Chlorophyll a in the context of Wavelengths

Chlorophyll is any of several related green pigments found in cyanobacteria and in the chloroplasts of algae and plants. Its name is derived from the Greek words χλωρός (khloros, "pale green") and φύλλον (phyllon, "leaf"). Chlorophyll allows plants to absorb energy from light. Those pigments are involved in oxygenic photosynthesis, as opposed to bacteriochlorophylls, related molecules found only in bacteria and involved in anoxygenic photosynthesis.

Chlorophylls absorb light most strongly in the blue portion of the electromagnetic spectrum as well as the red portion. Conversely, it is a poor absorber of green and near-green portions of the spectrum. Hence chlorophyll-containing tissues appear green because green light, diffusively reflected by structures like cell walls, is less absorbed. Two types of chlorophyll exist in the photosystems of green plants: chlorophyll a and b.

Viridiplantae (lit. 'green plants'; kingdom Plantae sensu stricto) is a clade of around 450,000–500,000 species of eukaryotic organisms, most of which obtain their energy by photosynthesis. The green plants are chloroplast-bearing autotrophs that play important primary production roles in both terrestrial and aquatic ecosystems. They include green algae, which are primarily aquatic, and the land plants (embryophytes, Plantae sensu strictissimo), which emerged within freshwater green algae. Green algae traditionally excludes the land plants, rendering them a paraphyletic group, however it is cladistically accurate to think of land plants as a special clade of green algae that evolved to thrive on dry land. Since the realization that the embryophytes emerged from within the green algae, some authors are starting to include them.

Viridiplantae species all have cells with cellulose in their cell walls, and primary chloroplasts derived from endosymbiosis with cyanobacteria that contain chlorophylls a and b and lack phycobilins. Corroborating this, a basal phagotroph Archaeplastida group has been found in the Rhodelphidia. In some classification systems, the group has been treated as a kingdom, under various names, e.g. Viridiplantae, Chlorobionta, or simply Plantae, the latter expanding the traditional plant kingdom of embryophytes to include the green algae. Adl et al., who produced a classification for all eukaryotes in 2005, introduced the name Chloroplastida for this group, reflecting the group having primary chloroplasts. They rejected the name Viridiplantae on the grounds that some of the species are not plants as understood traditionally. Together with Rhodophyta, glaucophytes and other basal groups, Viridiplantae belong to a larger clade called Archaeplastida which in itself is sometimes described as Plantae sensu lato.

Yellow-green algae or the Xanthophyceae (xanthophytes) are an important group of heterokont algae. Most live in fresh water, but some are found in marine and soil habitats. They vary from single-celled flagellates to simple colonial and filamentous forms. Xanthophyte chloroplasts contain the photosynthetic pigments chlorophyll a, chlorophyll c, β-carotene, and the carotenoid diadinoxanthin. Unlike other Stramenopiles (heterokonts), their chloroplasts do not contain fucoxanthin, which accounts for their lighter colour. Their storage polysaccharide is chrysolaminarin. Xanthophyte cell walls are produced of cellulose and hemicellulose. They appear to be the closest relatives of the brown algae.

The embryophytes (/ˈɛmbriəˌfaɪts/) are a clade of plants, known as Embryophyta (Plantae sensu strictissimo) (/ˌɛmbriˈɒfətə, -oʊˈfaɪtə/) or land plants. They are the most familiar group of photoautotrophs that make up the vegetation on Earth's dry lands and wetlands. Embryophytes have a common ancestor with green algae, having emerged within the Phragmoplastophyta clade of freshwater charophyte green algae as a sister taxon of Charophyceae, Coleochaetophyceae and Zygnematophyceae. Embryophytes consist of the bryophytes and the polysporangiophytes. Living embryophytes include hornworts, liverworts, mosses, lycophytes, ferns, gymnosperms and angiosperms (flowering plants). Embryophytes have haplodiplontic life cycles.

The embryophytes are informally called "land plants" because they thrive primarily in terrestrial habitats (despite some members having evolved secondarily to live once again in semiaquatic/aquatic habitats), while the related green algae are primarily aquatic. Embryophytes are complex multicellular eukaryotes with specialized reproductive organs. The name derives from their innovative characteristic of nurturing the young embryo sporophyte during the early stages of its multicellular development within the tissues of the parent gametophyte. With very few exceptions, embryophytes obtain biological energy by photosynthesis, using chlorophyll a and b to harvest the light energy in sunlight for carbon fixation from carbon dioxide and water in order to synthesize carbohydrates while releasing oxygen as a byproduct. The study of land plants is called phytology.

Microalgae or microphytes are microscopic algae invisible to the naked eye. They are phytoplankton typically found in freshwater and marine systems, living in both the water column and sediment. They are unicellular species which exist individually, or in chains or groups. Depending on the species, their sizes can range from a few micrometers (μm) to a few hundred micrometers. Unlike higher plants, microalgae do not have roots, stems, or leaves. They are specially adapted to an environment dominated by viscous forces.

Microalgae, capable of performing photosynthesis, are important for life on earth; they produce approximately half of the atmospheric oxygen and use the greenhouse gas carbon dioxide to grow photoautotrophically. "Marine photosynthesis is dominated by microalgae, which together with cyanobacteria, are collectively called phytoplankton." Microalgae, together with bacteria, form the base of the food web and provide energy for all the trophic levels above them. Microalgae biomass is often measured with chlorophyll a concentrations and can provide a useful index of potential production. Microalgae are very similar to terrestrial plants because they contain chlorophyll, as well as they require sunlight in order to grow and live. They can often be found floating in the top part of the ocean, which is where sunlight touches the water. Microalgae require nitrates, phosphates, and sulfur which they convert into carbohydrates, fats, and proteins. Due to this converting ability, they are known to have health and nutritional benefits. It has been found to work as an ingredient in some foods, as well as a biostimulant in agricultural products.

Lepidodinium is a genus of dinoflagellates belonging to the family Gymnodiniaceae. Lepidodinium is a genus of green dinoflagellates in the family Gymnodiniales. It contains two different species, Lepidodinium chlorophorum and Lepidodinium viride. They are characterised by their green colour caused by a plastid derived from Pedinophyceae, a green algae group. This plastid has retained chlorophyll a and b, which is significant because it differs from the chlorophyll a and c usually observed in dinoflagellate peridinin plastids. They are the only known dinoflagellate genus to possess plastids derived from green algae. Lepidodinium chlorophorum is known to cause sea blooms, partially off the coast of France, which has dramatic ecological and economic consequences. Lepidodinium produces some of the highest volumes of transparent exopolymer particles of any phytoplankton, which can contribute to bivalve death and the creation of anoxic conditions in blooms, as well as playing an important role in carbon cycling in the ocean.

Upwelling is an oceanographic phenomenon that involves wind-driven motion of dense, cooler, and usually nutrient-rich water from deep water towards the ocean surface. It replaces the warmer and usually nutrient-depleted surface water. The nutrient-rich upwelled water stimulates the growth and reproduction of primary producers such as phytoplankton. The biomass of phytoplankton and the presence of cool water in those regions allow upwelling zones to be identified by cool sea surface temperatures (SST) and high concentrations of chlorophyll a.

The increased availability of nutrients in upwelling regions results in high levels of primary production and thus fishery production. Approximately 25% of the total global marine fish catches come from five upwellings, which occupy only 5% of the total ocean area. Upwellings that are driven by coastal currents or diverging open ocean have the greatest impact on nutrient-enriched waters and global fishery yields.

Chlorophyll b is a form of chlorophyll. Chlorophyll b helps in photosynthesis by absorbing light energy. It is more soluble than chlorophyll a in polar solvents because of its carbonyl group. Its color is green, and it primarily absorbs blue light.

In land plants, the light-harvesting antennae around photosystem II contain the majority of chlorophyll b. Hence, in shade-adapted chloroplasts, which have an increased ratio of photosystem II to photosystem I, there is a higher ratio of chlorophyll b to chlorophyll a. This is adaptive, as increasing chlorophyll b increases the range of wavelengths absorbed by the shade chloroplasts.

Phycobilins (from Greek: φύκος (phykos) meaning "alga", and from Latin: bilis meaning "bile") are light-capturing bilins found in cyanobacteria and in the chloroplasts of red algae, glaucophytes and some cryptomonads (though not in green algae and plants). Most of their molecules consist of a chromophore which makes them coloured. They are unique among the photosynthetic pigments in that they are bonded to certain water-soluble proteins, known as phycobiliproteins. Phycobiliproteins then pass the light energy to chlorophylls for photosynthesis.

The phycobilins are especially efficient at absorbing red, orange, yellow, and green light (in the range 520 to 630 nm), wave lengths that are not well absorbed by chlorophyll a. Organisms growing in shallow waters tend to contain phycobilins that can capture yellow/red light, while those at greater depth often contain more of the phycobilins that can capture green light, which is relatively more abundant there.

Chlorophyll c refers to forms of chlorophyll found in certain marine algae, including the photosynthetic Chromista (e.g. diatoms and brown algae) and dinoflagellates. These pigments are characterized by their unusual chemical structure, with a porphyrin as opposed to the chlorin (which has a reduced ring D) as the core; they also do not have an isoprenoid tail. Both these features stand out from the other chlorophylls commonly found in algae and plants.

It has a blue-green color and is an accessory pigment, particularly significant in its absorption of light in the 447–520 nm wavelength region. Like chlorophyll a and chlorophyll b, it helps the organism gather light and passes a quanta of excitation energy through the light harvesting antennae to the photosynthetic reaction centre.

Nannochloropsis is a genus of algae comprising six known species. The genus in the current taxonomic classification was first termed by Hibberd (1981). The species have mostly been known from the marine environment but also occur in fresh and brackish water. All of the species are small, nonmotile spheres which do not express any distinct morphological features that can be distinguished by either light or electron microscopy. The characterisation is mostly done by rbcL gene and 18S rRNA sequence analysis.

The algae of the genus Nannochloropsis differ from other related microalgae in that they have chlorophyll a and completely lack chlorophyll b and chlorophyll c. In addition they are able to build up a high concentrations of a range of pigments such as astaxanthin, zeaxanthin and canthaxanthin. They have a diameter of about 2 to 3 micrometers and a very simple ultrastructure with reduced structural elements compared to neighbouring taxa.

Accessory pigments are light-absorbing compounds, found in photosynthetic organisms, that work in conjunction with chlorophyll a. They include other forms of this pigment, such as chlorophyll b in green algal and vascular ("higher") plant antennae, while other algae may contain chlorophyll c or d. In addition, there are many non-chlorophyll accessory pigments, such as carotenoids or phycobiliproteins, which also absorb light and transfer that light energy to photosystem chlorophyll. Some of these accessory pigments, in particular the carotenoids, also serve to absorb and dissipate excess light energy, or work as antioxidants. The large, physically associated group of chlorophylls and other accessory pigments is sometimes referred to as a pigment bed.

The different chlorophyll and non-chlorophyll pigments associated with the photosystems all have different absorption spectra, either because the spectra of the different chlorophyll pigments are modified by their local protein environment or because the accessory pigments have intrinsic structural differences. The result is that, in vivo, a composite absorption spectrum of all these pigments is broadened and flattened such that a wider range of visible and infrared radiation is absorbed by plants and algae. Most photosynthetic organisms do not absorb green light well, thus most remaining light under leaf canopies in forests or under water with abundant plankton is green, a spectral effect called the "green window". Organisms such as some cyanobacteria and red algae contain accessory phycobiliproteins that absorb green light reaching these habitats.

Zooxanthellae (/ˌzoʊəzænˈθɛliː/; sg. zooxanthella) is a colloquial term for single-celled photosynthetic organisms that are able to live in symbiosis with diverse marine invertebrates including corals, jellyfish, demosponges, and nudibranchs. Most known zooxanthellae are in the dinoflagellate genus Symbiodinium, but some are known from the genus Amphidinium, and other taxa, as yet unidentified, may have similar endosymbiont affinities. "Zooxanthella" was originally a genus name (meaning literally "little yellow animal") given in 1881 by Karl Brandt to Zooxanthella nutricula (a mutualist of the radiolarian Collozoum inerme) which has been placed in the Peridiniales. Another group of unicellular eukaryotes that partake in similar endosymbiotic relationships in both marine and freshwater habitats are green algae zoochlorellae.

Zooxanthellae are photosynthetic organisms, which contain chlorophyll a and chlorophyll c, as well as the dinoflagellate pigments peridinin and diadinoxanthin. These provide the yellowish and brownish colours typical of many of the host species. During the day, they provide their host with the organic carbon products of photosynthesis, sometimes providing up to 90% of their host's energy needs for metabolism, growth and reproduction. In return, they receive nutrients, carbon dioxide, and an elevated position with access to sunlight.

Pheophytin or phaeophytin is a chemical compound that serves as the first electron carrier intermediate in the electron transfer pathway of Photosystem II (PS II) in plants, and the type II photosynthetic reaction center (RC P870) found in purple bacteria. In both PS II and RC P870, light drives electrons from the reaction center through pheophytin, which then passes the electrons to a quinone (Q_A) in RC P870 and RC P680. The overall mechanisms, roles, and purposes of the pheophytin molecules in the two transport chains are analogous to each other.