from impacts as materials large and small fell to Earth.  The magma ocean climbed to temperatures of 2000˚F and well above and reached depths of hundreds of miles.  Magma breaks the surface now only rarely in volcanic eruption, when it is called lava. This lava lake sits in Mount Nyiragongo, Democratic Republic of Congo. (National Geographic.)

In the late stages of the formation of Earth, the planet was a brutally hot, rough place.  But perhaps not precisely in the way you might imagine.

Most renderings of that time show red-hot lava flowing around craggy rocks, with meteorites falling and volcanoes erupting.  But according to those who study the time, the reality was rather different.

There was most likely no land much of the time, the medium to large meteorites arrived every few thousand years , and the surface was the consistency of a kind of room-temperature oil.  Of course it was not oil, since this was a pre-organic time.  Rather, it was mostly molten silicates and iron that covered the Earth in a “magma ocean.”

At its most extreme, the magma ocean may have been as deep in places as the radius of Mars.  And it would have created thick atmospheres of carbon dioxide, silica dust, other toxic gases and later water vapor.

While meteor impacts did play a major role in those earliest days, the dynamics of the magma ocean were more determined by the convection currents of the super-hot magma (2000 degrees F and more), the high winds blowing above the surface, the steam atmosphere it often created and ultimately by the cooling that over hundreds of million of years led to the formation of a solid crust.

There is a burgeoning scientific interest in the magma ocean, which is expected to be part of the formation of any terrestrial planet and some lunar formations.  The research focuses on the gaining an understanding of the characteristics and diversity of magma oceans, and increasingly on the potentially significant role it plays in the origin of life on Earth, and perhaps elsewhere.

The reason why is pretty simple:  life (i.e., biochemistry) emerged on Earth from geochemistry (i.e., rocks and sediment.)  Some of the earliest geochemistry occurred in the magma ocean, and so it makes sense to learn as much as possible about the very earliest conditions that ultimately led to the advent of biology.… Read more “The Magma Ocean and Us”

Messy Chemistry, Evolving Rocks, and the Origin of Life

Ribosomes are life’s oldest and most universal assembly of molecules. Today’s ribosome converts genetic information (RNA) into proteins that carry out various functions in an organism. A growing number of scientists are exploring how earliest components of life such as the ribosome came to be. They’re making surprising progress, but the going remains tough.


Noted synthetic life researcher Steven Benner of Foundation for Applied Molecular Evolution (FfAME) is fond of pointing out that gooey tars are the end product of too many experiments in his field.  His widely-held view is that the tars, made out of chemicals known to be important in the origin of life, are nonetheless a dead end to be avoided when trying to work out how life began.

But in the changing world of origins of life research, others are asking whether those messy tars might not be a breeding ground for the origin of life, rather than an obstacle to it.

One of those is chemist and astrobiologist Irena Mamajanov of the Earth-Life Science Institute (ELSI)  in Tokyo.  As she recently explained during an institute symposium, scientists know that tar-like substances were present on early Earth, and that she and her colleagues are now aggressively studying their potential role in the prebiotic chemical transformations that ultimately allowed life to emerge out of non-life.

“We call what we do messy chemistry, and we think it can help shed light on some important processes that make life possible.”

Irena Mamajanov of the Earth-Life Science Institute (ELSI) in Tokyo was the science lead for a just completed symposium on emerging approaches to the origin of life question. (Credit: Nerissa Escanlar)

It stands to reason that the gunky tar played a role, she said, because tars allow some essential processes to occur:  They can concentrate compounds, it can encapsulate them, and they could provide a kind of primitive (messy) scaffolding that could eventually evolve into the essential backbones of a living entity.

“Scientists in the field have tended to think of the origin of life as a process going from simple to more complex, but we think it may have gone from very complex — messy — to more structured.”

Mamajanov is part of an unusual Japanese and international group gathered at (ELSI), a relatively new site on the campus of the Tokyo Institute of Technology. It is dedicated to origin of life and origin of Earth study, with a mandate to be interdisciplinary and to think big and outside the box.… Read more “Messy Chemistry, Evolving Rocks, and the Origin of Life”

The Search for Exoplanet Life Goes Broad and Deep

The scientific lessons learned over the centuries about the geological, chemical and later biological dynamics of Earth are beginning to enter the discussion of exoplanets, and especially which might be conducive to life. This is an artist's view of the young Earth under bombardment by asteroids, one of many periods with conditions likely to have parallels in other solar systems. (NASA's Goddard Space Flight Center Conceptual Image Lab)

The scientific lessons learned over the centuries about the geological, chemical and later biological dynamics of Earth are beginning to enter the discussion of exoplanets, and especially which might be conducive to life. This is an artist’s view of the young Earth under bombardment by asteroids, one of many periods with conditions likely to have parallels in other solar systems. (NASA’s Goddard Space Flight Center Conceptual Image Lab)

I had the good fortune several years ago to spend many hours in meetings of the science teams for the Curiosity rover, listening in on discussions about what new results beamed back from Mars might mean about the planet’s formation, it’s early history, how it gained and lost an atmosphere, whether it was a place where live could begin and survive.  (A resounding ‘yes” to that last one.)

At the time, the lead of the science team was a geologist, Caltech’s John Grotzinger, and many people in the room had backgrounds in related fields like geochemistry and mineralogy, as well as climate modelers and specialists in atmospheres.  There were also planetary scientists, astrobiologists and space engineers, of course, but the geosciences loomed large, as they have for all Mars landing missions.

Until very recently, exoplanet research did not have much of that kind interdisciplinary reach, and certainly has not included many scientists who focus on the likes of vulcanism, plate tectonics and the effects of stars on planets.  Exoplanets has been largely the realm of astronomers and astrophysicists, with a sprinkling again of astrobiologists.

But as the field matures, as detecting exoplanets and inferring their orbits and size becomes an essential but by no means the sole focus of researchers, the range of scientific players in the room is starting to broaden.  It’s a process still in its early stages, but exoplanet breakthroughs already achieved, and the many more predicted for the future, are making it essential to bring in some new kinds of expertise.

A meeting reflecting and encouraging this reality was held last week at Arizona State University and brought together several dozen specialists in the geo-sciences with a similar number specializing in astronomy and exoplanet detection.  Sponsored by NASA’s Nexus for Exoplanet Systems Science (NExSS), NASA Astrobiology Institute (NAI) and the National Science Foundation,  it was a conscious effort to bring more scientists expert in the dynamics and evolution of our planet into the field of exoplanet study, while also introducing astronomers to the chemical and geological imperatives of the distant planets they are studying.… Read more “The Search for Exoplanet Life Goes Broad and Deep”

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