Light emission is widespread in the oceans, with over three quarters of all observed marine species exhibiting bioluminescence. Several organisms such as the copepod Metridia pacifica and the ostracod Vargula hilgendorfii have been proven to synthesise their luciferin and luciferase to facilitate light emission. However, many luminescent species lack the capability to do this and instead it is possible that they acquire some of the components for their luminescence through predation or filter feeding on organisms that produce luciferins or precursors to these molecules. This has resulted in many organisms using certain luciferins, such as coelenterazine, as their substrate without possessing a clear mechanism to synthesise these. This chapter will review several examples of these semi-intrinsic luminescent systems and how the substrates and enzymes can be obtained for these reactions. Moreover, it will look at why particular luciferins, such as coelenterazine, are more widespread and utilised in this manner compared to other substrates.
Bioluminescence is a chemical process numerous organisms utilise to produce light. This reaction has been studied in a wide range of taxa, in terms of its chemistry, evolutionary history and purpose in ecology . This ability to emit light via a chemical reaction can be found in a diverse range of phyla, ranging from simple unicellular bacteria and protists to more complex organisms such as cephalopods and elasmobranchs . Generally, this is a chemical reaction that involves the oxidation of a luciferin compound in the presence of a luciferase enzyme. This produces an unstable intermediate (usually a cyclic peroxide) that breaks down to produce a compound generically called oxyluciferin and gives off a large amount of energy as light [2, 3].
This phenomenon has evolved independently at least 94 and potentially over 100 times  across both marine and terrestrial genera, and around 80% of bioluminescent genera occur in the oceans [5, 6]. In marine ecosystems, it is estimated that up to 95% of organisms that dwell below 200 m depth are able to emit light [7, 8, 9]. Given the widespread utilisation of this phenomenon, there are a diverse array of luminescent systems that exist with several different substrates and a wide variety of associated enzymes.
Unlike the enzymatic component of the reaction where individual species are capable of expressing unique enzymes, luciferins are more conserved, and the same structures can be found across multiple distinct phyla. As of now at least 10 natural luciferins have been identified in terms of their chemical structure [4, 10]. Of those, the four main marine groups of luciferins are bacterial luciferin, tetrapyrrole used by dinoflagellates and krill, cypridinid luciferin used by several species of fish and ostracods and coelenterazine which is used by luminescent organisms in at least 9 different phyla .
Despite being a critical component for light emission, many marine organisms do not produce their own luciferins, and obtain these small organic compounds from their diet by grazing or predating on other luminescent organisms . These species exhibit semi-intrinsic luminescence, as they still express their own luciferase enzymes, however they can obtain the substrates and potentially precursors to luciferin needed for luminescence through their diets . Some have even shown the capacity to obtain the enzymatic component of the luminescent reaction through their diet as well . With regards to this phenomenon the most notable examples of semi-intrinsic luminescence involve coelenterazine and cypridinid luciferin .
This chapter will review the prevalence of known semi-intrinsic luminescent systems and how these organisms have attained light emission. Moreover, it will look at why these reactions and predator–prey relationships have evolved over time and discuss why certain substrates are more commonly observed in semi-intrinsic luminescence.
2. Sources of luminescence in semi-intrinsic systems
Identifying the presence of luminescence in an organism is well established and involves identifying the luciferin and luciferase involved in the reaction and separating them. The basic technique for luciferin and luciferase separation, developed by Dubois [15, 16] is termed “hot-cold extract”. In this method, two water extracts of luminogenic tissue are prepared [3, 16]. The use of cold extract allows to preserve the activity of the enzyme (luciferase), while the heated fraction destroys the proteins and yields the luciferin, and when both extracts are mixed together an
However, this in of itself does not establish how the luminescent organism obtained these components. A possible method to identify this is by constructing the transcriptome of an organism to prove the luciferase enzyme was expressed and not obtained through diet [3, 18]. However, this is a lot more difficult when it comes to identifying whether an organism can synthesise its own luciferin, as very few biosynthetic pathways have been established.
Despite this, it has been shown by controlling the diet of a number of higher taxa that their luminescence is dependent on the consumption of particular organisms [12, 19]. Subsequently, it has been possible to identify several organisms at lower trophic levels that can produce their own luciferin, including the ostracod
2.1 Cypridinid luciferin
Cypridinid luciferin was the first marine luminescent substrate to be identified in terms of its chemical structure. This compound was first isolated and crystallised by Shimomura and colleagues [21, 22], and the structure was determined by Kishi et al. , allowing for the detailed study of the biochemistry of this reaction . The ostracod
Kato and colleagues [26, 27] showed that ostracod luciferin is synthesised from tryptophan, isoleucine, and arginine, via a currently unknown pathway. This was observed by labelling the amino acid L-tryptophan with deuterium before feeding the ostracod
The majority of luminescent organisms in marine environments with known or partially studied light emission systems utilise coelenterazine. Coelenterazine is an imidazopyrazinone compound (3,7-dihydroimidazopyrazin-3-one structure) that occurs exclusively in marine organisms in a wider range of phyla (at least nine) than any other luciferin . These include radiolarians, ctenophores, cnidarians, molluscs, multiple arthropods, and some fish . A large proportion of these organisms are assumed to have taken up this luciferin through their diet with only a few organisms shown to synthesise their own substrate [30, 31, 32]. The coelenterazine molecule was originally given its name due to the initial discovery of its presence in coelenterates, namely
Whilst coelenterazine has been found in a diverse array of phyla, a biosynthetic pathway and origin has not yet been determined for the majority of species, which are thought to obtain coelenterazine through their diet . Coelenterazine has been shown to be synthesised in the deep-sea copepod,
Recently it has been proposed that luminescent ctenophores are also able to produce their own luminescent components. The phylum Ctenophora or comb jellies are similar to the coelenterates in their morphology and apart from the family Pleurobrachiidae, all are presumed to be luminescent . Ctenophores had previously been considered to be a source of coelenterazine synthesis in the oceans as there are reports of bioluminescence at early developmental stages . When fed a coelenterazine-free non-luminescent diet, ctenophores were still shown to possess this substrate via mass spectrometry . This recent study has implications that a number of other marine organisms, in addition to
3. Semi-intrinsic luminescent systems
3.1 Luminescence in fish
Most notable semi-intrinsic luminescence occurs in higher trophic levels such as among fishes. Several species have been shown to utilise the imidazopyrazinone type substrates cypridinid luciferin and coelenterazine in luminescent reactions [1, 3, 41], though they are shown to express their own luciferase enzymes . Often these have evolved to harbour luminescence in specialised regions of the body that allow for particular behaviours and functions for luminescence [1, 42].
3.1.1 Cypridinid luciferin in the midshipman fish
Several species of midshipman fish have been shown to utilise cypridinid luciferin as a substrate in their own luminescent reactions, despite showing no identifiable capability to synthesise their own luciferin . A notable example of this has been observed consistently in the species
By adding small amounts of cypridinid luciferin to
The midshipman fish is a visually active nocturnal predator, that can utilise this acquired cypridinid luciferin to facilitate its hunting strategies. It has been speculated that the array of photophores on its body can mimic the light emission seen in euphausiid swarms, attracting unsuspecting prey [43, 50, 51]. This ability in combination with its highly evolved eyesight have allowed for it to be an effective nocturnal predator, feeding on both luminescent and non-luminescent organisms . Cypridinid luciferin is not isolated to this species and has been found in several other luminescent coastal fishes including in the families, Pempheridae and Apogonidae . Apogonids, or cardinalfishes are mostly reef dwelling with several species exhibiting visceral light organs that produce luminescence . Similarly, Pempheridae commonly known as sweeper fishes, also have photophores along the length of their bodies and tend to be found in shallow marine and brackish waters . It is likely that these species acquire their luminescence from ostracods, in a similar manner to the midshipman fish, though this is still to be confirmed experimentally.
3.1.2 Coelenterazine in Myctophid and Stomiid fishes
Cypridinid luciferin accounts for the luminescence observed in only a few species of bony fish as well as within ostracods, meaning it does not encompass a large amount of the total luminescence in marine environments. The most ubiquitous luciferin found in marine organisms is coelenterazine with species across multiple phyla utilising this as their substrate for light emission [12, 40]. Among the fishes, numerous species of Myctophidae and Stomiiformes have been shown to utilise coelenterazine for bioluminescence, which is obtained through their diet, either by predating directly on coelenterazine producing copepods such as
Myctophids, commonly known as lanternfish, are one of the most widespread and abundant families of mesopelagic fish in the oceans. They are distributed globally, with over 250 species identified across 33 genera and 2 subfamilies [56, 57]. Lanternfish are taxonomically distinguished by specific patterns of luminescent photophores that have allowed for a diverse array of strategies for both prey detection and predator avoidance [58, 59]. Generally, Lanternfish have two kinds of photophores, one along the body with the other proximal to their eyes (Figure 2). These two sets of photophores are able to illuminate independently from one another allowing for a variety of ecological functions. Photophores arranged on the ventral surface produce a constant dim blue luminescent glow and can allow for counter-illumination similar to other luminescent fishes, which would allow lanternfish to blend into the surrounding water column . This would facilitate an ability to ambush prey as well as to hide from potential predators in the water column. These arrays of photophores form species specific patterns, which may allow for them to be used in intraspecific recognition [56, 60]. In addition to this array of photophores on the body, most lanternfish have one or more larger photophores on their head, usually positioned sub-orbitally or in the direct vicinity of their eyes . Unlike the photophores on the ventral surface, these emit light in brief intermittent brilliant flashes. This is thought to allow either for predation by illuminating their prey, as well as being used to avoid predators by flashing and startling any larger organisms [56, 62]. Given that these suborbital photophores have sexual dimorphism, it is also possible that their main role is in communication within the species [56, 63].
Lanternfish feed predominantly on a variety of zooplankton including copepods such as
Stomiiform fishes include four families comprising of Gonostomatidae (bristlemouths), Phosichthyidae (lightfishes), Sternoptychidae (hatchetfishes), and the Stomiidae (dragonfishes) . Among the dragonfishes, all species identified within this group have been shown to be bioluminescent, harbouring their light emission within specialised arrays of photophores. Apart from the Arctic Ocean, Stomiidae fishes are distributed globally, residing in the mesopelagic zone of the ocean between 200 and 1000 m depth, with some species recorded to a depth more than 4000 m [64, 65]. Luminescence may well be derived from the coelenterazine in their diets, with several species showing cross reactivity with coelenterazine in a similar way to some lanternfish . However, it has been difficult to determine whether these animals are capable of synthesising their own luciferin, given that it is not yet possible to collect and maintain stomiid fishes in aquaria for any length of time. Dragonfishes are predators, utilising their bioluminescent emissions both as lures and as means to illuminate prey in order to facilitate prey capture . Most feed on squid, shrimps and other fishes including lanternfishes, which may facilitate a source for coelenterazine in a number of these species .
Support for a dietary origin for luciferin in a number of stomiids is supported by their ability to uptake other small molecules to utilise in light emission. An example of this is shown in several species of loose-jaw dragonfish (
3.2 Other Coelenterazine utilising systems
Semi-intrinsic luminescence is clearly present in several marine vertebrates that utilise either cypridinid luciferin or coelenterazine as their substrate. However, this alone does not account for the diverse array of marine phyla that use coelenterazine in their bioluminescent behaviours. Many organisms previously considered to synthesise coelenterazine have since been shown to obtain this through their diet, including in the cnidarians where this was first discovered.
3.2.1 Cnidaria (Coelenterates)
Bioluminescence within the phylum Cnidaria has been studied more than in any other marine invertebrate. Most notably the hydromedusa
By controlling the diet of
Among the crustacea there is proven case of a fully intrinsic luminescent system in the copepod
These shrimp use bioluminescence to evade predators as they emit a brilliant blue cloud of luminescence when agitated that acts as a smoke screen . Given that deep water visual predators have highly sensitive eyes, the bioluminescent ink cloud will have a much greater effect in startling nearby predators than the ink clouds produced by most cephalopods . It is possible that producing this amount of luminescent material has a high energetic so it may be easier from an evolutionary perspective to obtain this through their diet instead of via an internal biosynthetic pathway.
An assumption may be that as the majority of coelenterazine in the ocean is produced and utilised by eukaryotes, that organisms such as protists would synthesise their own source of luciferin rather than obtain it through their diets. However even protozoa such as several radiolarian species are not only capable of bioluminescence but obtain coelenterazine through their diet . For example, bioluminescence has been found in several species of
Other smaller marine organisms are able to acquire luminescence through predation, such as at least two species of chaetognaths. This phylum comprises of small, elongated worms that are between 2 and 120 mm in length . Commonly known as “arrow worms” at least two species have been shown to be luminescent and can be found at depths greater than 700 m in marine systems ranging from tropical to polar regions . Luminescence in all of these species is emitted as a blue cloud of light and may facilitate a role in stunning their prey to assist with their hunting strategies giving the lack of visible light that will attenuate down to these depths. Despite being from evolutionarily distinct lineages within the chaetognaths, luminescent species such as
This provides strong evidence that some species will predate on luminescent organisms such as copepods in order to provide a dietary source of coelenterazine for their luminescent reaction as shown in a number of other marine organisms [12, 48]. Once absorbed, coelenterazine would be able to be passed through to their luminescent organs that harbour the light reaction, which tend to be found on the lateral and dorsal fins as well as along the sides of the body of these species .
Most species that exhibit semi-intrinsic bioluminescence acquire their luciferin via predation, most notably on luminescent copepods or on their predators. However, it is also feasible that filter feeders will be able to acquire coelenterazine and other luciferins through their diet. One such example is seen in the ophiuroids or brittle stars where many species have been shown to emit light [81, 82]. One such example is the brittle star
A recent study monitored
While it has not fully been confirmed yet, it is possible a large number of other filter feeding marine organism can acquire luminescent components from their diet. Within the chordates the subphylum Tunicata, comprises of a number of species shown to produce luminescence, although compared with other luminescent organisms these remain poorly studied. Within the tunicates, luminescence is well represented among the appendicularians with several species being confirmed to produce luminescence. One such example within this group is the larvacean
Another example of luminescence in tunicates is found in pyrosomes which are pelagic tunicates known for their sustained bright blue luminescence as well as their capacity to form sporadic and yet massive blooms such as those observed in this region . There is currently a lack of consensus on the origin of luminescence in this species. A recent study has shown that light emission occurs in the presence of coelenterazine for the species
Like previously mentioned phyla, some luminescent molluscs are able to acquire coelenterazine through their diet. This includes the clam
Another derivative found in several molluscs is dehydrocoelenterazine. This is an oxidised form of coelenterazine and was identified as the luciferin required in the luminescence of the clam
3.3 Non imidazopyrazinone substrates
All examples of semi-intrinsic luminescence so far have involved either coelenterazine or cypridinid luciferin as the substrate. Dinoflagellate luciferin has also been shown be required by several heterotrophic organisms that appear to not be able to synthesise this luciferin. Dinoflagellates are unicellular organisms that account for the majority of bioluminescence observed in the surface ocean [100, 101]. The compounds involved with luminescence are regulated on a diurnal circadian rhythm, along with photosynthetic components. This means that dinoflagellates conduct primary production during the day and only produce bioluminescence at night, when this would be most effective. The structure of this luciferin was originally determined from
Dinoflagellate luciferin shows no similarities to other luciferins and is found in forms, one within dinoflagellates and another with two hydroxyl moieties in euphausiids (krill). This similarity suggests that there is some form of dietary link [102, 103]. Studies have shown luminescent euphausiids occurred in high densities which coincided with large populations of dinoflagellates during late spring . Additionally, heterotrophic species of dinoflagellate, such as
4. “Kleptoprotein” luminescence
A general consensus among semi-intrinsic luminescent systems is that the components of the light emission utilised by other organisms are the substrates rather than enzymes. As most of these animals acquire luminescence through their diets, any exogenous components would need to be able to withstand digestion and potentially transport through the blood plasma to the luminogenic organs. Given this it seems unlikely that the enzymatic component of luminescence would be able to be obtained in this manner, as they would likely be denatured and completely broken-down during digestion .
However, a recent study on the
This is the first reporting of this type of phenomenon in bioluminescence, and up until now it was assumed that any consumed luciferase enzyme would be broken down into amino acids or oligopeptides before being absorbed via the gut wall as nutrients . However, the possibility of protein uptake without being fully broken down and retaining activity has been reported in several vertebrate immune systems. An example of this is seen in M cells within the mammalian intestinal epithelia as these have an important role in the immune system by transporting macromolecules and microbes into the cell via pinocytosis . Similar examples of this have been observed in cyprinid fishes so it is feasible these or similar structures could facilitate the transfer of ostracod luciferase to the photophores of this animal .
This example of a “kleptoprotein” form of luminescence where both the substrate and the enzyme are provided through the diet, provides an additional novel category of luminescent reactions, as of yet not considered. Moreover, this highlights the possibility that other luminescent species may utilise this capability to obtain active exogenous luciferase from their gut. Potentially, this may include several species of fishes that predate on ostracods, whose light organs are often connected to their digestive tracts. This research may suggest that semi-intrinsic and “kleptoprotein” luminescent behaviours may be more widespread than previously considered, with proteins associated with other biological processes potentially being able to be attained via diet as opposed to gene expression.
5. Why semi-intrinsic luminescence occurs?
Semi-intrinsic luminescence has been shown to exist in a number of organisms and is hypothesised to exist in several others. Cypridinid luciferin and dinoflagellate luciferin have been shown to be taken up by predators of ostracods and dinoflagellates respectively, notably several species of fishes, and euphausiid shrimp. However, the majority of semi-intrinsic luminescence, in addition to the majority of bioluminescence in the oceans involves using coelenterazine. Dietary uptake of coelenterazine has been shown in coelenterates, echinoderms, and decapod shrimp, while it is also strongly supported to be the source of luciferin in myctophid and stomiid fishes, chaetognaths, tunicates and several species of squid. Moreover, coelenterazine can be modified via oxidation or di-sulfonation, once it is taken up by species, allowing for a variety of different light reaction mechanisms to occur with this molecule. It is important to understand why some animals use semi-intrinsic luminescence, and the potential evolutionary origins of this, and how coelenterazine may spread across the food web and be the most common light emission system in the oceans. It is useful to consider whether this phenomenon along with “kleptoprotein” luminescence is a lot more widespread in other biological processes and systems.
There are two main groups of hypotheses on why bioluminescence evolved originally; one based around changes in the luciferin (substrate-centric hypothesis) [5, 107] and another that suggests changes occurred in what became the luciferase enzyme (enzyme-centric hypothesis) . The first hypothesis suggests that the luciferin substrate evolved in order to protect organisms from reactive oxidative species (
The alternate hypothesis focuses on the enzyme luciferase and that these molecules were originally less specific oxygenase enzymes . The oxygenase enzymes mutated as a result of animals migrating to deeper waters to either evade visual predators, or to predate on organisms that have migrated to deeper water . The mutation in oxygenase enzymes associated with display functions would result in external luminescence being exhibited . These display pigments would previously have been associated with warning colourations or patterns to both recognise species and attract potential mates. There is evidence for enzyme-based hypotheses in terms of enhancement of visual signals . However, there is no biochemical or genetic evidence that would support this hypothesis, and the mutation of the luciferase enzyme alone would not explain the convergent evolution of the bioluminescent reaction in multiple phyla [1, 5].
Whether one or a combination of both hypotheses are more viable for the origins of luminescence, both allow for the possible co-evolution of predators and prey that may utilise the same source of luminescence. Convergent evolution caused by environmental factors may have allowed for the presence of various enzymes that were compatible with the same substrate resulting in coelenterazine being utilised by both animals that can synthesise it as well as their predators. Moreover, given the energetic costs associated with synthesising luciferins, it may simply be more efficient for some of these organisms to acquire exogenous sources instead.
Semi-intrinsic luminescent organisms, particularly those that harbour coelenterazine, have shown the potential spread and dispersal across the food web for not just luciferins, but other molecules that may be involved in biological processes. A major source of coelenterazine is found in the copepod
In a number of these organisms, luciferin has been identified in a sulfonated form. The most notable example of this is in the firefly squid, however sulfonated luciferins have been identified in
Luminescence has evolved and been prevalent in a wide variety of marine species being utilised for a number of predative, defensive and communicative functions. Some organisms have developed predator–prey relationships where the predator is able to acquire and utilise luciferin with its own luciferase to emit light. This chapter has reviewed many of the species that exhibit this type of behaviour and utilise semi-intrinsic luminescence, in addition to describing the sources of luciferin in these systems and how this molecule is able to be taken up by consumers. Although this has only been experimentally tested in a few species, it is highly likely that a number of other luminescent organisms utilise this, especially as it is a lot easier from an evolutionary perspective to obtain luciferins from the diet, compared with synthesising them from amino acids or other unknown biosynthetic pathways. This phenomenon raises the question of whether small molecules and enzymes involved in other biological processes are able to be taken up in this manner as well which could provide an evolutionary selection process that is an alternative to molecular evolution.
This work is supported in part by JST CREST (JPMJCR16N1). We would also like to thank Dr. Ken-ichi Onodera and Okinawa Churaumi Aquarium for providing some photos for this chapter.