Arboretum Lichens
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Lichens In The Palomar College Arboretum
© W.P. Armstrong (Updated 1 March 2022)
Discalimer: Lichen classification is difficult. Consequently, I have used the Latin abbreviation "cf." extensively on this page for species identifications. It means "compare with" because I am not certain about the species epithet (2nd name of binomial). I do not want to upload (transmit) misidentified images into the universe.
 1.  Lichens On Nearby Owens Peak 
 2.  Introduction To Lichens & Desert Varnish   
 3.  Tentative Palomar Arboretum Lichens   
 4.  Chris Wagner Arboretum Lichen List  
 5.  Wayne's Word Index Of Lichen Images  
 6.  Soil Lichens On Nearby Emerald Heights  
 7.  On This Page: Nonlichenized Black Rock Fungus  

A Brief Explanation Of Amazing Lichens
Symbiogenesis is the long-term, stable symbiotic relationship between two or more organisms. Lichens are one of the best examples of symbiogenesis involving the fusion of algal and fungal genomes (kingdoms Protista and Fungi). Some lichens include the genome of a third kingdom Monera because they contain prokaryotic cells of cyanobacteria. In the case of lichens, this genomic merger has enabled these organisms to survive in some of the most inhospitable environments on earth, where neither symbiont could survive on its own. In fact, lichens are an excellent example of synergism because the whole is truly greater than the sum of its parts. The algal and fungal components develop into a unique body form with morphological features quite different from either symbiont. The following image shows a good example of the fungal & algal components of a lichen called "British soldiers" (Cladonia cristatella) growing separately in test tubes. This species does not grow in the Arboretum; however, we have a different species of Cladonia on moist, shady banks in the local hills.

British soldiers (Cladonia cristatella), a soil lichen with upright podetia bearing bright red apothecia at the tips. At the bottom of the centrifuge tube (left), the fungal component of this lichen (also named C. cristatella) has grown into a white, amorphous blob without its algal symbiont. In the right test tube, the algal symbiont (named Trebouxia erici) has grown into a mass of bright green cells. Only when these two symbionts form the "marriage" known as lichen is the unique structure of "British soldiers" formed. In true synergistic fashion, the lichen is truly more than the sum of its parts. For example, the podetium is a unique lichen structure that is not found in the algae or fungi.
Lichens (Lichenized Fungi): Nature's Perfect Marriage

Of all the marvelous species of fungi on earth, the lichens are perhaps the most fascinating of all. Several hundred million years ago, a most remarkable marriage took place between the vast kingdoms of algae and fungi. Although these diverse kingdoms have survived more than a billion years of evolution, their union into a symbiotic life form called "lichen" enabled them to colonize practically every conceivable habitat on earth. Throughout rain-soaked forests of the world lichens hang in festoons from the tall branches, clothe the trunks and limbs in shrouds of green and gray, and carpet the ground in colorful shades of yellow, orange and red. Lichens flourish under the most extreme conditions, from windswept alpine peaks and frozen Arctic tundra, to sunbaked desert boulders and wave-battered rocky seashores. Lichens have also made themselves at home throughout our urbanized environment, including fence posts and roofing shingles, metal and painted surfaces, concrete and masonry, tombstones and statues, stained glass windows, and on the President's faces at Mount Rushmore National Memorial. But in spite of their amazing tenacity, many lichens are extremely sensitive to atmospheric pollution--a serious human blight that may lead to their extinction in the wild.

Many lichen species occur in the Edwin & Frances Hunter Arboretum at Palomar College.

It wasn't until 1867 that the dual symbiotic nature of lichens was described by the Swiss botanist Simon Schwendener. Schwendener's hypothesis resulted in a bitter controversy among his colleagues who considered the green cells within lichens to be reproductive bodies of the fungus called gonidia. Free-living algae which resembled the green cells were considered to be gonidia which had escaped from the lichen thallus. Writing in Volume 13 of Popular Science Review (1874), the prominent English botanist J.M. Crombie referred to Schwendener's hypothesis as an "unnatural union between a captive Algal damsel and a tyrant Fungal master." Beatrix Potter, an excellent naturalist, writer and scientific illustrator of her time, wrote a paper on lichens in 1896. It included meticulous drawings to document her microscopic observations of fungal filaments intertwined with algal cells. Although never officially published, the paper was read at a meeting of the Linnaean Society on April 1, 1897. [Historical Note: Women were not admitted as Fellows (or members) of the Society until 1905.] Later, Beatrix Potter turned her attention to writing the "Tales of Peter Rabbit" and numerous other stories--much to the delight of children everywhere.

A remarkable biochemical phenomenon resulting from the alga-fungus union in lichens is the production of lichen acids, unique phenolic compounds produced by no other organisms. In fact, they are not even produced by the separate fungal or algal symbionts, only by the combined lichen. This is a another example of a synergistic relationship where the sum is greater than the parts. Lichen acids have the unusual property of changing colors under different pH conditions. In fact, the litmus dye that turns red in acid solutions and blue in alkaline solutions was originally derived from the fruticose lichen Roccella. The color change under different pH conditions is caused by changes in the electron configuration (resonance) of the molecule. This affects absorption and reflection of light; hence, the vivid color changes.

The presence of certain lichen acids is used to identify some species. A drop of sodium hydroxide or lye (NaOH) and a drop of sodium hypochlorite or household bleach (NaClO) is added to the exposed lichen tissue (cortex and medulla) to see if it turns yellow, purple or red. [The cortex is the outermost layer of the thallus composed of compressed hyphal cells. The medulla is the innermost layer of the thallus composed of loosely interwoven hyphae and algal cells.] Since potassium hydroxide (KOH) rather than NaOH has been commonly used on lichens, the hydroxide test is abbreviated as K. The hypochlorite test is abbreviated as C. The following table shows some of the color changes for K+ and C+. Of course, K- and C- indicates a negative reaction with no color change.

K+ yellow indicates a positive reaction for atranorin (cortex), alectorialic acid (medulla) and stictic acid (medulla).
K+ yellow turning red indicates a positive reaction for norstictic acid and salazinic acid (medulla).
C+ red indicates a positive reaction for gyrophoric acid, lecanoric acid and olivetoric acid (medulla).
The orange cortical pigment parietin in Caloplaca, Teloschistes and Xanthoria has a K+ reaction of deep purple.

Tools for the field identification of lichens: A. 20x hand lens, B. single-edge razor blade, C. depression slide for testing lichen sample with NaClO and NaOH, D. 10% sodium hypochlorite or bleach (NaClO), E. 10% sodium hydroxide or lye (NaOH), F. needle probe and F. sharp-pointed forceps.

In addition to color changes, it is often necessary to examine spores of the fungal symbiont under a compound microscope to determine the species of a lichen. Some of the characteristics include: Number of spores per ascus, spore size, shape & color, and whether spores are simple (1-celled), 2-celled, or composed of several compartments (muriform). Color photo images are often not sufficiently diagnostic. I once attempted to learn lichen taxonomy but eventually went back to flowering plants, my primary botanical background. After my retirement from Palomar College I returned to ant identification, my childhood obsession, and found these minute, remarkable insects even more challenging than lichens!


A Few Lichens That Decorate The Monzogranite Boulders In
The Edwin & Frances Hunter Arboretum At Palomar College
IDs Are Tentative, With cf. Placed Before Specific Epithet. Some of these names came from old references. Like other fields of plant taxonomy, older names have been updated, especially with new revelations in comparative DNA.


Trapelia cf. coarctata


Xanthoparmelia cf. cumberlandia


Dimelaena cf. radiata


1. Black Coating On Boulders

As of 6 Mar. 2022, I now conclude that this is an unknown fungus that grows on boulders especially in the shade of trees. It is probably in the fungus division Ascomycota

For many decades I have pondered over the identity of two black, crustose "lichens" covering monzogranite rocks and boulders in the Palomar College Arboretum. Many years ago, I attempted to key these "lichens" down to species with two very old, classic references. I checked the names with the University of California Checklist of California Lichens; however, I never felt comfortable with the identity of the following black coating on boulders.

  1. Fink, B. 1935. The Lichen Flora of the United States. University of Michigan Press. 424 p.

  2. Hasse, H.E. 1913. "The Lichen Flora of California." Contributions From the United States National Herbarium 17 (1): 1-132.

  3. University of California Checklist Of California Lichens by Shirley C. Tucker & Bruce D. Ryan

Dark, nonlichenized rock fungus in the shade of Casuarina trees.

Dark coating on rocks & boulders in the Palomar College Arboretum. I once thought it was a lichen; however, I now think this is a non-lichenized rock fungus. My conclusion explains the lack of characteristic lichen structures, such as cup-shaped apothecia of ascolichens. Under microscopic examination (400x) with compound microscope it lacks green, photosynthetic algal cells (photobionts), hymenial layer with spore-bearing sacs (asci) & hairs (paraphyses). Microscopic examination shows brown, 2-celled (1-septate) spores mixed with numerous colorless, spherical fungal cells. See following image of typical lichen:

Left illustration shows a typical lichen with cup-shaped apothecium lined on the inside with spore bearing sacs (asci) and hairs (paraphyses). This lining is called the hymenium. There is also a layer of green algal cells (photobionts) & rhizines on lower surface. In some lichens the algal cells & fungal hyphae (called soredia) escape through a special opening called the soralium. These typical lichen structures do not occur in following images from above black-coated boulder.

Microscope Images Of Black Rock Fungus Taken 6 Mar. 2022

   See Rock Inhabiting Fungus (RIF) In The Superstition Mtns Of Arizona  


Verrucaria cf. nigrescens: A Black Rock Lichen

Verrucaria Family (Verrucariaceae)

Another dark brown (black), crustose rock lichen in the Palomar College Arboretum. The thallus is areolate (cracked into sections called areoles) like dried, cracked mud. It is thicker than previous black lichen and the ascocarps are perithecia rather than apothecia. I am reasonably confident that it is a species of Verrucaria. The orange lichen is Caloplaca bolacina. Its thallus is composed of small scalelike, lobed (lobulate) squamules. The squamules are similar to areoles except they lift slightly from the rock surface along the margins. The apothecia have an orange disk and paler thalline rim (margin). The rim is the same color as the thallus and contains photobiont cells.

Another crustose rock lichen with a dark brown or black thallus grows on rocks and boulders in the Palomar College Arboretum. This is a pyrenocarpous lichen with perithecia rather than apothecia. The perithecia are embedded in the thallus and are very small. Younger perithecia are almost completely embedded in the thallus. In older perithecia, the emergent portion of the perithecium is conical-spherical, 0.2-0.4 mm in diameter. The spores are colorless and simple (non-septate), about 20 µm long and 8 per ascus. The paraphyses break down or gelatinize (deliquesce) and are not visible when the spores are mature. The thallus is areolate, cracked into irregular sections (areoles) like dried, cracked mud. Another species in San Diego County, V. viridula, is very similar except the cracks between the areoles are wider. In the latter species the areoles are more distinctly separated from each other. In addition, the thallus of V. viridula appears greenish-brown when wet. V. nigrescens has an enormous worldwide distribution, including North America, Europe, Asia and northern Africa. Aquatic species of Verrucaria grow on boulders along streams and waterfalls, and the marine V. maura grows on rocks of the wave battered intertidal zone.

Left: Magnified view of Verrucaria cf. nigrescens. Younger perithecia are almost completely embedded in the thallus. The cracks in thallus are thinner than V. viridula. In addition, V. viridula has more widely separated and distinct areoles. When wet, the thallus of V. nigrescens does not appear greenish as in V. viridula. 20x under dissecting microscope.

Right: Magnified view of an ascus of Verrucaria cf. nigrescens. The colorless, simple (nonseptate) spores are about 16-22 µm in length. 1000x under compound microscope.

 See The Marine Lichen Verrucaria maura 
Ascus & Spores Of Verrucaria viridula


cf. Buellia sp. on Monzogranite Boulder

This rock lichen near top of hill above Arboretum appears to be in the genus Buellia. It resembles B. dispersa that grow on rocks & boulders in southern California. I took the following microscope image many years ago from a nearby boulder. It seems to fit the genus Buellia rather nicely.

Magnified view of above lichen: A. Brown, 2-celled (1-septate) ascospore. B. Ascus containing eight ascospores. C. Immature ascus. D. Black-tipped paraphyses. The length of each oval ascospore is 12-16 µm about twice the diameter of a single human red blood cell (erythrocyte). 400x under compound microscope.


A Few Soil Lichens In Edwin & Frances Hunter Arboretum At Palomar Arboretum


Trapeliopsis? cf. granulosa


Cladonia cf. chlorophaea

Cladonia cf. chlorophaea, a common soil lichen on shady, moss-covered banks and road cuts throughout the chaparral of coastal San Diego County. Although the flattened thallus resembles a foliose lichen, it is technically a fruticose lichen because of the upright structures called podetia that resemble miniature golf tees. The flowering plant is Jepsonia parryi, a native perennial that grows on shaded slopes among mosses, liverworts and lichens. The generic name commemorates Willis Linn Jepson, famous California botanist who wrote the original Manual of the Flowering Plants of California (1923).


Tardigrades "Water Bears" Belong To Seldom-Seen Phylum Tardigrada

Although Fairly Common On Mosses & Lichens, These
Minute Creatures Are Seldom Seen By The Casual Observer!

Magnified view of yellow coblestone lichen (Acarospora socialis) and tardigrade (black arrow). The sections (areoles) are about 1-1.5 mm in diameter, some of which contain a sunken hymenial layer. The tardigrade is only about 0.25 mm long (1/100 of an inch).

Minute tardigrades (Phylum Tardigrada) are only about 0.25 mm long (1/100 of an inch). Although they are fairly common on mosses and lichens, they are rarely seen. They are called "water bears" because of their fat body with stubby legs bearing claws at the tips.

In the movie,Ant-Man and the Wasp, their journey into the "Quantum Realm" passed through a "Tardigrade Field." Here is a Tardigrade Field at my home in Twin Oaks Valley! Three eggs are visible in the upper right Tardigrade

  Wayne's Word Evolution Page: Selection In Tardigrades: Are They Over-Equipped?