Showing posts with label symbiosis. Show all posts
Showing posts with label symbiosis. Show all posts

It’s A Plant World, We’re Just Living In It

Biology concepts – cell walls, chloroplasts, myco-heterotrophs, holoparasites,

Life on Earth is easy. It can be boiled down to three sentences. “The mitochondria and the chloroplasts are, in a fundamental sense, the most important things on Earth. Between them, they produce oxygen and arrange for its use. In effect, they run the place.” Lewis Thomas wrote this in his award winning book, The Lives Of The Cell: Notes Of A Biology Watcher, in 1975.


Nature’s carbon recycling center. The sun’s energy is used to 
polymerize carbon (CO2) into carbohydrates (CHO) and releases 
oxygen (O2). Then the mitochondria use the O2 to break down 
the CHO, resulting in chemical energy (ATP) and carbons (CO2
ready to be polymerized again.
He was so right - for the organisms that use them - I guess he didn't consider the exceptions. These two organelles mesh seamlessly in their functions. One produces carbohydrate and oxygen, while consuming carbon dioxide. The other consumes carbohydrate and oxygen and produces carbon dioxide. The ultimate recyclers.

If these two organelles are the most important things for life, then doesn’t that make plants the kings of life on Earth, since they have both chloroplasts and mitochondria? Makes you feel a bit more humble now about your place in world, doesn't it.

However, this brings up an essential question – and the main focus of today’s topic and exceptions. What makes a plant cell a plant cell? Green algae have chloroplasts and mitochondria, but they aren’t plants, they belong to the kingdom Protista. We have discussed the sea slug, E. chlorotica, and its ability to photosynthesize – it is certainly not a plant. So what makes a cell a plant cell?

Leaving the chloroplast out of the equation for a minute, you could argue that a plant cell is one with a cell wall and cell membrane. That surely separates them from animal cells, since animal cells only have the cell membrane. But many bacteria, archaea, fungi, and algae have cell walls. If the argument is refined to define a plant as having a certain kind of cell wall, then we must look a little closer. Many cell walls are made of sugars, but are plant cell walls unique in their constituents?


True bacteria have two large groupings, Gram+ and Gram -,
based on their cell wall structures. The gram stain sticks to
the peptidoglycan layer, so the thick layer on G+ bacteria make
them stain deeply. The lipopolysaccharide (LPS) layer of the G-
species keeps them from staining, and is highly toxic.
Endotoxin (LPS) and causes about 70% of septic shock cases.
Bacteria cell walls are made of peptioglycan (peptido = amino acid containing, and glycan = polymer of two sugars). One of the two components is always N-acetylmuramic acid, and the other is often poly-N-acetylglucosamine, but other things can be included as well. The exception is the Mycoplasma, a group of small bacteria that don’t have a cell wall at all. Since many antibiotics function by disabling the bacterial cell wall or preventing its formation, they don’t work against mycoplasma infections like M. genitalium, which a 2011 study linked to pelvic inflammatory disease in women.

Fungal cell walls are also made of a polysaccharide (poly = many, and saccharide = sugar), in a polymer called chitin. Chitin is also the rigid polymer that makes so many insects crunch when you step on them. Chitin cell walls are defining for fungi, as many cellulose containing cell wall fungi have been moved out of the kingdom of Fungi. But this still doesn’t tell us what is unique to plant cell walls.

Plant cell walls contain cellulose, and is complex. Plant cell walls can contain up to three layers, with different sugars involved, including cellulose, hemicellulose, and pectin, and lignin. Lignin is a more rigid polysaccharide that gives strength. It is what makes bark hard, protective, and water resistant.


If the hydrogens (H) bound to the #1 and #4 carbons
up on the same side, the polymer is starch. If they
are on different sides, the polymer is cellulose.
We can digest starch: we can’t digest cellulose.
Plants make both – the part we can’t digest we call
dietary fiber.
Celluloseis made of a chain of glucoses, yet we can’t digest it. The number one carbon in glucose has an –H that is sticking up or down. If the –H sticks “down”, then it is an alpha glucose. If it sticks “up”, then it is a beta-glucose. Cellulose is linked chains of beta-glucose. Starch is linked chains and branches of alpha-glucose. Just that difference in –H position determines if it is food for us or not. Herbivores have the enzymes (and bacteria) to digest cellulose, but not us.

So is it the inclusion of cellulose that makes a plant cell wall unique? Well, no. Algal cells also use cellulose in their cell walls. You might try to argue that algae are plants, since many of them also have chloroplasts and are primary producers – but you would be wrong. Algae can be unicellular (although they can also be multicellular) while plants are all multicellular. Algae don’t have specialized reproductive cells or parts like plants do; algae reproduce by spore or from broken parts of themselves. Finally, DNA analysis shows that while plants and algae are monophyletic(one ancestor), they diverged from one another long ago.

Then there is the issue that not every plant cell has a cell wall. In angiosperms (angio = chest or vessel, and sperm = seed; plants with enclosed seeds and flowers), the gamete (sex) cells of the male in the pollen and the gamete cells of the female in the ovary do not have cell walls, at least not on all sides. The ovary contains the ovules (latin for small egg), and the pollen contains the sperm cells and the tube cell, that forms the pollen tube and delivers the sperms cells to the ovules.

After the ovules are fertilized by the sperm cells of the pollen, the ovules form the seeds, and the ovary forms the fruit. From here on in, all the daughter cells will have cell walls. For fertilization, it would make sense that the involved cells would not have a cell wall that would just get in the way of love.


The Sago Palm isn’t a palm, but is one of the most
primitive plants that reproduces with seeds. It
presents a problem to pet owners because every part
is toxic to pets, but it tastes good to them. They don’t
know not to eat it; then they bleed to death.
And even weirder, not all plants use just this strategy. Cycads (like the sago palm, which isn’t really a palm at all), and gingko biloba plants have sperm cells with flagella, long projections that whip and move them along, hopefully toward an egg cell. They don’t use a tube cell or pollen tube; these plant cells without cell walls swim. Plant cells that move, now there is an exception worth noting! Some more primitive bryophyte plants (liverworts, mosses) also have motile sperm, but the cycads and gingko are the only examples of seed plants with motile cells.

So cell walls aren’t a defining characteristic of plant cells either. Maybe it is the chloroplast that defines a plant cell --- maybe not.

As you can guess, there are exceptions going both ways. There are organisms that have chloroplasts that aren’t plants, namely the algae. But a more interesting exception are many of the protozoan Euglenids. Euglena gracilis is a prototypical euglenid that can produce carbohydrate by photosynthesis. However, most euglenids can also eat things, which makes them both autotrophic and heterotrophic.

As for the other direction, there are many plants that don’t have chloroplasts. Of the roughly 350,000 different species of plants on earth, almost 3000 of them are non-photosynthetic. Therefore, the most common characteristic that people use to tell a plant from a non-plant (photosynthesis by chlorolplasts) isn’t true for almost 1% of the species on Earth. That is a pretty big exception. That would be like saying 1% of people on earth don’t have a brain! O.K., maybe that's a bad example.


Indian Pipe is Monotropa Uniflora. Monotropa means
one turn, and uniflora means one flower. The plant is
called the ghost plant – obvious, or the corpse plant –
because it turns black as it matures. This naming thing
is easy!
Indian pipe (Montropa uniflora, or ghost plant) is one such plant. Related to the blueberry of all things, the ghost plant has gone its own way and become parasitic. It garners its nutrients and energy from the tissue of another plant. The roots of the Indian pipe penetrate the rhizoids (root-like projections) of certain types of fungi and sponge off their hard work. In fact, the fungi themselves are symbiotic, having invaded the roots of certain pine tree species.

The fungus and tree live together in a mutualistic relationship, making the fungus a mycorrhizal(myco = fungus and rrhizal = root) variety. The tree supplies the fungus with carbohydrate, and fungus supplies the tree with mineral nutrients. However, Indian pipe does not respect this mutualism and is a parasite of the fungus, taking some of the carbohydrate supplied by the tree. This makes the Indian pipe a myco-heterotrophic parasite.

Other plants without chloroplasts are holoparasitic (gain nutrients only by parasitism).  These would include the rafflesia species of the Indonesian rainforests. These plants are know for having the largest single flowers in the world, some the size of car tires! The plant doesn’t have a stem or root or leaf, it is a vine that grows inside another type of vine. Only when it is ready to flower does it bud out from the bark of the host. The flower takes nine moths to develop, and then smells like rotting flesh in order to attract fly pollinators.


Rafflesia is also known as the corpse flower, as opposed
to the corpse plant (Indian pipe). This is because it
smells like a corpse in order to attract the flies that
pollinate it. This young man is either holding his breath,
has no sense of smell, or is just really odd.
In addition to holoparasitic plants, plant cells without chloroplasts would include those same gamete cells we discussed above as not having cell walls. And neither to do most root cells. However, there are exceptions, like many of the orchids. The ghost orchid has photosynthetic roots, which is a good idea, since they grow directly on other plants; their roots are not buried in the dirt.

Maybe it is not a single characteristic that makes a plant cell a plant cell, or a plant a plant. Maybe it is the combination of cells with cell walls, central vacuoles and in most cases, chloroplasts that make it a plant. I guess it is like beauty; you can’t define it, but you know it when you see it.

Next week we will take another shot at finding a defining characteristic of plant cells, namely the plastid, the mother of all chloroplasts – might there be an exception?




For more information and classroom activities on cell walls or parasitic plants, see:

Cell walls –

Parasitic plants -
http://www.gardenbuildingsdirect.co.uk/Article/parasitic-plants 

The Evolution Of Cooperation

Biology concepts – biological timeline, serial endosymbiosis, endocystosis, evolution


Taxonomy, the placing of species in different
groups based on their characteristics, changes
everyday – literally everyday – organisms are
placed in different groups and groups are created
and eliminated. That better be a temporary tattoo!
If we look at the 3.5 billion year history of life on Earth, we see that out planet was lifeless for almost a quarter of its span, and animals have been around just a short blip of time, a mere 760 million years. Often, it seems that the big numbers to get in the way of understanding the time line as a whole.

If we treat the entire history of earth as one year, we might get a clearer picture. Earth coalesces from space dust on January 1st, but it isn’t until March 22nd that we find the first evidence of life. These most primitive fossils are of the prokaryotes called Archaea (Greek for “ancient”). Not long after this, maybe a week or so, the eubacteria and Archaea separate from one another.

Then we have to wait until August 7th to find a big change; the first eukaryotic organisms are seen. These represent a fundamental change in the organisms, having nuclei and membrane bound organelles. It's amazing that we must travel 3/4 through our one year time line before we see a cell that looks somewhat like ours!


Here is one of the Namibia sponge fossils recently
discovered in Africa. It represents the oldest animal
in the fossil record. Just how that was recognized as a
fossil is beyond me – I think I have six of those in my
garden!
Later in the year, around October 30th at noon, we see the first animals. Fossils of Namibia sponges in Africa were first reported in February of 2012. This fossils are 100 million years older than the previously oldest animal remains, so our new data means that animals have been around for an additional week in our time line of a year.

Insects appear about Nov. 26th, while mammals first show up around Dec. 8th. The dinosaurs became extinct sometime in the afternoon of Dec. 26th, so they had very little time to play with their Christmas presents. Homo sapiens (us) didn’t appear on the doorstep looking for holiday cheer until 11:40 pm on New Years Eve, Dec. 31st!

Our time line analogy shows us that prokaryotes are the wise old ancestors; we aren’t even old enough to be rebellious teenagers, although we still think we know everything. The key question is: how did we progress to analogy-makers from single celled Archaea? If we put together several of the topics we have been discussing in the past three weeks, we may come up with an interesting step in the process. Our clues include:

1) Microcompartments exist in bacteria, like organelles, and they also exist in eukaryotic cells, especially in nucleus' function. This links eukaryotes to prokaryotes.

2) Sometimes cells will engulf objects, parts of other cells, or other cells. Depending on the size of the particle or cell, we may call this endocytosis or phagocytosis, and is similar to how we saw keratinocytes take up melanosomes.

3) Three eukaryotic organelles, the nucleus, the mitochondria, and the chloroplast have double membranes, and they each have their own DNA.

4) There are two different types of prokaryotes, archaea and bacteria.

Bacterial microcompartments give prokaryotes some compartmentalization in order to carry out necessary chemical reactions. Eukaryotes also have some prokaryotic microcompartment remnants, like the nuclear vault complex. This shows crossover between prokaryotes and eukaryotes, and gives us clues about eukaryotic origins. In fact, the currently accepted theory about the evolution of organelles - the very thing that makes cells eukaryotic - has to do with both types of prokaryotes - archaea and bacteria.


There are three types of endocytosis (with exceptions).
Endocystosis of large objects and cells is called phagocytosis.
Internalization of very small molecules and fluid is called
pinocytosis. Other molecules of various sizes have specific
receptors that recognize them on the cell surface. They are
brought in by receptor-mediated endocytosis. Notice that no
matter what method is used, the internalized particle ends up
surrounded by part of the cell membrane.
The key to their interrelationship has to do with endocytosis (endo = into, cyto = cell). Most prokaryotic and eukaryotic cells eat other cells; they do it all the time – it is how heterotrophic organisms (those that can't make their own carbohydrates, ie. non-plants) gain their nutrients. We do it too, just on a larger scale; we eat millions of cells at a time; often these millions of cells can take the shape of a steak or a carrot.

When a cell, protein, other molecule is engulfed by another cell, it is wrapped in a portion of the aggressor cell’s membrane. The naked molecule is now contained in a vesicle, a membrane bound sac, like the melanosome. If the endocytosed material is an entire cell, something that has its own membrane, then it ends up with two membranes, just like the mitochondrion, chloroplast, and nucleus.

Most often, when one prokaryote phagocytoses another, the story is over….gulp, yum, digest. But scientists believe that long ago (sometime in the first week of August in our time line) an endocytosed cell did not go gentle into that good night. Instead, it took up residence in the cell that ate it. In this rare case, it turned out that both cells gained from the situation.

The endocytosed cell was protected from other predators and had a ready supply of nutrients from the parent cell. The captured cell made lots of ATP, but it didn’t need much because it was being supplied with everything it needed; it didn't need to make energy to move or hunt or escape. Most of its ATP production went unused. Perhaps it moved this excess ATP out into the parent cell. So the parent cell gained a source of ATP production. This was mutualism, a type of symbiosis in which both parties benefit.


Clownfish clean the sea anemone and keep it
parasite free. The poisonous anemone provides
a safe environment for the clown fish; no
unwanted house guests! This is a good example of
mutualistic symbiosis. Bet you didn’t know you
learned things from Finding Nemo.
Imagine if the same thing happened with a cyanobacterium, a cell that could perform photosynthesis. The same sort of symbiosis might be set up, with the endocystosed cell providing carbohydrates and the parent cell providing protection.

Now imagine that these captured cells, the photosynthesizer and the ATP maker, replicated themselves inside their parent cells just as they would if they were outside, living on their own. They could easily do this since they still retained their own DNA and cell division mechanisms.

This is in fact what scientists believe happened. The endocytosed cells that produced extra ATP evolved into our mitochondria. Endocytosed cells that could do photosynthesis became the chloroplasts of plants. Not all cells are plants because not all cells with an ancestral mitochondria also ate a cyanobacterium. The fact that plants cells have mitochondria as well as chloroplasts tells us that plant cells developed AFTER cells with mitochondrial ancestors.

But the nucleus may be a tougher nut to crack. It may be that an endocytosed cell good at keeping DNA safe and producing ribosomes became the nucleus, by endocytosis. The data suggests that our DNA is closer to archaeal DNA than bacterial DNA, so it would have been a eubacteria endocytosing an archaea. Or perhaps the archaea invaded the bacterium rather than being endocytosed. The nucleus does have a double membrane and uses some prokaryotic microcompartments to this day, so this could make sense.

But other theories also exist, including one that says an intermediate eukaryotic cell, theoretically called a chronocyte, had developed some organelles on its own or by endocytosis, including a cytoskeleton. This internal structure allowed the cell become bigger, and engulf a cell large enough to evolve into the nucleus.

Another theory uses an evolutionary exception as its basis. Some aquatic bacteria, called planctomycetes (planktos = drifting and mycete = fungus-like), have an organized interior, with something that looks like a nucleus with pores, called a nucleoid. In fact, when they were first discovered, planctomycetes were mistaken for small fungal cells. However, we know they are prokaryotes by DNA sequencing. I thought prokaryotes didn’t have nuclei! Remember that in biology, there is almost always an exception. The planctomycete nucleoid structure suggests that the nucleus may have evolved on its own, without endocytosis.


The planctomycete species, Pirellula (latin for small pear),
is an exceptional bacterium. It has a primitive nucleus
and a stalk that makes it look like a eukaryotic
fungal cell. It was misidentified for a long time, and is
a prime example of why the tattoo above was a bad
idea!
Finally, another theory posits that the nucleus originated from a virus infecting a primitive prokaryote, and this internalized virus forming a nucleus or causing the cell to be predated by another cell. Even though there are different theories for the nucleus, we can see that the three organelles that have double membranes look like they could have been endocytosed cells, that then evolved into the organelles we see today. Endocytosis resulted in symbiosis, so the theory of organelle development is called endosymbiosis.

Endosymbiosis is a cool idea and has lots of support. Besides the double membrane evidence, lets look at how dividing cells get more mitochondria and chloroplasts. These organelles replicate on their own by binary fission, just like bacteria. They can replicate on their own because they have their own DNA. Mitochondrial DNA (mtDNA) and chloroplast DNA (chDNA) are smaller pieces of DNA than nuclear chromosomes, mtDNA and chDNA look much like the small genomes of bacteria. They are also circular pieces of DNA, not linear like our nuclear chromosomes.

By replicating through binary fission, they can be portioned in the dividing cell so that each daughter gets some of these crucial organelles. But it isn’t as if mitochondria and chloroplasts of today look just like the engulfed ancestors. Mitochondrial and chloroplast genomes are greatly reduced from what they used to be.


Serial endocytosis is also called secondary (2˚) endocytosis.
This refers to the movement of DNA from internalized
cells to the nucleus of the endocytosing cell by lateral
gene transfer. This strengthens the symbiotic relationship
between the two organisms until they can be considered
one total organism.
The mitochondria only codes for about thirteen proteins, just enough for it to replicate on its own. The DNA that codes for the rest of the 1500 or so proteins needed for mitochondrial function have been transferred to the nucleus over time. For a discussion of the chloroplast and its horizontal gene transfer to the nucleus, see the posts on C. litorea, the photosynthetic sea slug.

We know that these gene transfers were actual events based on the structure and nucleotide ordering of the mitochondrial and photosynthetic sequences in the eukaryotic chromosomes; they are structured and coded in ways that are typically bacterial. Because of this slow transfer of DNA to the nucleus, endosymbiosis has evolved over time, changing again and again until we got today’s organelles. Therefore, our idea of organelle development is sometimes called serial endosymbiosis theory (SET), because it must have had several different changes through evolution.

Now that we have laid out the evidence and sense for the serial endosymbiosis theory, next week we can talk about some exceptions that show us that that some organisms just can't stick with something that seems to work. Some life just has to take the road less traveled.

For more information or classroom activities on history of life time lines, endocytosis,  serial endosymbiosis theory, evolution of eukaryotes, or planctomycetes, see:

History of life on Earth timelines -

Endocytosis –

Serial endosymbiosis theory –

Evolution of eukaryotes –

Planctomycetes –

More Than The Sum Of Its Parts

Biology concepts – symbiosis, lichen products, weathering, pedogenesis


During the Depression, the Civilian Conservation
Corps got the idea to have unemployed people earn
some money by planting kudzu vine in the South to
reduce erosion. It seemed like a good idea at the
time, but in biology, not all good ideas stay good
ideas. Yes, there is a cabin under all that vine.
Will today’s good idea be tomorrow’s bust? In nature, an adaptation may provide an advantage today, yet be the cause of extinction tomorrow. Conditions rarely remain the same and never duplicate themselves. Very few organisms could develop identically at different times and places – but lichens are the exception.

Genetic studies of lichens from different places and of different ages show us that these amazing organisms have developed numerous times. This doesn’t mean that different lichens have appeared and gone extinct, only to make a comeback. It means that at least seven times in the history of life on Earth, a fungus and a photobiont (algae or cyanobacteria) have developed the exact same symbiotic relationship that we see in today's lichens.

Each of these original ideas has used different fungus types and sometimes different photobionts, but their relationship is identical in each case. Think of that, lichens are such a good idea that over 4 billion years, in deserts, forests, and coastlines lichens have invented themselves again and again. That must be one good idea!

One reason lichens have been so exceptional is that they can survive in places that can’t support much life. This may be the link in the separate development of lichens time and time again. One reason for their success in desolate environments is that they are veritable chemical factories. They make many products, some of which have uses in their stark homelands. Many of these products are unique to lichens.

Lichen acids (also called lichen substances or lichen products) are chemicals made by the lichen by further processing of regular cellular products, making them secondary metabolites. Lichens make 600-800 of these products, and all but 60-80 of them are unique to lichens.


The lichens themselves can be different colors, based on their
constituents. However, their colors may be hidden under the
different lichen products excreted from the cortex onto the thallus.
Here the lichen products are white and crystalline, and probably
mean that the conditions aren’t great for lichen growth.
Even more amazing, neither the fungus nor the algae (or cyanobacteria) that make up the lichen produce lichen acids when they are on their own. Many are made by the fungal component of the lichen, but the type of photobiont included in the symbiosis will control which lichen acids can be made. Most are produced as crystalline powders that are deposited extracellularly, on the stalks or the thallus bodies.

Making lichen acids would be wasted energy if they did not confer some advantage to the lichen, and evidence suggests that they do have specific functions. Lichens that are growing rapidly (for them, still might be only 1 mm/year) make very little of these lichen products. When exerting energy to make biomass, the lichen doesn’t need the lichen acids. This suggests that the acids are most needed when the going is tough, when lichens are trying to survive in poor conditions, ie. on difficult substrates, in drought, in extreme temperature or radiation, etc.

What is more, there must be very specific functions for the different acids based on what the lichen needs to do to survive. Lichens of identical morphology and made up of the same component fungus and algae can make very different acids, depending on their location or environment. Lichens can be grouped into complexes of similar organisms, but they may make different lichen acids.

For example, the Ramalina siliquosa complex of lichens is found on the Atlantic coastline of Europe. Low on the cliffs, most exposed to the sun and saltwater, R. cuspidate produces a lichen acid called stictic acid. However, high on the cliffs, away from the wind and facing toward the continent, R. crassa produces lots of hypoprotocetraric acids, but no stictic acid at all. Finally, R. stenoclada lives in the region between the other lichens, and produces a different lichen acid, norstictic acid. These different positions must present different growth challenges, and the lichens respond by making different acids.

So what do these lichen products do for the symbiots? They can dissolve rock to help anchor the lichen, and they can increase membrane permeability to permit flow of carbohydrates from the photobiont to the mycobiont. Many functions have been proposed and demonstrated, and one lichen acid, usnic acid, is a particularly good example of many of these functions.


Usnic acid is a dye that provides many advantages to the lichen,
but has also been a traditional dye for yarn for hundreds of years.
Usnic acid was first described in 1844, and is a yellow-green dye. Its color provides protection for the lichen from damage by visible and UV light, but this is just the beginning. Usnic acid is also important for protection of the lichen from predation. It has anti-herbivore properties, meaning that tastes bad or is toxic to the snails that like to make a meal of lichens. It has the same effect on insects and many fungi and microbes.

Antibacterial properties are particular strong for usnic acid. Many lichen acids are effective against a group of bacteria called Gram+. These include Mycobacterium tuberculae, several streptococci and staphylococci and some pnemuococcus. But a 2011 study indicates that usnic acid can go even further, and is toxic to Helicobacter pylori, the organism responsible for causing many stomach ulcers. Importantly, the usnic acid is not toxic to the photobiont component, whether it be cyanobacteria or algae. In addition, usnic acid has demonstrated anti-inflammatory properties and is a painkiller (analgesic).

But the most promising and surprising activity of lichen acids is as a degrader of prion proteins. Misfolded prion proteins are lethal to humans and other organisms (see -An Infectious Genetic Disease) and are resistant to being broken down by all known human protease enzymes. But a few lichens can produce a protease that destroys prions, some down to the level of undetectability.  Fungi themselves are susceptible to prion diseases, so this may be why the lichens produce anti-prion enzymes, but no one has checked lichens for prions. Not enough is known yet to predict if lichen products could be used as treatments for Creutzfeld-Jakob or fatal familial insomnia; here’s your chance to win a Nobel Prize!

This may be an important human use for lichens, but humans have been using lichens for thousands of years. Many of the dyes we use are lichen acid based, as is the litmus dye used in pH paper. Other uses have been more inventive, like as stuffing in Egyptian mummies and in Native American Indian diapers! If these don’t appeal to you, perhaps the Iceland-made lichen schnapps will be more your style. It supposedly tastes a lot like mouthwash.

However, we are amateurs compared to lichens in using the lichen acids. Lichens also use these products to grown on rocks. No soil needed. Crustose lichens are firmly attached to rock surfaces; they can’t be separated without damage…. to the rock.


Some lichens can protect themselves from poor environments by
Living within the rocks. Euendolithic lichens, like the one shown
above, bore into the rock using lichen acids, and then grow under
the surface of the rock. “You make a better door than a window,”
apparently doesn’t apply to rocks, because the endolithic lichens still
get enough light to perform photosynthesis.
Lichen acids can chemically weather rock by literally dissolving it. This provides crevices for the lichen to attach itself. Lichens can live on top of the rock (epilithic, epi = on top, and lith = stone), or they can be endolithic (within the stone). Within endolithic types, they can be chasmolithic, meaning they limit themselves to the fissures in the rocks and between the mineral grains, or they may be cryptoendolithic, meaning that the lichens grow within natural cavities in the rock. Finally, there is euendolithic lichens, and these are the toughest guys. They can dissolve the rock to the point of boring directly into the rock and creating its own cavities. Interestingly, the lichen will absorb much of the dissolved minerals, up to concentrations that would kill other organisms. This may prevent predation by making the lichen toxic to things that might eat it.

This ability to grow below the surface of a rock is exceptional. The photobiont must still be close enough to the surface to receive sunlight, but growing beneath the surface can protect the lichen from destructive forces of nature. Together with lichen acid protection from UV radiation and the lichens ability to survive extreme temperatures, the ability to grown inside rocks has implications for space travel. 

We know that lichens can survive in space (I’m Likin’ The Lichen) and growing inside rocks would protect them from re-entry temperatures, so could lichens have arrived on Earth from outer space? Pangenesis is the theory that life on Earth arriving from other planets, and lichens seem like a natural for this process. Unfortunately, pangenesis is most often considered with bacteria alone, and as a theory it has not got much to support it. But it is still an interesting proposition.


This rock is getting a good does of biological weathering. Tree roots,
lichens, and probably burrowing animals are all working to reduce
this noble boulder to gravel.
Growing inside rocks and dissolving the rock as needed promotes weathering breaking down of rock). Two type of weathering are brought about by lichen grown. Physical weathering comes primarily from turgor pressure. When the lichen takes up water (when it can get some), it swells and puts pressure on the fissures of the rock. Over time, this will lead to cracks and parts of the rock falling off.

There is also chemical weathering. This comes from the lichen acids dissolving the rock. Some of the minerals are mixed with the bits of rock that break off due to physical weathering and the organic material left over from dead lichens. All together, this makes soil. The process of pedogenesis (soil formation) is an important aspect of lichen growth. Making soil promotes the succession of bigger and more complex life forms, which then continue the weathering and soil formation. Look around you, all that dirt outside your window, deeper than you could dig, is there because of lichens started it all off – amazing. Lichens could be the most important player when it comes to human terraforming (terra = Earth and form = make like) another planet for future colonization.


Lichen growth on Easter Island. This ancient
statues can’t survive much Moai!
Not everything about weathering rock by lichens is good; consider their effects on stone statues. Some people say that the covering is protective, keeping the wind and sun from damaging the statue, but other say the chemical weathering promotes their breakdown. At Mount Rushmore, workers actively scrub the mountain to remove lichens and prevent the aging of Presidents Lincoln, Roosevelt, Jefferson, and Truman. How would you like to have that job, hanging off a cliff scrubbing out Theodore Roosevelt’s huge nostrils?

There is a strange dichotomy with lichens. They have arisen many times. They live thousands of years. They live in space, surviving radiation, extreme temperatures, and dryness. But lichens are very susceptible to pollution, it kills them or stops their growth.  Lichens have billions of years of success behind them, but it took humans to find a way to kill them off. As such, we now use lichens as indicator species, to determine if pollution concentrations are affecting nature. They built our world, now maybe they can help us to save it.

Heng Luo, Yoshikazu Yamamoto, Hae-Sook Jeon, Yan Peng Liu, Jae Sung Jung, Young Jin Koh and Jae-Seoun Hur (2011). Production of Anti-Helicobacter pylori metabolite by the lichen-Forming fungus Nephromopsis pallescens Journal of Microiology DOI: 10.1007/s12275-011-0289-9

For more information on lichen products, biological weathering, or pedogenesis, see:

Lichen acids –

Biological weathering –

Pedogenesis –
files.dnr.state.mn.us/education.../activities/.../lichens_studyguide.pdf

I’m Likin’ The Lichen


Biology Concepts – symbiosis, mutualism, lichens


The lycan is a subject better relegated a cryptozoology
blog. Along with the Loch Ness Monster, vampires, and
the Easter Bunny, cryptids are those animals for
whom there is little or no solid evidence, yet the search
for them by some devotees continues.
A current movie craze has been to replace werewolves with lycans, animals that can control there physical changes to wolf, and can survive under difficult conditions. I know of another organism that has even greater powers, but wouldn’t make a great movie monster – they don’t move and are very slow growing.

Lichens (not lycans) are some of the most intriguing species on Earth, and may very well be the most amazing organisms off Earth as well. Lichens don’t necessarily break a lot of biological rules; they just refuse to acknowledge that our rules apply to them. They write their own rulebook, and humans can’t come close to playing by their rules. They make us look like such wimps. In lichen gym class, we wouldn’t be picked last - we wouldn’t picked at all.

Lichens are symbiots of two completely unrelated organisms; one is the mycobiont, which is always a fungus. The other component is the photobiont, and can be either a green algae or a cyanobacteria. The fungal partner of the lichen makes up about 80% of the mass, but the algae or bacterial component is photosynthetic. Therefore, when they become a mutualistic symbiot, the mycobiont provides a structure and a foothold to a surface, while the photobiont supplies energy through photosynthesis.


Lichens provide food for many animals. For instance, the
Cladina Stellaris grows in the desolate Arctic. It provides
food for the resident reindeer, who we know from past posts
can disconnect its biological clock and feed all through the
day. The reindeer must be particular though, because it will
take the reindeer lichen decades to recover from grazing,
since it grows only 3-5 mm each year.
This is the first exception when dealing with lichens – what are they? They certainly aren’t plants, since they contain a fungal element and not plant element. But they aren’t fungi, since they also contain a bacterial (the cyanobacteria) or protist element (the algae). They are kings in search of a kingdom. Just like Lady Gaga, they defy classification as normal life!

Fungi are decomposers; they break down organic materials to produce nutrients and carbohydrates. But in the lichen, the photobiont produces glucose by photosynthesis, so there is no need for the fungi to decompose for energy. The lichen stores most of its soluble carbohydrate as sugar alcohols, which are made by the fungal component from the algae/cyanobacteria-produced glucose. Therefore, the fungus provides a carbohydrate storage mechanism as well as a structure. These aspects give lichens the ability to live where neither the fungus nor the algae could live on its own.

The second amazing aspect of the lichen symbiosis is that the lichen doesn’t look like either the fungus or the algae that makes it up. It also doesn’t look like a mix of the two. The lichen creates a whole new morphology, with the photobiont housed below a layer of the modified fungus. In the case of lichens, you add 2 + 2 and get a Chevy.

The thallus is the body of the lichen (latin for “green shoot”). In most cases, the thallus is a layer of the fungus, called a cortex, with the photobiont house just below the cortical layer. Enough light still reaches the algae or cyanobacteria in order to make photosynthesis possible.  Below the photobiont layer is the medulla, and can include a stringy (hyphal) fungus layer or maybe just the gelatinous photobiont. Finally, some lichens will have a lower cortex layer of fungus as well. The take home message is that neither the fungus nor the algae or cyanobacteria take on any of these forms UNLESS they are part of a lichen – it is a completely different structure.

Not every lichen has a lower cortex layer, but almost all
have the top cortical layer of tough fungal material. This
layer protects the lichen from predation and dessication
(it does nether spectacularly well). The photobiont lives
primarily in the subcortical symbiont layer, while the
medulla is spongy and has many fungal filaments. The
rhizine connects the lichen to its substrate, but many
lichens are erhizinate, they do not have rhizines.
The mycobiont is the more flexible of the two components; literally thousands of different fungi can act as the mycobiont. On the other hand, only 100 or so different photobionts exist. Most common of these are of the species Trebouxia. They are green algae which rarely live on their own, they have become specialized for symbiotic life as a lichen.

The combination of these two components yields the over 17,000 different lichens that have been identified. The combinations are also flexible, a lichen may use different photobionts during its life, and identical lichen types may use different photobionts even within the same general area.

The combinations of decomposer and autotroph that make up lichens are hearty and diverse. Fully 8% of the Earth’s surface is covered with lichens, not bad for something so small. More amazing is that lichens can survive in places that support almost no other life. Lichens and endolithic bacteria are only living things in the McMurdo Dry Valleys of Antarctica, as well as the Atacama desert of Chile, often called the two driest places on Earth (I think they forgot about Lynchburg, TN).

The McMurdo Valleys (4,800 sq. km) are a cold desert environment (Water, Water, Everywhere). They are almost ice and snow free, even though they are on the frozen continent of Antarctica. Less than 200 mm (8 in) of precipitation is available each year, and most of this is from summer glacier melt.


The Atacama Desert in Chile is a desolate wasteland,
no offense to any inhabitants. It probably has its
nice parts too.  Parts of the desert have had no
recorded rainfall..... ever. This leads to some
interesting formations, like these geometric salt
patterns, very appropriate for this series of posts.
The average rainfall in the entire Atacama Desert is even less, only about 1mm (0.04 in) per year, and many weather stations have never recorded any precipitation at all. The lichens survive on the water vapor that reaches them from the coastal fog,which comes from 150 km (80 miles) and a mountain range away. Interestingly, an extreme Antarctic cold front brought 80 cm (31.5 in) of snow to the plateau in July of 2011! This was enough to bring wildflowers to the Atacama, in places they had never been seen before.

Despite (or perhaps because of) these arid environments, lichens are the major form of life in the Atacama Desert and McMurdo Valleys. Most organisms cannot survive a loss of 20% moisture, but lichens can do just fine when 90% dehydrated. While their growth may be retarded, they quickly make up for it by absorbing up to 35x their mass in water when it is available. Lichens dry out slowly because of the dense cortex of fungus on the outside, so they can still photosynthesize despite long arid periods.

Even more exceptional, the lichen symbiot is less than 50% water, even on a good day. Mushrooms are 92% water, and algae or bacteria are typically 96% water, but when you put them together as a lichen, their normal water content is some 40-45% lower. This is how the lichen can live in places that would not support either of its components on their own – amazing.

The deserts, both cold and hot, allow the lichens to show off another of their skills. Lichens can withstand extreme temperatures and wild swings in temperature. Scientists keep thinking up new ways to torture them. Lichens survived a bath in liquid nitrogen at -195 ˚C. Not satisfied that they had been treated harshly enough, European Space Agency scientists strapped some lichens to a rocket and exposed them to the cold and radiation of outer space for 14.6 days. Cold, hot (shielded re-entry), vacuum, UV, cosmic rays – the lichens survived just fine. Because of this will to live, exobiologists (scientists who study what life on other planets might be like) study lichens as a model alien life form or as an organism with which we might seed other planets.

Lichens (or something similar to them) are likely to be found on other planets, but they also may affect other forms of life off Earth. A recent study by performed in Italy and the UK has shown that the few animal types (rotifers, nematodes) that are able to survive dessication as lichens can are influenced greatly by their environment. They may have different ways to survive drought, but statistical modeling shows that the type of lichen they are found in has more to do with their survival in drought or even in space than their own tolerance mechanisms.


Lichenometry is the art and science of investigating
how long a surface has been exposed. For example,
moraines are gatherings of stones at the edges of
glaciers. How long has it been since the glacier receded
from that spot? Lichens grow at a predictable rate given
a known environment, so measuring the size of a lichen
will give good estimate of how long the surface has been
available to be lichenized (just made up that word).
As a result of the poor environments where lichens can be found (although they also grow just fine in temperate areas- just look outside your front door), lichens are the slowest growing life forms on Earth. Usnea sphacelata, which looks like a small forest of bonsai, grows about 0.01-1 mm per year. Usnea can only grow on about 120 days per year, but they live a very long time. An age of 200 years is not unusual, the record is about 4500 years.

In a defined area with a defined weather pattern, lichens may grow at a very slow rate, but it is a very consistent rate. This predictability makes them good for dating other structures, a process called lichenometry. For instance, lichens can be use to estimate how long a rock face has been exposed by a retreating glacier. Once the rock is uncovered, lichens will soon colonize it and grow at a consistent rate. Once you know the size of the lichen, identify the type of lichen, and know its growth rate for that area, an age for the exposure can be calculated.

Next week we will talk more about the amazing properties and abilities of lichens, but one last tidbit for today. For anyone who has read Peter Rabbit or Benjamin Bunny to their child, Beatrix Potter is a familiar name. Before becoming a famous author, Beatrix made a living by illustrating other author’s books and doing some scientific illustrations. She was an outdoorsy girl, and her pictures of lichens led her to study them on her own.


Beatrix Potter wrote more than 20 childrens classics; the
illustrations were her own and are perhaps more iconic than
her prose. But she started out working on lichens, and was a
devout “Schwendenerist,” a follower of Simon Schwendener’s
idea of lichen symbiosis. I got the chance to collaborate with
one of Simon’s distant relatives a few years ago. Hi Reto!
While the dual hypothesis of lichens had already been put forth by Simon Schwendener, it was not well received in England. Potter used microscopy and her drawings to generate evidence for Schwendener’s hypothesis. However, she was not a scientist, and worse, she was a woman – so she couldn't present her evidence to the botanists of her time. Her uncle was Sir Henry Roscoe, the eminent scientist who developed the first flashbulbs for photography (along with another scientist named Bunsen – name sound familiar?). He supported her and read her papers into the scientific record, but she could never make name for herself as a scientist in that environment, so she turned to writing. It was a lucky thing for us all – a world without Flopsy and Mopsy is too horrible to imagine.


Fontaneto, D., Bunnefeld, N., & Westberg, M. (2012). Long-Term Survival of Microscopic Animals Under Desiccation Is Not So Long Astrobiology, 12 (9), 863-869 DOI: 10.1089/ast.2012.0828
For more information or classroom activities on lichens, exobiology, or lichenometry, see:

Lichens -

Exobiology –

Lichenometry –
www.geog.uvic.ca/dept2/faculty/smithd/.../06%20Geog%20477.pdf
nature science for kids,nature science definition,nature science articles,nature science jobs,nature science museum,nature science projects,nature science magazine,nature science journal nature science for kids,nature science definition,nature science articles,nature science jobs,nature science museum,nature science projects,nature science magazine,nature science journal