Protist

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Protists
Examples of protists. Clockwise from top left: red algae, kelp, ciliate, golden alga, dinoflagellate, metamonad, amoeba, slime mold.
Examples of protists. Clockwise from top left: .
Scientific classificationEdit this classification
(paraphyletic)
Domain: Eukaryota
Supergroups[2]
Cladistically included but traditionally excluded taxa
  • Animalia
  • Fungi
  • Embryophyta
    (land plants)

A protist (

last eukaryotic common ancestor
excluding plants, animals, and fungi.

Protists were historically regarded as a separate

electron microscopy studies, the use of Protista as a formal taxon was gradually abandoned. In modern classifications, protists are spread across several eukaryotic clades called supergroups, such as Archaeplastida (photoautotrophs that includes land plants), SAR, Obazoa (which includes fungi and animals), Amoebozoa and "Excavata
".

Protists represent an extremely large

mixotrophy). They present unique adaptations not present in multicellular animals, fungi or land plants. The study of protists is termed protistology
.

Definition

The tree of living organisms, showing the origin of eukaryotes and the position of protists, from which all other eukaryotes evolved.

Protists are a diverse group of

paraphyletic group that includes the ancestors of those three kingdoms.[14]

The names of some protists (called

Common types

Protists display a wide range of distinct

evolved independently several times. The most recognizable types are:[17]

Diversity

Difference between morphological (A) and genetic (B) view of total eukaryotic diversity. Protists dominate DNA barcoding analyses, but constitute a minority of catalogued species.[34]

The

species is very low (ranging from 26,000[35] to over 76,000)[c] in comparison to the diversity of plants, animals and fungi, which are historically and biologically well-known and studied. The predicted number of species also varies greatly, ranging from 1.4×105 to 1.6×106, and in several groups the number of predicted species is arbitrarily doubled. Most of these predictions are highly subjective. Molecular techniques such as environmental DNA barcoding have revealed a vast diversity of undescribed protists that accounts for the majority of eukaryotic sequences or operational taxonomic units (OTUs), dwarfing those from plants, animals and fungi.[34] As such, it is considered that protists dominate eukaryotic diversity.[37]

Protist phylogeny
Eukarya

Discoba

Metamonada

Ancyromonadida

Malawimonadida

Podiata

CRuMs

Amorphea

Amoebozoa

Obazoa

Breviatea

Apusomonadida

Opisthokonta
2

One possible topology for the eukaryotic tree of life, with uncertain positions of
hemimastigotes.[38][3][39][40]
Excavate groups are shown in green. 1Includes land plants. 2Includes animals and fungi.

The evolutionary relationships of protists have been explained through

Alveolata and Rhizaria), as well as the phyla Cryptista and Haptista.[17] The animals and fungi fall into the Amorphea supergroup, which contains the phylum Amoebozoa and several other protist lineages. Various groups of eukaryotes with primitive cell architecture are collectively known as the Excavata.[2]

Excavata

paraphyletic,[40] with some analyses placing the root of the eukaryote tree within Metamonada.[44]

Discoba includes three major groups:

Tsukubamonas globosa is a free-living flagellate whose precise position within Discoba is not yet settled, but is probably more closely related to Discicristata than to Jakobida.[46]

The

mitochondria, and two genera of free-living microaerophilic bacterivorous flagellates Trimastix and Paratrimastix, with typical excavate morphology.[50][51] Two genera of anaerobic flagellates of recent description and unique cell architecture, Barthelona and Skoliomonas, are closely related to the Fornicata.[52]

The malawimonads (Malawimonadida) are a small group (three species) of freshwater or marine suspension-feeding bacterivorous flagellates[53] with typical excavate appearance, closely resembling Jakobida and some metamonads but not phylogenetically close to either in most analyses.[17]

Representative genera of excavates
Giardia (diplomonad)
Trichomonas (parabasalid)
Trypanosoma (kinetoplastid)
Euglena (euglenid)
Malawimonas (malawimonad)

Diaphoretickes

land plants and a variety of algae. In addition, two smaller groups, Haptista and Cryptista, also belong to Diaphoretickes.[2]

Stramenopiles

The stramenopiles, also known as Heterokonta, are characterized by the presence of two cilia, one of which bears many short, straw-like hairs (

Platysulcus tardus.[56] Much of the diversity of heterotrophic stramenopiles is still uncharacterized, known almost entirely from lineages of genetic sequences known as MASTs (MArine STramenopiles),[56] of which only a few species have been described.[57][58]

The phylum Gyrista includes the photosynthetic

Actinophryida, has an uncertain position, either within or as the sister taxon of Ochrophyta.[63]

The little studied phylum Bigyra is an assemblage of exclusively heterotrophic organisms, most of which are free-living. It includes the

opalinids, composed of giant cells with numerous nuclei and cilia, originally misclassified as ciliates).[56]

Alveolata

The

kleptoplastic. Others are parasitic of numerous animals.[65] Ciliates have a basal position in the evolution of alveolates, together with a few species of heterotrophic flagellates with two cilia collectively known as colponemids.[66]

The remaining alveolates are grouped under the clade

colpodellids respectively, are evolutionarily intermingled.[67] In contrast, the apicomplexans (Apicomplexa) are a large (>6,000 species) and highly specialized group of obligate parasites who have all secondarily lost their photosynthetic ability (e.g., Plasmodium falciparum, cause of malaria). Their adult stages absorb nutrients from the host through the cell membrane, and they reproduce between hosts via sporozoites, which exhibit an organelle complex (the apicoplast) evolved from non-photosynthetic chloroplasts.[68][41]
: 600 

The other branch of Myzozoa contains the dinoflagellates and their closest relatives, the perkinsids (

Dinoflagellata) are a highly diversified (~4,500 species)[70] group of aquatic algae that have mostly retained their chloroplasts, although many lineages have lost their own and instead either live as heterotrophs or reacquire new chloroplasts from other sources, including tertiary endosymbiosis and kleptoplasty.[71] Most dinoflagellates are free-living and compose an important portion of phytoplankton, as well as a major cause of harmful algal blooms due to their toxicity; some live as symbionts of corals, allowing the creation of coral reefs. Dinoflagellates exhibit a diversity of cellular structures, such as complex eyelike ocelli, specialized vacuoles, bioluminescent organelles, and a wall surrounding the cell known as the theca.[70]

Rhizaria

defining characteristic and was discovered exclusively through molecular phylogenetics.[73] Three major clades are included, namely the phyla Cercozoa, Endomyxa and Retaria.[2]

Retaria contains the most familiar rhizarians:

forams and radiolarians, two groups of large free-living marine amoebae with pseudopodia supported by microtubules, many of which are macroscopic.[17] The radiolarians (Radiolaria) are a diverse group (>1,000 living species) of amoebae, often bearing delicate and intricate siliceous skeletons.[74] The forams (Foraminifera) are also diverse (>6,700 living species),[75] and most of them are encased in multichambered tests constructed from calcium carbonate or agglutinated mineral particles.[17] Both groups have a rich fossil record, with tens of thousands of described fossil species.[75][76]

Cercozoa (also known as

thaumatomonads in Thecofilosea).[79] Among the basal-branching cercozoans are the pseudopodia-lacking thecate flagellates of Metromonadea, the heliozoan-like Granofilosea[79] and the photosynthetic chlorarachniophytes, whose chloroplasts originated from a secondary endosymbiosis with a green alga.[17]

Endomyxa contains two major clades of parasitic protists:

Besides these three phyla, Rhizaria includes numerous enigmatic and understudied lineages of uncertain evolutionary position. One such clade is the

Gymnosphaerida, which includes heliozoan-type protists.[83] Several clades labeled as Novel Clades (NC) are entirely composed of environmental DNA from uncultured protists, although a few have slowly been resolved over the decades with the description of new taxa (e.g., Tremulida and Aquavolonida, formerly NC11 and NC10 respectively, with a deep-branching position in Rhizaria).[84]

Haptista and Cryptista

Haptista and Cryptista are two similar phyla of single-celled protists previously thought to be closely related, and collectively known as Hacrobia.[85] However, the monophyly of Hacrobia was disproven, as the two groups originated independently.[86] Molecular analyses place Cryptista next to Archaeplastida, forming the hypothesized "CAM" clade, and Haptista next to the Telonemia and SAR clade (Telonemia may either be the sister group to SAR, forming the hypothesized TSAR clade,[87] or to Haptista, forming a common sister clade to SAR[54][39]).[39][40]

The phylum Haptista includes two distinct clades with mineralized scales: haptophytes and centrohelids.[17] The haptophytes (Haptophyta) are a group of over 500 living species[47] of flagellated or coccoid algae that have acquired chloroplasts from a secondary endosymbiosis. They are mostly marine, comprise an important portion of oceanic plankton, and include the coccolithophores, whose calcified scales ('coccoliths') contribute to the formation of sedimentary rocks and the biogeochemical cycles of carbon and calcium. Some species are capable of forming toxic blooms.[88] The centrohelids (Centroplasthelida) are a small (~95 species)[89] but widespread group of heterotrophic heliozoan-type amoebae, usually covered in scale-bearng mucous, that form an important component of benthic food webs of aquatic habitats, both marine and freshwater.[90]

The phylum Cryptista is a clade of three distinct groups of unicellular protists:

Palpitomonas bilix.[2] The cryptomonads (>100 species), also known as cryptophytes, are flagellated algae found in aquatic habitats of diverse salinity, characterized by extrusive organelles or extrusomes called ejectisomes. Their chloroplasts, of red algal origin, contain a nucleomorph, a remnant of the eukaryotic nucleus belonging to the endosymbiotic red alga.[91] The katablepharids, the closest relatives of cryptomonads, are heterotrophic flagellates with two cilia, also characterized by ejectisomes.[85][2] The species Palpitomonas bilix is the most basal-branching member of Cryptista, a marine heterotrophic flagellate with two cilia, but unlike the remaining members it lacks ejectisomes.[92]

Archaeplastida

Archaeplastida is the clade containing those photosynthetic groups whose

land plants (Embryophyta) and a big portion of the diversity of algae, most of which are the green algae, from which plants evolved, and the red algae.[93] A third lineage of algae, the glaucophytes (25 species),[47] contains rare and obscure species found in surfaces of freshwater and terrestrial habitats.[93]

The red algae or Rhodophyta (>7,100 species) are a group of diverse morphologies, ranging from single cells to

Rhodelphidia (3 species),[95] which still retain genetic evidence of relic plastids;[96] and the marine Picozoa (1 species), which lack any remains of plastids. The evolutionary position of Picozoa may indicate that there have been two separate events of primary endosymbiosis, as opposed to one.[97]

The green algae, unlike the

Chlorokybophyceae (five species), with sarcinoid forms.[101][47]

Representative genera of archaeplastids
Cyanophora (glaucophyte)
Corallina (red alga)
Volvox (chlorophyte)
Spirogyra (zygnematophycean)
Chara (charophycean)

Amorphea

Apusomonadida (28 species)[105] and the amoeboflagellate anaerobic Breviatea (four species).[17] Together with opisthokonts, these two groups form the clade Obazoa, the sister clade to Amoebozoa.[104]

Amoebozoa

The phylum

Variosea, a heterogeneous assortment of amoeboid, reticulate or flagellated organisms[108] (including some sorocarp-producing organisms);[112] and the anaerobic Archamoebae, some of which live as intestinal symbionts of some animals (e.g., Entamoeba).[2]

Opisthokonta

Opisthokonta includes the animal and fungal kingdoms,

nucleariids, a small group (~50 species) of free-living naked or scale-bearing phagotrophic amoebae with filose pseudopodia, some of which can aggregate into slime moulds.[114] Within the wider definition of fungi, three groups are studied as protists by some authors: Aphelida (15 species),[12] Rozellida (27 species)[115] and Microsporidia (~1,300 species),[116] collectively known as Opisthosporidia, as opposed to the 'true' or osmotrophic fungi. Both aphelids and rozellids are single-celled phagotrophic flagellates that feed in an endobiotic manner, penetrating the cells of their respective hosts. Microsporidians are obligate intracellular parasites that feed through osmotrophy, much like true fungi. Aphelids and true fungi are closest relatives, and generally feed on cellulose-walled organisms (many algae and plants). Conversely, rozellids and microsporidians form a separate clade, and generally feed on chitin-walled organisms (fungi and animals).[117]

The Holozoa includes various lineages with complex life cycles involving different cell types and associated with the origin of animal multicellularity.

Tunicaraptor unikontum has an uncertain evolutionary position among these holozoan groups.[122]

Representative genera of opisthokont protists
Nuclearia (nucleariid)
Amoebidium (ichthyosporean)
Sphaeroeca (choanoflagellate)
Capsaspora (filasterean)
Syssomonas (pluriformean)

Orphan groups

Several smaller lineages do not belong to any of the three main supergroups, and instead have a deep-branching "kingdom-level" position in eukaryote evolution. They are usually poorly known groups with limited data and few species, often referred to as "orphan groups".

Mantamonadidae (three species)[123] with two cilia, are the sister clade of Amorphea.[38] The Ancyromonadida (35 species)[124] are aquatic gliding flagellates with two cilia, positioned near Amorphea and CRuMs.[38] The Hemimastigophora (ten species), or hemimastigotes, are predatory flagellates with a distinctive cell morphology and two rows of around a dozen flagella.[125] The Provora (eight species)[126] are predatory flagellates with an unremarkable morphology similar to that of excavates and other flagellates with two cilia. Both Hemimastigophora and Provora were thought to be related to or within Diaphoretickes,[3] although further analyses have placed them in a separate clade along with a mysterious species of predatory protists, Meteora sporadica. This species has a remarkable morphology: they lack flagella, are bilaterally symmetrical, project a pair of lateral "arms" that swing back and forth, and contain a system of motility unlike any other.[40]

There are also many

genera of uncertain affiliation among eukaryotes because their DNA has not been sequenced, and consequently their phylogenetic affinities are unknown.[2] One enigmatic heliozoan species is so large that it does not match the description of any known genus, and was consequently transferred to a separate genus Berkeleyaesol with an unclear position, although it probably belongs to Diaphoretickes along with all other heliozoa.[127] The organism Parakaryon is harder to place, as it shares traits from both prokaryotes and eukaryotes.[128]

Biology

In general, protists have typical

biological characteristics expected in eukaryotes.[37]

Nutrition

Protists display a wide variety of food preferences and feeding mechanisms.[2][131] According to the source of their nutrients, they can be divided into autotrophs (producers) and heterotrophs (consumers). Autotrophic protists synthesize their own organic compounds from inorganic substrates through the process of photosynthesis, using light as the source of energy;[132]: 217  accordingly, they are also known as phototrophs.[133]

Heterotrophic protists obtain organic molecules synthesized by other organisms, and can be further divided according to the size of their nutrients. Those that feed on soluble molecules

mitochondria and chloroplasts. In both osmotrophs and phagotrophs, endocytosis is often restricted to a specific region of the cell membrane, known as the cytostome, which may be followed by a cytopharynx, a specialized tract supported by microtubules.[131]

Osmotrophy

Osmotrophic protists acquire soluble nutrients through

saprotrophs or lysotrophs, perform external digestion by releasing enzymes into the environment and decomposing organic matter[2] into simpler molecules that can be absorbed. This external digestion has a distinct advantage: it allows greater control over the substances that are allowed to enter the cell, thus minimizing the intake of harmful substances or infection.[135]

Probably all eukaryotes are capable of osmotrophy, but some have no alternative of acquiring nutrients. Obligate osmotrophs and saprotrophs include some

Structure of the cytostome-cytopharynx complex in Trypanosoma cruzi. The food travels the pre-oral ridge from the flagellar pocket until it reaches the cytostome and enters the cell through the cytopharynx, where nutrients are presumably transported by myosin proteins until they are enclosed in vesicles. The cytopharynx is supported by specific sets of microtubules.[137]

Phagotrophy

The heliozoan Actinophrys sol phagocyting a Paramecium ciliate

Phagotrophic feeding consists of two phases: the concentration of food particles in the environment, and the phagocytosis, which encloses the food particle in a vacuole (the phagosome)[131] where digestion takes place. In ciliates and most phagotrophic flagellates, digestion occurs at the oral region or cytostome, which is covered by a single membrane from which vacuoles are formed; the phagosomes then may be shuttled to the interior of the cell along the cytopharynx.[138] In amoebae, phagocytosis takes place anywhere on the cell surface. The average food particle size is around one tenth the size of the protist cell.[139]

Phagotrophic protists can be further classified according to how they approach the nutrients. The filter feeders acquire small, suspended food particles or prokaryotic cells and accumulate them by filtration into the cytostome (e.g.,

hyphae either swallow the filaments entirely or penetrate the cell wall and ingest the cytoplasm (e.g., Viridiraptoridae).[2] Predators may have adaptations to hunt prey, such as 'toxicysts' that immobilize prey cells. Certain ciliates have developed a specialized kind of raptorial feeding called histophagy, where they attack damaged but live animals (e.g., annelids and small crustaceans), enter the wounds, and ingest animal tissue. Large raptorial amoebae enclose their prey in a "food cup" of pseudopodia, prior to the formation of the food vacuole.[139] Lastly, diffusion feeders (e.g., heliozoa, foraminifera and many other amoebae, suctorian ciliates) engulf prey that happen to collide with their pseudopods or, in the case of ciliates, tentacles that carry toxicysts or extrusomes to immobilize the prey.[139]

Consumers of prokaryotes are popularly called

Mixotrophy

Rapaza viridis is a species of obligate specialist mixotrophs: it survives through the predation of Tetraselmis algae and acquisition of their chloroplasts. It rejects any other prey cells. Even when well fed, it cannot survive without a light source, as it needs to photosynthesize with those chloroplasts.[142]

Most autotrophic protists are

Among exclusively heterotrophic protists, variation of nutritional modes is also observed. The

diplonemids, which inhabit deep waters where photosynthesis is absent, can flexibly switch between osmotrophy and bacterivory depending on the environmental conditions.[147]

Osmoregulation

Paramecium aurelia with contractile vacuoles

Many

freshwater protists need to osmoregulate (i.e., remove excess water volume to adjust the ion concentrations) because non-saline water enters in excess by osmosis from the environment[148] and by endocytosis when feeding.[138] Osmoregulation is done through active ion transporters of the cell membrane and through contractile vacuoles, specialized organelles that periodically excrete fluid high in potassium and sodium through a cycle of diastole and systole. The cycle stops when the cells are placed in a medium with different salinity, until the cell adapts.[130]

The contractile vacuoles are surrounded by the

spongiome, an array of cytoplasmic vesicles or tubes that slowly collect fluid from the cytoplasm into the vacuole. The vacuoles then contract and discharge the fluid outside of the cell through a pore. The contractile mechanism varies depending on the protist: in ciliates, the spongiome is composed of irregular tubules and actin filaments wind around the pore and over the vacuole surface, together with microtubules; in most flagellates and amoebae, the spongiome is composed of both vesicles and tubules; in dinoflagellates, a flagellar rootlet branches to form a contractile sheath around the vacuole (known as pusule).[138] The location and amount also varies: unicellular flagellated algae (cryptomonads, euglenids, prasinophytes, golden algae, haptophytes, etc.) typically have a single contractile vacuole in a fixed position; naked amoebae have numerous small vesicles that fuse into one vacuole and then split again after excretion. Marine or parasitic protists (e.g., metamonads), as well as those with rigid cell walls, lack these vacuoles.[148]

Respiration

The

trypanosomatid protists, the fermentative glycosome evolved from the peroxisome.[130]

Sensory perception

Light micrograph of an ocelloid-containing dinoflagellate. n: nucleus, double arrowhead: ocelloid, scale bar: 10 μm.[149]

Many flagellates and probably all motile algae exhibit a positive

geotaxis), and others swim in relation to the concentration of dissolved oxygen in the water.[130]

Endosymbionts

Protists have an accentuated tendency to include

methanogenic role inside anaerobic ciliates.[130]

Life cycle and reproduction

colonial stages (blue), and formation of cysts. Each protist group has a different sexual cycle (light purple) as well as different means of exiting the colonial stage.[150]

Protists exhibit a large range of

strategies involving multiple stages of different morphologies which have allowed them to thrive in most environments. Nevertheless, most of the knowledge concerning protist life cycles concerns model organisms and important parasites. Free-living uncultivated protists represent the majority, but knowledge on their life cycles remains fragmentary.[150]

Asexual reproduction

Protists typically reproduce asexually under favorable environmental conditions,[151] allowing for rapid exponential population growth with minimal genetic diversification. This asexual reproduction, occurs through mitosis and has historically been regarded as the primary reproductive mode in protists.[150] This process is also known as vegetative reproduction, as it is only performed by the 'vegetative stage' or individual.[152]

Unicellular protists often multiply via

propagules composed of numerous cells (e.g., in red algae).[152]

Sexual reproduction

While asexual reproduction remains the most common strategy among protists,

amoebae are traditionally considered asexual organisms, most asexual amoebae likely arose recently and independently from sexually reproducing amoeboid ancestors.[160] Even in the early 20th century, some researchers interpreted phenomena related to chromidia (chromatin granules free in the cytoplasm) in amoebae as sexual reproduction.[161]

Basic sexual cycles

Every sexual cycle involves the events of syngamy and meiosis, which increase or decrease the

gametes, which generates a diploid (2n) cell called zygote. The diploid cell then undergoes meiosis to generate haploid cells. Depending on which cells compose the individual or vegetative stage (i.e., the stage that grows by mitosis), there are three distinguishable sexual cycles observed in free-living protists:[150]

Two ciliates join during conjugation to exchange their haploid nuclei via a cytoplasm bridge.
  • In the
    conjugation with another ciliate, and fuse the two nuclei into a new diploid nucleus.[65]
  • In the
    land plants.[138]: 26  There are three modes of this cycle depending on the relative growth and lifespan of one generation compared to the other: haploid-dominant, diploid-dominant, or equally dominant generations. Brown algae exhibit the full range of these modes.[162]

Free-living protists tend to reproduce sexually under stressful conditions, such as starvation or heat shock.

DNA damage, also appears to be an important factor in the induction of sex in protists.[151]

Sexual cycles in pathogenic protists

Pathogenic protists tend to have extremely complex life cycles that involve multiple forms of the organism, some of which reproduce sexually and others asexually.[163] The stages that feed and multiply inside the host are generally known as trophozoites (from Greek trophos 'nutrition' and zoia 'animals'), but the names of each stage vary depending on the protist group.[153] For example:

  • In apicomplexans, a haploid sporozoite is released into the host, penetrates a host cell, begins the infection and transforms into a meront that grows and asexually divides into numerous merozoites (a schizogony called merogony); each merozoite continues the infection by multiplying. Eventually, the merozoites differentiate (gamogony) into female (macrogametocytes) and male (microgametocytes) that generate gametes, which in turn fuse (sporogony) into a diploid zygote that grows into a sporocyst. The sporocyst then undergoes meiosis to form sporozoites that transmit the infection.[68][155]
  • In phytomyxeans, the diploid primary zoospores enter the host, encyst, and penetrate cells as a uninucleate protoplast or plasmodium. Inside the cells, the protoplast grows into a multinucleate zoosporangium, which then divides into secondary zoospores that infect more cells. These multiply into thick-walled resting spores that begin meiosis and divide into binucleate resting spores; one nucleus is lost, and the spores hatch as primary zoospores.[164]

Some protist pathogens undergo asexual reproduction in a wide variety of organisms – which act as secondary or intermediate hosts – but can undergo sexual reproduction only in the primary or definitive host (e.g.,

domestic cats).[165] Others, such as Leishmania, are capable of performing syngamy in the secondary vector.[166] In apicomplexans, sexual reproduction is obligatory for parasite transmission.[167]

Despite undergoing sexual reproduction, it is unclear how frequently there is genetic exchange between different strains of pathogenic protists, as most populations may be clonal lines that rarely exchange genes with other members of their species.[168]

Ecology

Protists are indispensable to modern

symbioses.[37]

Habitat diversity

Protists are abundant and diverse in nearly all habitats. They contribute 4 gigatons (Gt) to Earth's biomass—double that of animals (2 Gt), but less than 1% of the total. Combined, protists, animals, archaea (7 Gt), and fungi (12 Gt) make up less than 10% of global biomass, with plants (450 Gt) and bacteria (70 Gt) dominating.

prokaryotes as well as protists.[171]

Primary producers

Microscopic phototrophic protists (or

arctic oceans and along continental margins.[173] In freshwater habitats, most phototrophic protists are mixotrophic, meaning they also behave as consumers, while strict consumers (heterotrophs) are less abundant.[171]

benthic ones, as both food and refuge from predators. Some communities of seaweeds exist adrift on the ocean surface, serving as a refuge and means of dispersal for associated organisms.[175][176]

Phototrophic protists are as abundant in soils as their aquatic counterparts. Given the importance of aquatic algae, soil algae may provide a larger contribution to the global

archaeplastids (green algae). There is also presence of environmental DNA from dinoflagellates and haptophytes in soil, but no living forms have been seen.[177]

Consumers

Phagotrophic protists are the most diverse functional group in all ecosystems, primarily represented by cercozoans (dominant in freshwater and soils), radiolarians (dominant in oceans), non-photosynthetic stramenopiles (with higher abundance in soils than in oceans), and ciliates.[171]

Contrary to the common division between phytoplankton and zooplankton, much of the marine plankton is composed of

mixotrophic protists, which pose a largely underestimated importance and abundance (around 12% of all marine environmental DNA sequences). Mixotrophs have varied presence due to seasonal abundance[178] and depending on their specific type of mixotrophy. Constitutive mixotrophs are present in almost the entire range of oceanic conditions, from eutrophic shallow habitats to oligotrophic subtropical waters but mostly dominating the photic zone, and they account for most of the predation of bacteria. They are also responsible for harmful algal blooms. Plastidic and generalist non-constitutive mixotrophs have similar biogeographies and low abundance, mostly found in eutrophic coastal waters, with generalist ciliates dominating up to half of ciliate communities in the photic zone. Lastly, endosymbiotic mixotrophs are by far the most widespread and abundant non-constitutive type, representing over 90% of all mixotroph sequences (mostly radiolarians).[146][145]

Diagram of the soil food web, taking into account the diverse roles of protists as not just bacterivores, but also mycophages and omnivores.[140] Arrows show the flow of nutrients.

In the

vampyrellids, cercomonads, gymnamoebae, testate amoebae, small flagellates) are omnivores that feed on a wide range of soil eukaryotes, including fungi and even some animals such as nematodes. Bacterivorous and mycophagous protists amount to similar biomasses.[140]

Decomposers

nucleariid amoebae specifically consume the contents of dead or damaged cells, but not healthy cells. However, all these examples are only facultative necrophages that also feed on live prey. In contrast, the algivorous cercozoan family Viridiraptoridae, present in shallow bog waters, are broad-range but sophisticated necrophages that feed on a variety of exclusively dead algae, potentially fulfilling an important role in cleaning up the environment and releasing nutrients for live microbes.[180]

Parasites and pathogens

Neotropical forest soils, apicomplexans dominate eukaryotic diversity and have an important role as parasites of small invertebrates, while oomycetes are very scarce in contrast.[181]

Some protists are significant parasites of animals (e.g.; five species of the parasitic genus

late blight in potatoes)[184] or even of other protists.[185][186] Around 100 protist species can infect humans.[177]

Biogeochemical cycles

Marine protists have a fundamental impact on

fix as much carbon as all terrestrial plants combined.[171] Soil protists, particularly testate amoebae, contribute to the silica cycle as much as forest trees through the biomineralization of their shells.[177]

History of protist classification

Early classifications

Goldfuss' system of life, introducing the Protozoa within animals.

From the start of the 18th century, the popular term "infusion animals" (later

Carl von Linnaeus largely ignored the protists,[f] his Danish contemporary Otto Friedrich Müller was the first to introduce protists to the binomial nomenclature system.[188][189]

In the early 19th century, German naturalist

sponges within protozoa.[28]

John Hogg's illustration of the Four Kingdoms of Nature, showing "Regnum Primigenum" (Protoctista) as a greenish haze at the base of the Animals and Plants, 1860

In 1860, British

Linnaeus' plant, animal and mineral) which comprised all the lower, primitive organisms, including protophyta, protozoa and sponges, at the merging bases of the plant and animal kingdoms.[192][28]

Haeckel's 1866 tree of life, with the third kingdom Protista.

In 1866, the 'father of protistology', German scientist

blastula stage of animal development. He also returned the terms Protozoa and Protophyta as subkingdoms of Protista.[28]

End of the animal-plant dichotomy

Bütschli considered the kingdom to be too

C. Clifford Dobell in 1911 brought attention to the fact that protists functioned very differently compared to the animal and vegetable cellular organization, and gave importance to Protista as a group with a different organization that he called "acellularity", shifting away from the dogma of German cell theory. He coined the term protistology and solidified it as a branch of study independent from zoology and botany.[28]

In 1938, American biologist

Plantae and Protista as the four kingdoms of life.[198]

In the popular five-kingdom scheme published by American plant ecologist Robert Whittaker in 1969, Protista was defined as eukaryotic "organisms which are unicellular or unicellular-colonial and which form no tissues". Just as the prokaryotic/eukaryotic division was becoming mainstream, Whittaker, after a decade from Copeland's system,[198] recognized the fundamental division of life between the prokaryotic Monera and the eukaryotic kingdoms: Animalia (ingestion), Plantae (photosynthesis), Fungi (absorption) and the remaining Protista.[199][200][28]

In the five-kingdom system of American evolutionary biologist

microscopic organisms, while the more inclusive kingdom Protoctista (or protoctists) included certain large multicellular eukaryotes, such as kelp, red algae, and slime molds.[201] Some use the term protist interchangeably with Margulis' protoctist, to encompass both single-celled and multicellular eukaryotes, including those that form specialized tissues but do not fit into any of the other traditional kingdoms.[202]

Advances in electron microscopy and molecular phylogenetics

Phylogenomic tree of eukaryotes, as regarded in 2020. Supergroups are in color.

The five-kingdom model remained the accepted classification until the development of

Eukarya) became prevalent.[203] Today, protists are not treated as a formal taxon, but the term is commonly used for convenience in two ways:[13]

There is, however, one classification of protists based on traditional ranks that lasted until the 21st century. The British protozoologist

fungal groups Microsporidia, Rozellida and Aphelida are considered protozoans under the phylum Opisthosporidia. This scheme endured until 2021, the year of his last publication.[9]

Fossil record

The protist fossil record is mainly represented by protists with fossilizable coverings, such as foraminifera, radiolaria, testate amoebae and diatoms, as well as multicellular algae.

fungi, all eukaryotes were protists. As a result, the early fossil record of protists is equivalent to the early record of eukaryotic life.[167]

Palæoproterozoic
Mesoproterozoic
Neoproterozoic
Palæozoic
Mesozoic
Cenozoic

Paleo- and Mesoproterozoic

Modern or

stem-group eukaryotes, extinct lineages preceding LECA. These lineages displayed early eukaryotic traits like flexible cell membranes and complex cell wall ornamentations, which require a flexible endomembrane system, but they lacked crown-group eukaryotes' advanced sterols (e.g., cholesterol), and instead produced simpler protosterols that require less oxygen during biosynthesis.[211] Examples of these are: Trachyhystrichosphaera and Leiosphaeridia dated at 1100 Ma,[212] Satka dated at 1300 Ma,[213] Tappania and Shuiyousphaeridium dated at 1600 Ma,[214] Grypania dated at 1800–1900 Ma, and Valeria which ranges from 1650 to 700 Ma.[215]

Crown-group eukaryotes achieved significant

anaerobes.[211] The oldest definitive crown-group eukaryotic fossils include Rafatazmia and Ramathallus, both putative red algae, dated at 1600 Ma.[1]

Neoproterozoic

As oxygen levels rose during the

Abundant fossils of

chitinozoans, tintinnids), but current scientific consensus relates most VSMs to marine testate amoebae.[220] As such, VSMs comprise the oldest known fossils of both filose (Cercozoa) and lobose (Amoebozoa) testate amoebae.[221][222]

After the Gaskiers glaciation of the Late Ediacaran (~579 Ma), fossils of heterotrophic protists undergo diversification. Some fossils similar to VSMs are interpreted as the oldest fossils of Foraminifera dated at 548 Ma (e.g., Protolagena),[220] but their foraminiferal affinity is doubtful. Other microfossils that are possibly foraminifera include some poorly preserved tubular shells from 716–635 Ma rocks.[223]

Paleozoic

Radiolarian shells appear abundantly in the fossil record since the Cambrian, with the first definitive radiolarian fossils found at the very start of this period (~540 Ma) together with the first small shelly fauna.[224] Radiolarian records from older Precambrian rocks have been disregarded due to the lack of reliable fossils.[225][226][227] Around this time, between 540 and 510 Ma, the oldest Foraminifera shells appear, first multi-chambered and later tubular.[228][210][223]

Following the

benthic and nekto-benthic communities, with most marine organisms (animals, foraminifers, radiolarians) limited to the depths of shallow water environments.[229] Mirroring the animal radiation, there was a radiation of phytoplanktonic protists (i.e., acritarchs)[230] around 520–510 Ma, followed by a decrease in diversity around 500 Ma.[231] Later, the surviving acritarchs expanded in diversity and morphological innovation[230] due to a decrease in predation from benthic animals (particularly trilobites and brachiopods), which suffered extinction due to various proposed environmental factors such as anoxia.[232] Both phytoplankton and zooplankton (e.g., radiolarians) flourished, as signaled by an increase of organic carbon buried in the sediment known as the SPICE event (~497 Ma).[229][232] This abundant biomass supported a second animal radiation known as the Great Ordovician Biodiversification Event (GOBE), where many animals switched to a planktonic lifestyle and pelagic predators first appeared (e.g., cephalopods, swimming arthropods). This event is also known as the 'Ordovician Plankton Revolution' due to the significant diversification of planktonic protists, and it spanned from the late Cambrian well into the Ordovician.[229]

The Ordovician also includes the oldest

silicoflagellates (397–382 Ma), which did not leave fossil traces until later in the Mesozoic. After the Late Devonian extinction (372 Ma), nassellarian-like radiolarians appeared for the first time, with a unique body plan among marine protists.[210]

During the Carboniferous, no new fossilizable protists originated despite the major environmental changes. Around the Capitanian mass extinction event (262–259 Ma), coccolithophores genetically diverged from the rest of haptophytes, possibly as a response to a reduction in atmospheric oxygen, and there was a faunal turnover from larger to smaller fusulinids.[210]

See also

Footnotes

  1. ^
    mycologists alike.[2][11][12]
  2. ^ A 2007 report on protist diversity included a table listing the described number of species for protist and fungal groups. The total sum of the listed species, excluding fungi, is 76,144.[36]
  3. ^
    Acrasida and Schizopyrenida. The name Percolozoa encompasses these and other related single-celled protists, not just the 'true' heteroloboseans.[9]
  4. ^ The terms "mixotroph" and "mixoplankton" almost exclusively refer to protists that perform photosynthesis and phagocytosis (photo-phagotrophs). Osmotrophy is always present, but not taken into account. As such, "pure" phototrophs (incapable of phagocytosis) and "pure" phagotrophs (incapable of photosynthesis) are technically mixotrophic due to their innate ability for osmotrophy, but are not usually reported in this sense.[144]
  5. Carl von Linnaeus did not mention a single protist genus until the tenth edition of Systema Naturae of 1758, where Volvox was recorded.[188]
  6. ^ In 2015, Cavalier-Smith's initial six-kingdom model was revised into a seven-kingdom model after the inclusion of Archaea.[209]

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Bibliography

General

  • Hausmann, K., N. Hulsmann, R. Radek. Protistology. Schweizerbart'sche Verlagsbuchshandlung, Stuttgart, 2003.
  • Margulis, L., J.O. Corliss, M. Melkonian, D.J. Chapman. Handbook of Protoctista. Jones and Bartlett Publishers, Boston, 1990.
  • Margulis, L., K.V. Schwartz. Five Kingdoms: An Illustrated Guide to the Phyla of Life on Earth, 3rd ed. New York: W.H. Freeman, 1998.
  • Margulis, L., L. Olendzenski, H.I. McKhann. Illustrated Glossary of the Protoctista, 1993.
  • Margulis, L., M.J. Chapman. Kingdoms and Domains: An Illustrated Guide to the Phyla of Life on Earth. Amsterdam: Academic Press/Elsevier, 2009.
  • Schaechter, M. Eukaryotic microbes. Amsterdam, Academic Press, 2012.

Physiology, ecology and paleontology