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Friday, March 6, 2020

Mollusc shell

From Wikipedia, the free encyclopedia
Diversity and variability of shells of molluscs on display.
Variety of Mollusc shells (gastropods, snails and seashells).
Closed and open shells of a marine bivalve, Petricola pholadiformis. A bivalve shell is composed of two hinged valves which are joined by a ligament.
Four views of a shell of the land snail Arianta arbustorum
The mollusc (or mollusk[spelling 1]) shell is typically a calcareous exoskeleton which encloses, supports and protects the soft parts of an animal in the phylum Mollusca, which includes snails, clams, tusk shells, and several other classes. Not all shelled molluscs live in the sea; many live on the land and in freshwater.

The ancestral mollusc is thought to have had a shell, but this has subsequently been lost or reduced on some families, such as the squid, octopus, and some smaller groups such as the caudofoveata and solenogastres. Today, over 100,000 living species bear a shell; there is some dispute as to whether these shell-bearing molluscs form a monophyletic group (conchifera) or whether shell-less molluscs are interleaved into their family tree.

Malacology, the scientific study of molluscs as living organisms, has a branch devoted to the study of shells, and this is called conchology—although these terms used to be, and to a minor extent still are, used interchangeably, even by scientists (this is more common in Europe).

Within some species of molluscs, there is often a wide degree of variation in the exact shape, pattern, ornamentation, and color of the shell.

Formation

The giant clam (Tridacna gigas) is the largest extant species of bivalve. The mantle is visible between the open valves
A mollusc shell is formed, repaired and maintained by a part of the anatomy called the mantle. Any injuries to or abnormal conditions of the mantle are usually reflected in the shape and form and even color of the shell. When the animal encounters harsh conditions that limit its food supply, or otherwise cause it to become dormant for a while, the mantle often ceases to produce the shell substance. When conditions improve again and the mantle resumes its task, a "growth line" is produced.

The mantle edge secretes a shell which has two components. The organic constituent is mainly made up of polysaccharides and glycoproteins; its composition may vary widely: some molluscs employ a wide range of chitin-control genes to create their matrix, whereas others express just one, suggesting that the role of chitin in the shell framework is highly variable; it may even be absent in monoplacophora. This organic framework controls the formation of calcium carbonate crystals (never phosphate, with the questionable exception of Cobcrephora), and dictates when and where crystals start and stop growing, and how fast they expand; it even controls the polymorph of the crystal deposited, controlling positioning and elongation of crystals and preventing their growth where appropriate.

The shell formation requires certain biological machinery. The shell is deposited within a small compartment, the extrapallial space, which is sealed from the environment by the periostracum, a leathery outer layer around the rim of the shell, where growth occurs. This caps off the extrapallial space, which is bounded on its other surfaces by the existing shell and the mantle. The periostracum acts as a framework from which the outer layer of carbonate can be suspended, but also, in sealing the compartment, allows the accumulation of ions in concentrations sufficient for crystallization to occur. The accumulation of ions is driven by ion pumps packed within the calcifying epithelium. Calcium ions are obtained from the organism's environment through the gills, gut and epithelium, transported by the haemolymph ("blood") to the calcifying epithelium, and stored as granules within or in-between cells ready to be dissolved and pumped into the extrapallial space when they are required. The organic matrix forms the scaffold that directs crystallization, and the deposition and rate of crystals is also controlled by hormones produced by the mollusc. Because the extrapallial space is supersaturated, the matrix could be thought of as impeding, rather than encouraging, carbonate deposition; although it does act as a nucleating point for the crystals and controls their shape, orientation and polymorph, it also terminates their growth once they reach the necessary size. Nucleation is endoepithelial in Neopilina and Nautilus, but exoepithelial in the bivalves and gastropods.

The formation of the shell involves a number of genes and transcription factors. On the whole, the transcription factors and signalling genes are deeply conserved, but the proteins in the secretome are highly derived and rapidly evolving. engrailed serves to demark the edge of the shell field; dpp controls the shape of the shell, and Hox1 and Hox4 have been implicated in the onset of mineralization. In gastropod embryos, Hox1 is expressed where the shell is being accreted; however no association has been observed between Hox genes and cephalopod shell formation. Perlucin increases the rate at which calcium carbonate precipitates to form a shell when in saturated seawater; this protein is from the same group of proteins (C-type lectins) as those responsible for the formation of eggshell and pancreatic stone crystals, but the role of C-type lectins in mineralization is unclear. Perlucin operates in association with Perlustrin, a smaller relative of lustrin A, a protein responsible for the elasticity of organic layers that makes nacre so resistant to cracking. Lustrin A bears remarkable structural similarity to the proteins involved in mineralization in diatoms – even though diatoms use silica, not calcite, to form their tests!

Development

Mollusc shells in Manchester Museum

The shell-secreting area is differentiated very early in embryonic development. An area of the ectoderm thickens, then invaginates to become a "shell gland". The shape of this gland is tied to the form of the adult shell; in gastropods, it is a simple pit, whereas in bivalves, it forms a groove which will eventually become the hinge line between the two shells, where they are connected by a ligament. The gland subsequently evaginates in molluscs that produce an external shell. Whilst invaginated, a periostracum - which will form a scaffold for the developing shell - is formed around the opening of the invagination, allowing the deposition of the shell when the gland is everted. A wide range of enzymes are expressed during the formation of the shell, including carbonic anhydrase, alkaline phosphatase, and DOPA-oxidase (tyrosinase)/peroxidase.

The form of the molluscan shell is constrained by the organism's ecology. In molluscs whose ecology changes from the larval to adult form, the morphology of the shell also undergoes a pronounced modification at metamorphosis. The larval shell may have a completely different mineralogy to the adult conch, perhaps formed from amorphous calcite as opposed to an aragonite adult conch.

In those shelled molluscs that have indeterminate growth, the shell grows steadily over the lifetime of the mollusc by the addition of calcium carbonate to the leading edge or opening. Thus the shell gradually becomes longer and wider, in an increasing spiral shape, to better accommodate the growing animal inside. The shell thickens as it grows, so that it stays proportionately strong for its size.

Secondary loss

The loss of a shell in the adult form of some gastropods is achieved by the discarding of the larval shell; in other gastropods and in cephalopods, the shell is lost or demineralized by the resorption of its carbonate component by the mantle tissue.

Shell proteins

Hundreds of soluble and insoluble proteins control shell formation. They are secreted into the extrapallial space by the mantle, which also secretes the glycoproteins, proteoglycans, polysaccharides and chitin that make up the organic shell matrix. Insoluble proteins tend to be thought of as playing a more important/major role in crystallization control. The organic matrix of shells tends to consist of β-chitin and silk fibroin. Perlucin encourages carbonate deposition, and is found at the interface of the chitinous and aragonitic layer in some shells. An acidic shell matrix appears to be essential to shell formation, in the cephalopods at least; the matrix in the non-mineralized squid gladius is basic.
In oysters and potentially most molluscs, the nacreous layer has an organic framework of the protein MSI60, which has a structure a little like spider silk and forms sheets; the prismatic layer uses MSI31 to construct its framework. This too forms beta-pleated sheets. Since acidic amino acids, such as aspartic acid and glutamic acid, are important mediators of biomineralization, shell proteins tend to be rich in these amino acids. Aspartic acid, which can make up up to 50% of shell framework proteins, is most abundant in calcitic layers, and also heavily present in aragonitic layers. Proteins with high proportions of glutamic acid are usually associated with amorphous calcium carbonate.
The soluble component of the shell matrix acts to inhibit crystallization when in its soluble form, but when it attaches to an insoluble substrate, it permits the nucleation of crystals. By switching from a dissolved to an attached form and back again, the proteins can produce bursts of growth, producing the brick-wall structure of the shell.

Chemistry

The formation of a shell in molluscs appears to be related to the secretion of ammonia, which originates from urea. The presence of an ammonium ion raises the pH of the extrapallial fluid, favouring the deposition of calcium carbonate. This mechanism has been proposed not only for molluscs, but also for other unrelated mineralizing lineages.

Structure

Precious Wentletrap: the spiral shell of Epitonium scalare sea snail.
The calcium carbonate layers in a shell are generally of two types: an outer, chalk-like prismatic layer and an inner pearly, lamellar or nacreous layer. The layers usually incorporate a substance called conchiolin, often in order to help bind the calcium carbonate crystals together. Conchiolin is composed largely of quinone-tanned proteins.
The periostracum and prismatic layer are secreted by a marginal band of cells, so that the shell grows at its outer edge. Conversely, the nacreous layer is derived from the main surface of the mantle.
Some shells contain pigments which are incorporated into the structure. This is what accounts for the striking colors and patterns that can be seen in some species of seashells, and the shells of some tropical land snails. These shell pigments sometimes include compounds such as pyrroles and porphyrins.
Shells are almost always composed of polymorphs of calcium carbonate - either calcite or aragonite. In many cases, such as the shells of many of the marine gastropods, different layers of the shell are composed of calcite and aragonite. In a few species which dwell near hydrothermal vents, iron sulfide is used to construct the shell. Phosphate is never utilised by molluscs, with the exception of Cobcrephora, whose molluscan affinity is uncertain.
Shells are composite materials of calcium carbonate (found either as calcite or aragonite) and organic macromolecules (mainly proteins and polysaccharides). Shells can have numerous ultrastructural motifs, the most common being crossed-lamellar (aragonite), prismatic (aragonite or calcite), homogeneous (aragonite), foliated (aragonite) and nacre (aragonite). Although not the most common, nacre is the most studied type of layer.

Size

In most shelled molluscs, the shell is large enough for all of the soft parts to be retracted inside when necessary, for protection from predation or from desiccation. However, there are many species of gastropod mollusc in which the shell is somewhat reduced or considerably reduced, such that it offers some degree of protection only to the visceral mass, but is not large enough to allow the retraction of the other soft parts. This is particularly common in the opisthobranchs and in some of the pulmonates, for example in the semi-slugs.
Some gastropods have no shell at all, or only an internal shell or internal calcareous granules, and these species are often known as slugs. Semi-slugs are pulmonate slugs with a greatly reduced external shell which is in some cases partly covered by the mantle.

Shape

The shape of the molluscan shell is controlled both by transcription factors (such as engrailed and decapentaplegic) and by developmental rate. The simplification of a shell form is thought to be relatively easily evolved, and many gastropod lineages have independently lost the complex coiled shape. However, re-gaining the coiling requires many morphological modifications and is much rarer. Despite this, it can still be accomplished; it is known from one lineage that was uncoiled for at least 20 million years, before modifying its developmental timing to restore the coiled morphology.
In bivalves at least, the shape does change through growth, but the pattern of growth is constant. At each point around the aperture of the shell, the rate of growth remains constant. This results in different areas growing at different rates, and thus a coiling of the shell and a change in its shape - its convexity, and the shape of the opening - in a predictable and consistent fashion.
The shape of the shell has an environmental as well as a genetic component; clones of gastropods can exert different shell morphologies. Indeed, intra-species variation can be many times larger than inter-species variation.
A number of terms are used to describe molluscan shell shape; in the univalved molluscs, endogastric shells coil backwards (away from the head), whereas exogastric shells coil forwards; the equivalent terms in bivalved molluscs are opisthogyrate and prosogyrate respectively.

Nacre

Nacre, commonly known as mother of pearl, forms the inner layer of the shell structure in some groups of gastropod and bivalve molluscs, mostly in the more ancient families such as top snails (Trochidae), and pearl oysters (Pteriidae). Like the other calcareous layers of the shell, the nacre is created by the epithelial cells (formed by the germ layer ectoderm) of the mantle tissue. However, nacre does not seem to represent a modification of other shell types, as it uses a distinct set of proteins.

Evolution

The fossil record shows that all molluscan classes evolved some 500 million years ago  from a shelled ancestor looking something like a modern monoplacophoran, and that modifications of the shell form ultimately led to the formation of new classes and lifestyles. However, a growing body of molecular and biological data indicate that at least certain shell features have evolved many times, independently. The nacreous layer of shells is a complex structure, but rather than being difficult to evolve, it has in fact arisen many times convergently. The genes used to control its formation vary greatly between taxa: under 10% of the (non-housekeeping) genes expressed in the shells that produce gastropod nacre are also found in the equivalent shells of bivalves: and most of these shared genes are also found in mineralizing organs in the deuterostome lineage. The independent origins of this trait are further supported by crystallographic differences between clades: the orientation of the axes of the deposited aragonite 'bricks' that make up the nacreous layer is different in each of the monoplacophora, gastropods and bivalves.
Mollusc shells (especially those formed by marine species) are very durable and outlast the otherwise soft-bodied animals that produce them by a very long time (sometimes thousands of years even without being fossilized). Most shells of marine molluscs fossilize rather easily, and fossil mollusc shells date all the way back to the Cambrian period. Large amounts of shell sometimes forms sediment, and over a geological time span can become compressed into limestone deposits.
Most of the fossil record of molluscs consists of their shells, since the shell is often the only mineralised part of a mollusc (however also see Aptychus and operculum). The shells are usually preserved as calcium carbonate – usually any aragonite is pseudomorphed with calcite. Aragonite can be protected from recrystalization if water is kept away by carbonaceous material, but this did not accumulate in sufficient quantity until the Carboniferous; consequently aragonite older than the Carboniferous is practically unknown: but the original crystal structure can sometimes be deduced in fortunate circumstances, such as if an alga closely encrusts the surface of a shell, or if a phosphatic mould quickly forms during diagenesis.
The shell-less aplacophora have a chitinous cuticle that has been likened to the shell framework; it has been suggested that tanning of this cuticle, in conjunction with the expression of additional proteins, could have set the evolutionary stage for the secretion of a calcareous shell in an aplacophoran-like ancestral mollusc.
The molluscan shell has been internalized in a number of lineages, including the coleoid cephalopods and many gastropod lineages. Detorsion of gastropods results in an internal shell, and can be triggered by relatively minor developmental modifications such as those induced by exposure to high platinum concentrations.

Pattern formation

The pattern formation processes in mollusc shells have been modeled successfully using one-dimensional reaction-diffusion systems, in particular the Gierer-Meinhardt system which leans heavily on the Turing model.

Varieties

Monoplacophora

The nacreous layer of monoplacophoran shells appears to have undergone some modification. Whilst normal nacre, and indeed part of the nacreous layer of one monoplacophoran species (Veleropilina zografi), consists of "brick-like" crystals of aragonite, in monoplacophora these bricks are more like layered sheets. The c-axis is perpendicular to the shell wall, and the a-axis parallel to the growth direction. This foliated aragonite is presumed to have evolved from the nacreous layer, with which it has historically been confused, but represents a novelty within the molluscs.

Chitons

The chiton Tonicella lineata, anterior end towards the right
Shells of chitons are made up of eight overlapping calcareous valves, surrounded by a girdle.

Gastropods

The marine gastropod Cypraea chinensis, the Chinese cowry, showing partially extended mantle
In some marine genera, during the course of normal growth the animal undergoes periodic resting stages where the shell does not increase in overall size, but a greatly thickened and strengthened lip is produced instead. When these structures are formed repeatedly with normal growth between the stages, evidence of this pattern of growth is visible on the outside of the shell, and these unusual thickened vertical areas are called varices, singular "varix". Varices are typical in some marine gastropod families, including the Bursidae, Muricidae, and Ranellidae.
Finally, gastropods with a determinate growth pattern may create a single and terminal lip structure when approaching maturity, after which growth ceases. These include the cowries (Cypraeidae) and helmet shells (Cassidae), both with in-turned lips, the true conchs (Strombidae) that develop flaring lips, and many land snails that develop tooth structures or constricted apertures upon reaching full size.

Cephalopods

Nautilus belauensis is one of only 6 extant cephalopod species which have an external shell

Nautiluses are the only extant cephalopods which have an external shell. Cuttlefish, squid, spirula, vampire squid, and cirrate octopuses have small internal shells. Females of the octopus genus Argonauta secrete a specialised paper-thin eggcase in which they partially reside, and this is popularly regarded as a "shell", although it is not attached to the body of the animal.

Bivalves

The shell of the Bivalvia is composed of two parts, two valves which are hinged together and joined by a ligament.

Scaphopods

The shell of many of the scaphopods ("tusk shells") resembles a miniature elephant's tusk in overall shape, except that it is hollow, and is open at both ends.

Damage to shells in collections

As a structure made primarily of calcium carbonate, mollusc shells are vulnerable to attack by acidic fumes. This can become a problem when shells are in storage or on display and are in the proximity of non-archival materials, see Byne's disease.

Nacre (Mother of Pearl)

From Wikipedia, the free encyclopedia
The iridescent nacre inside a nautilus shell
 
Nacre (/ˈnkər/ NAY-kər also /ˈnækrə/ NAK-rə), also known as mother of pearl, is an organic-inorganic composite material produced by some molluscs as an inner shell layer; it is also the material of which pearls are composed. It is strong, resilient, and iridescent.

Nacre is found in some of the most ancient lineages of bivalves, gastropods, and cephalopods. However, the inner layer in the great majority of mollusc shells is porcellaneous, not nacreous, and this usually results in a non-iridescent shine, or more rarely in non-nacreous iridescence such as flame structure as is found in conch pearls.

The outer layer of cultured pearls and the inside layer of pearl oyster and freshwater pearl mussel shells are made of nacre. Other mollusc families that have a nacreous inner shell layer include marine gastropods such as the Haliotidae, the Trochidae and the Turbinidae.

Physical characteristics

Structure and appearance

Schematic of the microscopic structure of nacre layers
 
Electron microscopy image of a fractured surface of nacre

Nacre is composed of hexagonal platelets of aragonite (a form of calcium carbonate) 10–20 µm wide and 0.5 µm thick arranged in a continuous parallel lamina. Depending on the species, the shape of the tablets differ; in Pinna, the tablets are rectangular, with symmetric sectors more or less soluble. Whatever the shape of the tablets, the smallest units they contain are irregular rounded granules. These layers are separated by sheets of organic matrix (interfaces) composed of elastic biopolymers (such as chitin, lustrin and silk-like proteins). This mixture of brittle platelets and the thin layers of elastic biopolymers makes the material strong and resilient, with a Young's modulus of 70 GPa (when dry). Strength and resilience are also likely to be due to adhesion by the "brickwork" arrangement of the platelets, which inhibits transverse crack propagation. This structure, at multiple length sizes, greatly increases its toughness, making it almost as strong as silicon.

The statistical variation of the platelets has a negative effect on the mechanical performance (stiffness, strength, and energy absorption) because statistical variation precipitates localization of deformation. However, the negative effects of statistical variations can be offset by interfaces with large strain at failure accompanied by strain hardening. On the other hand, the fracture toughness of nacre increases with moderate statistical variations which creates tough regions where the crack gets pinned. But, higher statistical variations generates very weak regions which allows the crack to propagate without much resistance causing the fracture toughness decreases. 

Nacre appears iridescent because the thickness of the aragonite platelets is close to the wavelength of visible light. These structures interfere constructively and destructively with different wavelengths of light at different viewing angles, creating structural colours.

The crystallographic c-axis points approximately perpendicular to the shell wall, but the direction of the other axes varies between groups. Adjacent tablets have been shown to have dramatically different c-axis orientation, generally randomly oriented within ~20° of vertical. In bivalves and cephalopods, the b-axis points in the direction of shell growth, whereas in the monoplacophora it is the a-axis that is this way inclined. The interlocking of bricks of nacre has large impact on both the deformation mechanism as well as its toughness. In addition, the mineral–organic interface results in enhanced resilience and strength of the organic interlayers.

Formation

Nacre formation is not fully understood. The initial onset assembly, as observed in Pinna nobilis, is driven by the aggregation of nanoparticles (~50–80 nm) within an organic matrix that arrange in fibre-like polycrystalline configurations. The particle number increases successively and, when critical packing is reached, they merge into early-nacre platelets. Nacre growth is mediated by organics, controlling the onset, duration and form of crystal growth. Individual aragonite "bricks" are believed to quickly grow to the full height of the nacreous layer, and expand until they abut adjacent bricks. This produces the hexagonal close-packing characteristic of nacre. Bricks may nucleate on randomly dispersed elements within the organic layer, well-defined arrangements of proteins, or may grow epitaxially from mineral bridges extending from the underlying tablet. Nacre differs from fibrous aragonite – a brittle mineral of the same form – in that the growth in the c-axis (i.e., approximately perpendicular to the shell, in nacre) is slow in nacre, and fast in fibrous aragonite.

Function

Fossil nautiloid shell with original iridescent nacre in fossiliferous asphaltic limestone, Oklahoma. Dated to the late Middle Pennsylvanian, which makes it by far the oldest deposit in the world with aragonitic nacreous shelly fossils.
 
Nacre is secreted by the epithelial cells of the mantle tissue of various molluscs. The nacre is continuously deposited onto the inner surface of the shell, the iridescent nacreous layer, commonly known as mother of pearl. The layers of nacre smooth the shell surface and help defend the soft tissues against parasites and damaging debris by entombing them in successive layers of nacre, forming either a blister pearl attached to the interior of the shell, or a free pearl within the mantle tissues. The process is called encystation and it continues as long as the mollusc lives.

In different mollusc groups

The form of nacre varies from group to group. In bivalves, the nacre layer is formed of single crystals in a hexagonal close packing. In gastropods, crystals are twinned, and in cephalopods, they are pseudohexagonal monocrystals, which are often twinned.

Commercial sources

The main commercial sources of mother of pearl have been the pearl oyster, freshwater pearl mussels, and to a lesser extent the abalone, popular for their sturdiness and beauty in the latter half of the 19th century.

Widely used for pearl buttons especially during the 1900s, were the shells of the great green turban snail Turbo marmoratus and the large top snail, Tectus niloticus. The international trade in mother of pearl is governed by the Convention on International Trade in Endangered Species of Wild Fauna and Flora, an agreement signed by more than 170 countries.

Decorative uses

Architecture

White nacre mosaic tiles in the ceiling of the Criterion Restaurant in London
 
Both black and white nacre are used for architectural purposes. The natural nacre may be artificially tinted to almost any color. Nacre tesserae may be cut into shapes and laminated to a ceramic tile or marble base. The tesserae are hand-placed and closely sandwiched together, creating an irregular mosaic or pattern (such as a weave). The laminated material is typically about 2 millimetres (0.079 in) thick. The tesserae are then lacquered and polished creating a durable and glossy surface.

Instead of using a marble or tile base, the nacre tesserae can be glued to fiberglass. The result is a lightweight material that offers a seamless installation and there is no limit to the sheet size. Nacre sheets may be used on interior floors, exterior and interior walls, countertops, doors and ceilings. Insertion into architectural elements, such as columns or furniture is easily accomplished.

Fashion

Nacre bracelet

Mother of pearl buttons are used in clothing either for functional or decorative purposes. The Pearly Kings and Queens are an elaborate example of this.

Nacre is also used to decorate watches, knives, guns and jewellery.

Musical instruments

Nacre inlay is often used for music keys and other decorative motifs on musical instruments. Many accordion and concertina bodies are completely covered in nacre, and some guitars have fingerboard or headstock inlays made of nacre (as well as some guitars having plastic inlays designed to imitate the appearance of nacre). The bouzouki and baglamas (Greek plucked string instruments of the lute family) typically feature nacre decorations, as does the related Middle Eastern oud (typically around the sound holes and on the back of the instrument). Bows of stringed instruments such as the violin and cello often have mother of pearl inlay at the frog. It is traditionally used on saxophone keytouches, as well as the valve buttons of trumpets and other brass instruments. The Middle Eastern goblet drum (darbuka) is commonly decorated by mother of pearl.

Other

Mother of pearl is sometimes used to make spoon-like utensils for caviar, so as to not spoil the taste with metallic spoons.

Manufactured nacre

In 2012, researchers created calcium-based nacre in the laboratory by mimicking its natural growth process.

In 2014, researchers used lasers to create an analogue of nacre by engraving networks of wavy 3D "micro-cracks" in glass. When the slides were subjected to an impact, the micro-cracks absorbed and dispersed the energy, keeping the glass from shattering. Altogether, treated glass was reportedly 200 times tougher than untreated glass.

Wild fisheries

From Wikipedia, the free encyclopedia
Wild fisheries
Crab boat from the North Frisian Islands working in the North Sea

A fishery is an area with an associated fish or aquatic population which is harvested for its commercial value. Fisheries can be marine (saltwater) or freshwater. They can also be wild or farmed.

Wild fisheries are sometimes called capture fisheries. The aquatic life they support is not controlled in any meaningful way and needs to be "captured" or fished. Wild fisheries exist primarily in the oceans, and particularly around coasts and continental shelves. They also exist in lakes and rivers. Issues with wild fisheries are overfishing and pollution. Significant wild fisheries have collapsed or are in danger of collapsing, due to overfishing and pollution. Overall, production from the world's wild fisheries has levelled out, and may be starting to decline.

As a contrast to wild fisheries, farmed fisheries can operate in sheltered coastal waters, in rivers, lakes and ponds, or in enclosed bodies of water such as tanks. Farmed fisheries are technological in nature, and revolve around developments in aquaculture. Farmed fisheries are expanding, and Chinese aquaculture in particular is making many advances. Nevertheless, the majority of fish consumed by humans continues to be sourced from wild fisheries. As of the early 21st century, fish is humanity's only significant wild food source.

Marine and inland production

Global wild fish capture in million tonnes, 2010, as reported by the FAO 
Global wild fish capture in million tonnes, 1950–2010, as reported by the FAO 
According to the Food and Agriculture Organization (FAO), the world harvest by commercial fisheries in 2010 consisted of 88.6 million tonnes of aquatic animals captured in wild fisheries, plus another 0.9 million tons of aquatic plants (seaweed etc.). This can be contrasted with 59.9 million tonnes produced in fish farms, plus another 19.0 million tons of aquatic plants harvested in aquaculture.

Marine fisheries

Topography

Map of underwater topography. (1995, NOAA)
The productivity of marine fisheries is largely determined by marine topography, including its interaction with ocean currents and the diminishment of sunlight with depth.

Fishing activities extracted from Automatic Identification Data of EU trawlers over the continental shelf,[2] highlighting the correlation with the bathymetry over the area (bottom-left, from the GEBCO world map 2014).

Marine topography is defined by various coastal and oceanic landforms, ranging from coastal estuaries and shorelines; to continental shelves and coral reefs; to underwater and deep sea features such as ocean rises and seamounts.

Ocean currents

Major ocean surface currents. NOAA map.

An ocean current is continuous, directed movement of ocean water. Ocean currents are rivers of relatively warm or cold water within the ocean. The currents are generated from the forces acting upon the water like the planet rotation, the wind, the temperature and salinity (hence isopycnal) differences and the gravitation of the moon. The depth contours, the shoreline and other currents influence the current's direction and strength.

Gyres and upwelling

Map of Ocean Gyres

Biomass

Estimate of biomass produced by photosynthesis from September 1997 to August 2000. This is a rough indicator of the primary production potential in the oceans. Provided by the SeaWiFS Project, NASA/Goddard Space Flight Center and ORBIMAGE.
In the ocean, the food chain typically follows the course:
  • Phytoplankton → zooplankton → predatory zooplankton → filter feeders → predatory fish
Phytoplankton is usually the primary producer (the first level in the food chain or the first trophic level). Phytoplankton converts inorganic carbon into protoplasm. Phytoplankton is consumed by microscopic animals called zooplankton. These are the second level in the food chain, and include krill, the larva of fish, squid, lobsters and crabs–as well as the small crustaceans called copepods, and many other types. Zooplankton is consumed both by other, larger predatory zooplankters and by fish (the third level in the food chain). Fish that eat zooplankton could constitute the fourth trophic level, while seals consuming the fish are the fifth. Alternatively, for example, whales may consume zooplankton directly - leading to an environment with one less trophic level.

Habitats

Aquatic habitats have been classified into marine and freshwater ecoregions by the Worldwide Fund for Nature (WWF). An ecoregion is defined as a "relatively large unit of land or water containing a characteristic set of natural communities that share a large majority of their species, dynamics, and environmental conditions (Dinerstein et al. 1995, TNC 1997).

Coastal waters

Estuary of Klamath River
  • Estuaries are semi-enclosed coastal bodies of water with one or more rivers or streams flowing into them, and with a free connection to the open sea. Estuaries are often associated with high rates of biological productivity. They are small, in demand, impacted by events far upstream or out at sea, and concentrate materials such as pollutants and sediments.
  • Lagoons are bodies of comparatively shallow salt or brackish water separated from the deeper sea by a shallow or exposed sandbank, coral reef, or similar feature. Lagoon refers to both coastal lagoons formed by the build-up of sandbanks or reefs along shallow coastal waters, and the lagoons in atolls, formed by the growth of coral reefs on slowly sinking central islands. Lagoons that are fed by freshwater streams are estuaries.
  • The intertidal zone (foreshore) is the area that is exposed to the air at low tide and submerged at high tide, for example, the area between tide marks. This area can include many different types of habitats, including steep rocky cliffs, sandy beaches or vast mudflats. The area can be a narrow strip, as in Pacific islands that have only a narrow tidal range, or can include many meters of shoreline where shallow beach slope interacts with high tidal excursion.
Fixed-net fishing on the littoral zone along the Suhua Highway on the East coast of Taiwan
  • The littoral zone is the part of the ocean closest to the shore. The word littoral comes from the Latin litoralis, which means seashore. The littoral zone extends from the high-water mark to near shore areas that are permanently submerged, and includes the intertidal zone. Definitions vary. Encyclopædia Britannica defines the littoral zone in a thoroughly vague way as the "marine ecological realm that experiences the effects of tidal and longshore currents and breaking waves to a depth of 5 to 10 metres (16 to 33 feet) below the low-tide level, depending on the intensity of storm waves". The US Navy defines it as extending "from the shoreline to 600 feet (183 meters) out into the water"
  • The sublittoral zone is the part of the ocean extending from the seaward edge of the littoral zone to the edge of the continental shelf. It is sometimes called the neritic zone. Websters defines the neritic zone as the region of shallow water adjoining the seacoast. The word neritic perhaps comes from the new Latin nerita, which refers to a genus of marine snails, 1891. The sublittoral zone is relatively shallow, extending to about 200 meters (100 fathoms), and generally has well-oxygenated water, low water pressure, and relatively stable temperature and salinity levels. These, combined with presence of light and the resulting photosynthetic life, such as phytoplankton and floating sargassum, make the sublittoral zone the location of the majority of sea life.
  • Voigt, Brian (1998) Glossary of Coastal Terminology Washington State Department of Ecology, publication 98-105
  • Pawson, M G; Pickett, G D and Walker, P (2002) The coastal fisheries of England and Wales, Part IV: A review of their status 1999–2001 Science Series, Technical Report 116.

Continental shelves

  The global continental shelf, highlighted in cyan

Continental shelves are the extended perimeters of each continent and associated coastal plain, which is covered during interglacial periods such as the current epoch by relatively shallow seas (known as shelf seas) and gulfs.

The shelf usually ends at a point of decreasing slope (called the shelf break). The sea floor below the break is the continental slope. Below the slope is the continental rise, which finally merges into the deep ocean floor, the abyssal plain. The continental shelf and the slope are part of the continental margin.

Continental shelves are shallow (averaging 140 metres or 460 feet), and the sunlight available means they can teem with life. The shallowest parts of the continental shelf are called fishing banks. There the sunlight penetrates to the seafloor and the plankton, on which fish feed, thrive.

Coral reefs

Locations of coral reefs.

Coral reefs are aragonite structures produced by living organisms, found in shallow, tropical marine waters with little to no nutrients in the water. High nutrient levels such as those found in runoff from agricultural areas can harm the reef by encouraging the growth of algae. Although corals are found both in temperate and tropical waters, reefs are formed only in a zone extending at most from 30°N to 30°S of the equator.

Open sea

In the deep ocean, much of the ocean floor is a flat, featureless underwater desert called the abyssal plain. Many pelagic fish migrate across these plains in search of spawning or different feeding grounds. Smaller migratory fish are followed by larger predator fish and can provide rich, if temporary, fishing grounds.

Seamounts

The locations of the world's major seamounts

A seamount is an underwater mountain, rising from the seafloor that does not reach to the water's surface (sea level), and thus is not an island. They are defined by oceanographers as independent features that rise to at least 1,000 meters above the seafloor. Seamounts are common in the Pacific Ocean. Recent studies suggest there may be 30,000 seamounts in the Pacific, about 1,000 in the Atlantic Ocean and an unknown number in the Indian Ocean.

Maritime species

Freshwater fisheries

Lakes

Worldwide, freshwater lakes have an area of 1.5 million square kilometres. Saline inland seas add another 1.0 million square kilometres. There are 28 freshwater lakes with an area greater than 5,000 square kilometres, totalling 1.18 million square kilometres or 79 percent of the total.

Rivers

Pollution

Pollution is the introduction of contaminants into an environment. Wild fisheries flourish in oceans, lakes, and rivers, and the introduction of contaminants is an issue of concern, especially as regards plastics, pesticides, heavy metals, and other industrial and agricultural pollutants which do not disintegrate rapidly in the environment. Land run-off and industrial, agricultural, and domestic waste enter rivers and are discharged into the sea. Pollution from ships is also a problem.

Plastic waste

Marine debris is human-created waste that ends up floating in the sea. Oceanic debris tends to accumulate at the centre of gyres and coastlines, frequently washing aground where it is known as beach litter. Eighty percent of all known marine debris is plastic - a component that has been rapidly accumulating since the end of World War II. Plastics accumulate because they don't biodegrade as many other substances do; while they will photodegrade on exposure to the sun, they do so only under dry conditions, as water inhibits this process.

Discarded plastic bags, six pack rings and other forms of plastic waste which finish up in the ocean present dangers to wildlife and fisheries. Aquatic life can be threatened through entanglement, suffocation, and ingestion.

Nurdles, also known as mermaids' tears, are plastic pellets typically under five millimetres in diameter, and are a major contributor to marine debris. They are used as a raw material in plastics manufacturing, and are thought to enter the natural environment after accidental spillages. Nurdles are also created through the physical weathering of larger plastic debris. They strongly resemble fish eggs, only instead of finding a nutritious meal, any marine wildlife that ingests them will likely starve, be poisoned and die.

Many animals that live on or in the sea consume flotsam by mistake, as it often looks similar to their natural prey. Plastic debris, when bulky or tangled, is difficult to pass, and may become permanently lodged in the digestive tracts of these animals, blocking the passage of food and causing death through starvation or infection. Tiny floating particles also resemble zooplankton, which can lead filter feeders to consume them and cause them to enter the ocean food chain. In samples taken from the North Pacific Gyre in 1999 by the Algalita Marine Research Foundation, the mass of plastic exceeded that of zooplankton by a factor of six. More recently, reports have surfaced that there may now be 30 times more plastic than plankton, the most abundant form of life in the ocean.

Toxic additives used in the manufacture of plastic materials can leech out into their surroundings when exposed to water. Waterborne hydrophobic pollutants collect and magnify on the surface of plastic debris, thus making plastic far more deadly in the ocean than it would be on land.[46] Hydrophobic contaminants are also known to bioaccumulate in fatty tissues, biomagnifying up the food chain and putting great pressure on apex predators. Some plastic additives are known to disrupt the endocrine system when consumed, others can suppress the immune system or decrease reproductive rates.

Toxins

Septic river.
Polluted lagoon.
Apart from plastics, there are particular problems with other toxins which do not disintegrate rapidly in the marine environment. Heavy metals are metallic chemical elements that have a relatively high density and are toxic or poisonous at low concentrations. Examples are mercury, lead, nickel, arsenic and cadmium. Other persistent toxins are PCBs, DDT, pesticides, furans, dioxins and phenols.

Such toxins can accumulate in the tissues of many species of aquatic life in a process called bioaccumulation. They are also known to accumulate in benthic environments, such as estuaries and bay muds: a geological record of human activities of the last century. 

Some specific examples are
  • Chinese and Russian industrial pollution such as phenols and heavy metals in the Amur River have devastated fish stocks and damaged its estuary soil.
  • Wabamun Lake in Alberta, Canada, once the best whitefish lake in the area, now has unacceptable levels of heavy metals in its sediment and fish.
  • Acute and chronic pollution events have been shown to impact southern California kelp forests, though the intensity of the impact seems to depend on both the nature of the contaminants and duration of exposure.
  •  
  • Due to their high position in the food chain and the subsequent accumulation of heavy metals from their diet, mercury levels can be high in larger species such as bluefin and albacore. As a result, in March 2004 the United States FDA issued guidelines recommending that pregnant women, nursing mothers and children limit their intake of tuna and other types of predatory fish.
  • Some shellfish and crabs can survive polluted environments, accumulating heavy metals or toxins in their tissues. For example, mitten crabs have a remarkable ability to survive in highly modified aquatic habitats, including polluted waters. The farming and harvesting of such species needs careful management if they are to be used as a food.
  • Mining has a poor environmental track record. For example, according to the United States Environmental Protection Agency, mining has contaminated portions of the headwaters of over 40% of watersheds in the western continental US. Much of this pollution finishes up in the sea.

Eutrophication

Effect of eutrophication on marine benthic life

Eutrophication is an increase in chemical nutrients, typically compounds containing nitrogen or phosphorus, in an ecosystem. It can result in an increase in the ecosystem's primary productivity (excessive plant growth and decay), and further effects including lack of oxygen and severe reductions in water quality, fish, and other animal populations. 
 
The biggest culprit are rivers that empty into the ocean, and with it the many chemicals used as fertilizers in agriculture as well as waste from livestock and humans. An excess of oxygen depleting chemicals in the water can lead to hypoxia and the creation of a dead zone.

Surveys have shown that 54% of lakes in Asia are eutrophic; in Europe, 53%; in North America, 48%; in South America, 41%; and in Africa, 28%. Estuaries also tend to be naturally eutrophic because land-derived nutrients are concentrated where run-off enters the marine environment in a confined channel. The World Resources Institute has identified 375 hypoxic coastal zones around the world, concentrated in coastal areas in Western Europe, the Eastern and Southern coasts of the US, and East Asia, particularly in Japan. In the ocean, there are frequent red tide algae blooms that kill fish and marine mammals and cause respiratory problems in humans and some domestic animals when the blooms reach close to shore.

In addition to land runoff, atmospheric anthropogenic fixed nitrogen can enter the open ocean. A study in 2008 found that this could account for around one third of the ocean's external (non-recycled) nitrogen supply and up to three per cent of the annual new marine biological production. It has been suggested that accumulating reactive nitrogen in the environment may have consequences as serious as putting carbon dioxide in the atmosphere.

Acidification

The oceans are normally a natural carbon sink, absorbing carbon dioxide from the atmosphere. Because the levels of atmospheric carbon dioxide are increasing, the oceans are becoming more acidic. The potential consequences of ocean acidification are not fully understood, but there are concerns that structures made of calcium carbonate may become vulnerable to dissolution, affecting corals and the ability of shellfish to form shells.

A report from NOAA scientists published in the journal Science in May 2008 found that large amounts of relatively acidified water are upwelling to within four miles of the Pacific continental shelf area of North America. This area is a critical zone where most local marine life lives or is born. While the paper dealt only with areas from Vancouver to northern California, other continental shelf areas may be experiencing similar effects.

Effects of fishing

Habitat destruction

Fishing nets that have been left or lost in the ocean by fishermen are called ghost nets, and can entangle fish, dolphins, sea turtles, sharks, dugongs, crocodiles, seabirds, crabs, and other creatures. Acting as designed, these nets restrict movement, causing starvation, laceration and infection, and—in those that need to return to the surface to breathe—suffocation.

Overfishing

Some specific examples of overfishing.
  • On the east coast of the United States, the availability of bay scallops has been greatly diminished by the overfishing of sharks in the area. A variety of sharks have, until recently, fed on rays, which are a main predator of bay scallops. With the shark population reduced, in some places almost totally, the rays have been free to dine on scallops to the point of greatly decreasing their numbers.
  • Chesapeake Bay's once-flourishing oyster populations historically filtered the estuary's entire water volume of excess nutrients every three or four days. Today that process takes almost a year, and sediment, nutrients, and algae can cause problems in local waters. Oysters filter these pollutants, and either eat them or shape them into small packets that are deposited on the bottom where they are harmless.
  • The Australian government alleged in 2006 that Japan illegally overfished southern bluefin tuna by taking 12,000 to 20,000 tonnes per year instead of their agreed 6,000 tonnes; the value of such overfishing would be as much as US$2 billion. Such overfishing has resulted in severe damage to stocks. "Japan's huge appetite for tuna will take the most sought-after stocks to the brink of commercial extinction unless fisheries agree on more rigid quotas" stated the WWF. Japan disputes this figure, but acknowledges that some overfishing has occurred in the past.
  • Jackson, Jeremy B C et al. (2001) Historical overfishing and the recent collapse of coastal ecosystems Science 293:629-638.

Loss of biodiversity

Each species in an ecosystem is affected by the other species in that ecosystem. There are very few single prey-single predator relationships. Most prey are consumed by more than one predator, and most predators have more than one prey. Their relationships are also influenced by other environmental factors. In most cases, if one species is removed from an ecosystem, other species will most likely be affected, up to the point of extinction.

Species biodiversity is a major contributor to the stability of ecosystems. When an organism exploits a wide range of resources, a decrease in biodiversity is less likely to have an impact. However, for an organism which exploit only limited resources, a decrease in biodiversity is more likely to have a strong effect.

Reduction of habitat, hunting and fishing of some species to extinction or near extinction, and pollution tend to tip the balance of biodiversity. For a systematic treatment of biodiversity within a trophic level, see unified neutral theory of biodiversity.

Threatened species

The global standard for recording threatened marine species is the IUCN Red List of Threatened Species. This list is the foundation for marine conservation priorities worldwide. A species is listed in the threatened category if it is considered to be critically endangered, endangered, or vulnerable. Other categories are near threatened and data deficient.

Marine

Many marine species are under increasing risk of extinction and marine biodiversity is undergoing potentially irreversible loss due to threats such as overfishing, bycatch, climate change, invasive species and coastal development.

By 2008, the IUCN had assessed about 3,000 marine species. This includes assessments of known species of shark, ray, chimaera, reef-building coral, grouper, marine turtle, seabird, and marine mammal. Almost one-quarter (22%) of these groups have been listed as threatened.

Group Species Threatened Near threatened Data deficient
Sharks, rays, and chimaeras 17% 13% 47%
Groupers 12% 14% 30%
Reef-building corals 845 27% 20% 17%
Marine mammals 25%
Seabirds 27%
Marine turtles 7 86%
  • Sharks, rays, and chimaeras: are deep water pelagic species, which makes them difficult to study in the wild. Not a lot is known about their ecology and population status. Much of what is currently known is from their capture in nets from both targeted and accidental catch. Many of these slow growing species are not recovering from overfishing by shark fisheries around the world.
  • Groupers: Major threats are overfishing, particularly the uncontrolled fishing of small juveniles and spawning adults.
  • Coral reefs: The primary threats to corals are bleaching and disease which has been linked to an increase in sea temperatures. Other threats include coastal development, coral extraction, sedimentation and pollution. The coral triangle (Indo-Malay-Philippine archipelago) region has the highest number of reef-building coral species in threatened category as well as the highest coral species diversity. The loss of coral reef ecosystems will have devastating effects on many marine species, as well as on people that depend on reef resources for their livelihoods.
  • Marine mammals: include whales, dolphins, porpoises, seals, sea lions, walruses, sea otter, marine otter, manatees, dugong and the polar bear. Major threats include entanglement in ghost nets, targeted harvesting, noise pollution from military and seismic sonar, and boat strikes. Other threats are water pollution, habitat loss from coastal development, loss of food sources due to the collapse of fisheries, and climate change.
  • Seabirds: Major threats include longline fisheries and gillnets, oil spills, and predation by rodents and cats in their breeding grounds. Other threats are habitat loss and degradation from coastal development, logging and pollution.
  • Marine turtles: Marine turtles lay their eggs on beaches, and are subject to threats such as coastal development, sand mining, and predators, including humans who collect their eggs for food in many parts of the world. At sea, marine turtles can be targeted by small scale subsistence fisheries, or become bycatch during longline and trawling activities, or become entangled in ghost nets or struck by boats.
An ambitious project, called the Global Marine Species Assessment, is under way to make IUCN Red List assessments for another 17,000 marine species by 2012. Groups targeted include the approximately 15,000 known marine fishes, and important habitat-forming primary producers such mangroves, seagrasses, certain seaweeds and the remaining corals; and important invertebrate groups including molluscs and echinoderms.

Freshwater

Freshwater fisheries have a disproportionately high diversity of species compared to other ecosystems. Although freshwater habitats cover less than 1% of the world's surface, they provide a home for over 25% of known vertebrates, more than 126,000 known animal species, about 24,800 species of freshwater fish, molluscs, crabs and dragonflies, and about 2,600 macrophytes. Continuing industrial and agricultural developments place huge strain on these freshwater systems. Waters are polluted or extracted at high levels, wetlands are drained, rivers channelled, forests deforestated leading to sedimentation, invasive species are introduced, and over-harvesting occurs.

In the 2008 IUCN Red List, about 6,000 or 22% of the known freshwater species have been assessed at a global scale, leaving about 21,000 species still to be assessed. This makes clear that, worldwide, freshwater species are highly threatened, possibly more so than species in marine fisheries. However, a significant proportion of freshwater species are listed as data deficient, and more field surveys are needed.

Fisheries management

A recent paper published by the National Academy of Sciences of the USA warns that: "Synergistic effects of habitat destruction, overfishing, introduced species, warming, acidification, toxins, and massive runoff of nutrients are transforming once complex ecosystems like coral reefs and kelp forests into monotonous level bottoms, transforming clear and productive coastal seas into anoxic dead zones, and transforming complex food webs topped by big animals into simplified, microbially dominated ecosystems with boom and bust cycles of toxic dinoflagellate blooms, jellyfish, and disease".

Significant other

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