Coral Reefs in Cozumel

Reef and yellow fish Cozumel
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Are Coral Plants or Animals?

The coral reefs off the coast of Cozumel are part of the Mesoamerican Reef—the second-largest barrier reef system in the world.

Corals and wildlife are connected across the Mesoamerican Reef, so what happens in Cozumel can affect coral reefs and communities in other nearby countries.

But like in many areas along the Central American Caribbean coast, coral reefs in Cozumel are in trouble. Unsustainable tourism and overfishing damage critical habitat and remove important wildlife that help keep coral reefs healthy.

In 2019, Cozumel received 4.2 million visitors from cruise ships alone. While visitors come for the beautiful blue waters and white sand beaches, the influx of tourists and the businesses to support those tourists place a heavy burden on Cozumel’s coral reefs.

What are Coral Reefs

Appearing as solitary forms in the fossil record more than 400 million years ago, corals are extremely ancient animals that evolved into modern reef-building forms over the last 25 million years. Coral reefs are unique (e.g., the largest structures on earth of biological origin) and complex systems. Rivaling old growth forests in longevity of their ecological communities, well-developed reefs reflect thousands of years of history

Corals and their Kind

Corals are anthozoans, the largest class of organisms within the phylum Cnidaria. Comprising over 6,000 known species, anthozoans also include sea fans, sea pansies and anemones. Stony corals (scleractinians) make up the largest order of anthozoans, and are the group primarily responsible for laying the foundations of, and building up, reef structures. For the most part, scleractinians are colonial organisms composed of hundreds to hundreds of thousands of individuals, called polyps (Barnes, R.D., 1987; Lalli and Parsons, 1995).

Close-up of Oculina varicosa polyps. (Photo: John Reed)

As members of the phylum Cnidaria, corals have only a limited degree of organ development. Each polyp consists of three basic tissue layers: an outer epidermis, an inner layer of cells lining the gastrovascular cavity which acts as an internal space for digestion, and a layer called the mesoglea in between.


Structure of a typical coral polyp.

All coral polyps share two basic structural features with other members of their phylum. The first is a gastrovascular cavity that opens at only one end. At the opening to this cavity, commonly called the mouth, food is consumed and some waste products are expelled. A second feature all corals possess is a circle of tentacles, extensions of the body wall that surround the mouth. Tentacles help the coral to capture and ingest plankton for food, clear away debris from the mouth, and act as the animal’s primary means of defense.

While coral polyps have structurally simple body plans, they possess several distinctive cellular structures. One of these is called a cnidocyte—a type of cell unique to, and characteristic of, all cnidarians. Found throughout the tentacles and epidermis, cnidocytes contain organelles called cnidae, which include nematocysts, a type of stinging cell. Because nematocytes are capable of delivering powerful, often lethal toxins, they are essential to capturing prey, and facilitate coralline agonistic interactions

Most corals, like other cnidarians, contain a symbiotic algae called zooxanthellae, within their gastrodermal cells. The coral provides the algae with a protected environment and the compounds necessary for photosynthesis. These include carbon dioxide, produced by coral respiration, and inorganic nutrients such as nitrates, and phosphates, which are metabolic waste products of the coral. In return, the algae produce oxygen and help the coral to remove wastes. Most importantly, they supply the coral with organic products of photosynthesis. These compounds, including glucose, glycerol, and amino acids, are utilized by the coral as building blocks in the manufacture of proteins, fats, and carbohydrates, as well as the synthesis of calcium carbonate (CaCO3). The mutual exchange of algal photosynthates and cnidarian metabolites is the key to the prodigious biological productivity and limestone-secreting capacity of reef building corals.

Healthy staghorn coral.

Zooxanthellae often are critical elements in the continuing health of reef-building corals. As much as 90% of the organic material they manufacture photosynthetically is transferred to the host coral tissue.

If these algal cells are expelled by the polyps, which can occur if the colony undergoes prolonged physiological stress, the host may die shortly afterwards. The symbiotic zooxanthellae also confers its color to the polyp. If the zooxanthellae are expelled, the colony takes on a stark white appearance, which is commonly described as “coral bleaching”.

From Polyp to Reef

Massive reef structures are formed when each stony coral polyp secretes a skeleton of CaCO3. Most stony corals have very small polyps, averaging 1 to 3 mm in diameter, but entire colonies can grow very large and weigh several tons. Although all corals secrete CaCO3, not all are reef builders. Some corals, such as Fungia sp., are solitary and have single polyps that can grow as large as 25 cm in diameter. Other coral species are incapable of producing sufficient quantities of CaCO3 to form reefs. Many of these corals do not rely on the algal metabolites produced by zooxanthellae, and live in deeper and/or colder waters beyond the geographic range of most reef systems.

Two images of the same solitary coral Fungia sp. On the left is a living organism showing its outer covering of living tissue, and clearly visible central mouth. The image on the right shows the underlying skeletal structure of the same organism with the outer covering of living tissue stripped away.

The skeletons of stony corals are secreted by the lower portion of the polyp. This process produces a cup, called the calyx, in which the polyp sits. The walls surrounding the cup are called the theca, and the floor is called the basal plate. Thin, calcareous septa (sclerosepta), which provide structural integrity, protection, and an increased surface area for the polyp’s soft tissues, extend upward from the basal plate and radiate outward from its center. Periodically, a polyp will lift off its base and secrete a new floor to its cup, forming a new basal plate above the old one. This creates a minute chamber in the skeleton. While the colony is alive, CaCO3 is deposited, adding partitions and elevating the coral. When polyps are physically stressed, they contract into the calyx so that virtually no part is exposed above the skeletal platform. This protects the organism from predators and the elements

Major coral reef sites are seen as red dots on this world map. Most of the reefs, with a few exceptions are found in tropical and semitropical waters, between 30° north and 30° south latitudes.

At other times, the polyp extends out of the calyx. The timing and extent to which a polyp extends from its protective skeleton often depends on the time of the day, as well as the species of coral. Most polyps extend themselves furthest when they feed on plankton at night.

In addition to a substantial horizontal component, the polyps of colonial corals are connected laterally to their neighbors by a thin horizontal sheet of tissue called the coenosarc, which covers the limestone between the calyxes. Together, polyps and coenosarc constitute a thin layer of living tissue over the block of limestone they have secreted. Thus, the living colony lies entirely above the skeleton.

This large healthy elkhorn coral (Acropora sp.) exhibits an arborescent branching pattern.

Colonies of reef-building (hermatypic) corals exhibit a wide range of shapes, but most can be classified within ten general forms. Branching corals have branches that also have (secondary) branches. Digitate corals look like fingers or clumps of cigars and have no secondary branches. Table corals are table-like structures of fused branches. Elkhorn coral has large, flattened branches. Foliose corals have broad plate-like portions rising above the substrate. Encrusting corals grow as a thin layer against the substrate. Submassive corals have knobs, columns or wedges protruding from an encrusting base. Massive corals are ball-shaped or boulder-like corals which may be small as an egg or large as a house. Mushroom corals resemble the attached or unattached tops of mushrooms. Cup corals look like egg cups or cups that have been squashed, elongated or twisted. While the growth patterns of stony coral colonies are primarily species-specific, a colony’s geographic location, environmental factors (e.g., wave action, temperature, light exposure), and the density of surrounding corals may affect and/or alter the shape of the colony as it grows.

In addition to affecting the shape of a colony’s growth, environmental factors influence the rates at which various species of corals grow. One of the most significant factors is sunlight. On sunny days, the calcification rates of corals can be twice as fast as on cloudy days. This is likely a function of the symbiotic zooxanthellae algae, which play a unique role in enhancing the corals’ ability to synthesize calcium carbonate.

Experiments have shown that rates of calcification slow significantly when zooxanthellae are removed from corals, or when corals are kept in shade or darkness.

Coral core samples reveal horizontal growth lines.

In general, massive corals tend to grow slowly, increasing in size from 0.5 cm to 2 cm per year. However, under favorable conditions (high light exposure, consistent temperature, moderate wave action), some species can grow as much as 4.5 cm per year. In contrast to the massive species, branching colonies tend to grow much faster. Under favorable conditions, these colonies can grow vertically by as much as 10 cm per year. This fast growth rate is not as advantageous as it may seem, however. Mechanical constraints limit the maximum size that branching corals can achieve. As they become larger, a heavier load is placed on the relatively small area attached to the substratum, rendering the colony increasingly unstable. Under these circumstances, the branches are prone to snapping off during strong wave action. The opposite is true of the massive-shaped corals, which become more stable as they grow larger.n

Where Reefs Exist

The island of Moorea (French Polynesia) is in a geographic area that facilitates reef growth. (Photo credit: Dr. Anthony Picciolo)

Reef-building corals are restricted in their geographic distribution. This is because the algal-cnidarian symbiotic machinery needs a narrow and consistent band of environmental conditions to produce the copious quantities of limestone necessary for reef formation. The formation of highly consolidated reefs only occur where the temperature does not fall below 18°C for extended periods of time. This specific temperature restriction -18°C- does not, however, apply to the corals themselves. In Japan, where this has been studied in detail, approximately half of all coral species occur where the sea temperature regularly falls to 14°C an approximately 25% occur where it falls to 11°C.

Many grow optimally in water temperatures between 23° and 29°C, but some can tolerate temperatures as high as 40°C for limited periods of time. Most require very salty (saline) water ranging from 32 to 42 parts per thousand. The water must also be clear to permit high light penetration. The corals’ requirement for high light also explains why most reef-building species are restricted to the euphotic (light penetration) zone, approximately 70m deep.

Generally, there are about twice as many coral species in Pacific Ocean reefs, such as this Fagatele Bay reef, as in Atlantic Ocean reefs.

The number of species of corals on a reef declines rapidly in deeper water. High levels of suspended sediments can smother coral colonies, clogging their mouths which can impair feeding.

Suspended sediments can also serve to decrease the depth to which light can penetrate. In colder regions, murkier waters, or at depths below 70 m, corals may still exist on hard substrates, but their capacity to secrete limestone is greatly reduced.

In light of such stringent environmental restrictions, reefs generally are confined to tropical and semitropical waters. The diversity of reef corals, i.e., the number of species, decreases in higher latitudes up to about 30° north and south, beyond which reef corals are usually not found. Bermuda, at 32° north latitude, is an exception to this rule because it lies directly in the path of the Gulf Stream’s warming waters.

Another factor that seems to affect the diversity of reef-building corals is the ocean in which they are located. At least 500 reef-building species are known to exist in the waters of the Indo-Pacific region. In comparison, the Atlantic Ocean contains approximately 62 known species. The fossil record shows that many species once found across the Atlantic, Pacific and Indian Oceans gradually went extinct in the Atlantic, where the affects of ice ages had strong impacts on the Caribbean area wherein most of the Atlantic reefs reside. Following the closure of the seaway between the Caribbean and the Pacific, several species of corals became restricted to the Caribbean.

The Structure of Coral Reefs

Darwin’s three stages of atoll formation.

Coral reefs begin to form when free-swimming coral larvae (planulae) attach to the submerged edges of islands or continents. As the corals grow and expand, reefs take on one of three major characteristic structures—fringing, barrier or atoll.Fringing reefs, which are the most common, project seaward directly from the shore, forming borders along the shoreline and surrounding islands. Barrier reefs also border shorelines, but at a greater distance. They are separated from their adjacent land mass by a lagoon of open, often deep water. If a fringing reef forms around a volcanic island that subsides completely below sea level while the coral continues to grow upward, an atoll forms. Atolls are usually circular or oval, with a central lagoon. Parts of the reef platform may emerge as one or more islands, and breaks in the reef provide access to the central lagoon.

In the 1830s, Charles Darwin distinguished between the three main geomorphological categories of reefs, and suggested that fringing reefs, barrier reefs, and atolls were all related stages in the sequence of atoll reef formation.

All three reef types—fringing, barrier and atoll—share similarities in their biogeographic profiles.Bottom topography, depth, wave and current strength, light, temperature, and suspended sediments all act to create characteristic horizontal and vertical zones of corals, algae and other species. While these zones vary according to the location and type of reef, the major divisions common to most reefs, as they move seaward from the shore, are the reef flat, reef crest or algal ridge, buttress zone, and seaward slope.

Graphic of typical coral reef zones.

The reef flat, or back reef, is located on the sheltered side of the reef. It extends outward from the shore; and may be highly variable in character. Varying in width from 20 or 30 meters to more than a few thousand, the reef flat may range from only a few centimeters to a few meters deep, and large parts may be exposed at low tide. The substrate is formed of coral rock and loose sand. Beds of sea grasses often develop in the sandy regions, and both encrusting and filamentous algae are common.

Lagoon and back reef (reef flat zone) with exposed coral heads. (Photo: Great Barrier Reef Marine Park Authority)

Because it is so shallow, this area experiences the widest variations in temperature and salinity, but it is protected from the full force of breaking waves. Reduced water circulation, the accumulation of sediments, and periods of tidal emersions—when the reef is exposed during low tide—combine to limit coral growth. Although living corals may be scarce except near the seaward section of this zone, its many microhabitats support the greatest number of species in the reef ecosystem, with mollusks, worms and decapod crustaceans often dominating the visible macrofauna.

Waves break over a reef crest (algal ridge). (Photo credit: Great Barrier Reef Marine Park Authority)

The reef crest, or algal ridge, is the highest point of the reef, and is exposed at low tide. Lying on the outer side of the reef, it is exposed to the full fury of incoming waves. The width of this zone typically varies from a few, to perhaps 50 m. In this severe habitat, a few species of encrusting calcareous red algae flourish, producing new reef material as rapidly as the waves erode it. Where wave action is severe, living corals are practically nonexistent, but in situations of more moderate wave action, the reef crest tends to be dominated by stoutly branching corals. These closely growing, robust colonies form ramparts able to withstand the heavy seas. Small crabs, shrimps, cowries and other animals reside in the labyrinthine subsurface cavities of the reef crest, protected from waves and predators.

Aerial photo of spur-and-groove formations in the Florida reef tract.

The outermost seaward slope (also called the fore-reef) extends from the low-tide mark into deep water. Just below the low-tide mark to approximately 20 m depth is a rugged zone of spurs, or buttresses, radiating out from the reef. Deep channels that slope down the reef face are interspersed between the buttresses. These alternating spurs and channels may be several meters wide and up to 300 m long.

The buttress zone serves two main purposes in the reef system. First, it acts to dissipate the tremendous force of unabating waves and stabilizes the reef structure. Second, the channels between the buttresses drain debris and sediment off the reef and into deeper water. Massive corals and encrusting coralline algae thrive in this zone of breaking waves, intense sunlight, and abundant oxygen. Small fish inhabit the many holes and crevices on this portion of the reef, and many larger fish including sharks, jacks, barracudas and tunas patrol the buttresses and grooves in search of food.

The dropoff of a reef slope can extend hundreds of feet downward.

Continuing down the seaward slope to about 20 m, optimal light intensity decreases, but reduced wave action allows the maximum number of coral species to develop. Beginning at approximately 30 to 40 m, sediments accumulate on the gentle slope, and corals become patchy in distribution. Sponges, sea whips, sea fans, and ahermatypic (non-reef-building) corals become increasingly abundant and gradually replace hermatypic corals in deeper, darker water.n


Barnes, R.D. 1987. Invertebrate Zoology; Fifth Edition. Fort Worth, TX: Harcourt Brace Jovanovich College Publishers. pp. 92-96, 127-134, 149-162.

Barnes, R.S.K. and R.N. Hughes. 1999. An Introduction to Marine Ecology; third edition. Oxford, UK: Blackwell Science Ltd. pp. 117-141

Lalli, C.M. and T.R. Parsons. 1995. Biological Oceanography: An Introduction. Oxford, UK: Butterworth-Heinemann Ltd. pp. 220-233.

Levinton, J.S. 1995. Marine Biology: Function, Biodiversity, Ecology. New York: Oxford University Press, Inc. pp. 306-319.

McManus, J.W., M.C.A. Ablan, S.G. Vergara, B.M. Vallejo, L.A.B. Menez, K.P.K. Reyes, M.L.G. Gorospe and L. Halmarick, 1997. Reefbase Aquanaut Survey Manual. ICLARM Educational Series. 18, 61p.

Sumich, J.L. 1996. An Introduction to the Biology of Marine Life, sixth edition. Dubuque, IA: Wm. C. Brown. pp. 255-269.

Turgeon, D.D. and R.G. Asch. In Press. The State of Coral Reef Ecosystems of the United States and Pacific Freely Associated States. Washington D.C.; NOAA.

Veron, JEN. 2000. Corals of the World. Vol 3. Australia: Australian Institute of Marine Sciences and CRR Qld Pty Ltd.


FAQs Cozumel Reefs

What types of coral formations can I expect to see in Cozumel reefs?
In Cozumel reefs, divers can marvel at an array of coral formations, including massive brain corals, towering pillars, delicate sea fans, and vibrant soft corals. The diversity and health of these coral ecosystems are what makes diving in Cozumel so extraordinary.

Are Cozumel reefs suitable for beginner divers?
Yes, Cozumel reefs offer a variety of dive sites that are perfect for beginners. The clear, calm waters and the presence of shallow reef areas make it an ideal location for those new to scuba diving to experience the underwater world safely.

Can snorkelers enjoy Cozumel reefs as much as divers?
Absolutely! Snorkelers can enjoy Cozumel reefs thanks to the clear waters and the abundance of marine life in shallow areas. Many of the reef systems come close to the surface, allowing snorkelers to witness the vibrant underwater ecosystems Cozumel is famous for.

What is the best season to visit Cozumel reefs for diving?
The best season to dive in Cozumel reefs is from late spring to early autumn, particularly from March to June when the sea conditions are most favorable. Visibility is high, and the water temperatures are warm, enhancing the overall diving experience.

How do Cozumel reefs compare to other Caribbean diving destinations?
Cozumel reefs stand out for their exceptional visibility, vibrant marine biodiversity, and unique topographical features like dramatic walls and caverns. While other Caribbean destinations offer beautiful diving experiences, Cozumel is often celebrated for its easy access to diverse and abundant marine life, making it a top choice for divers of all levels.

Can advanced divers find challenging sites in Cozumel reefs?
Yes, advanced divers will find Cozumel reefs thrilling, with deep walls, strong currents, and challenging sites like Punta Sur and the famous “Devil’s Throat,” offering an exciting experience for those seeking adventure beyond shallow reef diving.

FAQs Coral Reefs

What are the primary threats to coral reefs globally?
The primary threats to coral reefs include climate change, leading to increased sea temperatures and coral bleaching, pollution from land-based sources, overfishing, destructive fishing practices, and physical damage from ships and anchors. Addressing these threats is crucial for the preservation of coral reefs.

Why are coral reefs important to marine biodiversity?
Coral reefs are crucial to marine biodiversity as they provide habitat and shelter for nearly 25% of all marine species despite covering less than 1% of the ocean floor. Their complex structures support a vast range of organisms, making coral reefs essential for the health and diversity of the ocean.

How do coral reefs benefit human societies?
Coral reefs benefit human societies by providing food resources, protecting coastlines from erosion and storm damage, supporting tourism economies, and offering opportunities for biomedical research. The preservation of coral reefs is thus not only an environmental concern but also a socioeconomic one.

Can coral reefs recover from bleaching events, and how long does it take?
Coral reefs can recover from bleaching events, but the process is slow and depends on the severity of the bleaching and the resilience of the reef. Recovery can take anywhere from 10 to 15 years for fast-growing corals, while more significant damage to the reef structure may take much longer, sometimes decades, if conditions for recovery are favorable.

How does overfishing affect coral reefs?
Overfishing affects coral reefs by disrupting the delicate ecological balance, leading to the overgrowth of algae and a decline in coral health. Predatory fish that control herbivorous fish populations are often targeted, resulting in unchecked algae growth that can smother corals and reduce their ability to survive and reproduce.

What are the indicators of a healthy coral reef ecosystem?
Indicators of a healthy coral reef ecosystem include a high diversity of coral species and marine life, vibrant coral coloration indicating minimal bleaching, the presence of key species such as herbivorous fish to control algae, and the absence of excessive algae or sedimentation.

How is climate change impacting coral reefs, and what can be done to mitigate these effects?
Climate change impacts coral reefs primarily through warmer ocean temperatures, leading to coral bleaching and increased acidification that weakens coral skeletons. Mitigating these effects requires global efforts to reduce greenhouse gas emissions, local conservation actions to reduce stress on coral reefs, and research into coral resilience and adaptation strategies.

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