Do Prokaryotes Have Mitochondria?

Cross-sections of a bacterium and mitochondrion showing ATP synthase in the plasma and inner mitochondrial membranes.

No. Prokaryotes do not have mitochondria. Neither bacteria nor archaea possess a mitochondrion, a nucleus, or any of the other canonical organelles that define eukaryotic cell architecture.

Prokaryotic cells nonetheless generate ATP. Respiring prokaryotes use chemiosmosis at a membrane the cell already possesses rather than at a dedicated organelle, whereas fermenters rely on substrate-level phosphorylation.

In most respiring bacteria that membrane is the plasma membrane. In most cyanobacteria and several other groups it is an internal membrane system.

The absence is not a deficiency. The mitochondrion is itself descended from a bacterium that became an endosymbiont within an archaeal host cell, which means the machinery of mitochondrial ATP synthesis originated in the prokaryotic world and was carried into eukaryotes rather than invented there.

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Summary of key facts

QuestionAnswer
Do prokaryotes have mitochondria?No. No bacterial or archaeal lineage has been found with one.
What performs the equivalent function?The plasma membrane in most respiring species, or an internal membrane system in cyanobacteria and some others.
Where does glycolysis occur?In the cytoplasm of prokaryotic cells.
Where does oxidative phosphorylation occur?At a membrane, never free in the cytoplasm.
Do prokaryotes have any organelles?Not the canonical eukaryotic set, but magnetosomes, anammoxosomes and thylakoids are genuine membrane-bounded compartments.
Where did mitochondria come from?An alphaproteobacterial endosymbiont acquired by an archaeal host related to the Asgard archaea.
Are there eukaryotes without mitochondria?Yes. Oxymonads such as Monocercomonoides exilis lost the organelle entirely.

What prokaryotes are

Infographic showing how prokaryotes produce ATP at the plasma membrane instead of in mitochondria, the archaeal origin of mitochondria, four prokaryotic compartments, and the mesosome fixation artifact.
Infographic showing how prokaryotes produce ATP at the plasma membrane instead of in mitochondria, the archaeal origin of mitochondria, four prokaryotic compartments, and the mesosome fixation artifact.

How prokaryotes generate ATP without mitochondria

Three modes of energy conservation

  • Aerobic respiration: Oxygen serves as the terminal electron acceptor. This mode generally supports the highest yields, although the figure depends on the electron donor, the acceptor and the architecture of the respiratory chain.
  • Anaerobic respiration: A compound other than oxygen accepts the electrons. Nitrate, sulfate, fumarate and carbon dioxide are all used, according to the organism and its environment.
  • Fermentation: No electron transport chain is involved. An organic molecule accepts the electrons, and the cell subsists on the modest yield of substrate-level phosphorylation.

The claim that mammalian cells are incapable of anaerobic respiration overstates the contrast. Under oxygen limitation, mammalian mitochondria can reverse the succinate dehydrogenase complex and deposit electrons onto fumarate, which then functions as an alternative terminal electron acceptor and sustains other mitochondrial activities.[7] 

The accurate distinction is one of range. Mammals have a narrow known repertoire of respiratory electron acceptors; prokaryotes collectively use a wide one. The aerobic case is set out in full on the BioExplorer page covering the cellular respiration equation.

Nutritional classification of prokaryotes

Prokaryotic metabolic types are described by three independent variables. The compound terms used in the literature are these three answers combined.

VariableFirst optionSecond option
Energy sourcePhototroph: lightChemotroph: chemical bonds
Electron sourceLithotroph: inorganic donors such as H2S or Fe2+Organotroph: organic donors
Carbon sourceAutotroph: CO2Heterotroph: organic compounds

Many cyanobacteria grow as photolithoautotrophs. Humans and Escherichia coli growing on sugar are both chemoorganoheterotrophs.

Sources of prokaryotic metabolic diversity

Prokaryotic metabolic versatility is sometimes attributed to the absence of organelles. That explanation does not hold. The diversity reflects the antiquity and breadth of prokaryotic lineages, extensive horizontal gene transfer, and the chemically extreme habitats many species occupy, where an unusual electron donor or acceptor may be the only one available.

Morphological and physiological variation across bacterial cell types reflects the same underlying diversity.

Why prokaryotes lack mitochondria

The evolutionary origin of mitochondria

Endosymbiotic theory

Endosymbiotic theory holds that mitochondria and plastids originated as free-living bacteria that were internalized by another cell and retained. The classical formulation states that the energy-converting organelles of eukaryotes “evolved from procaryotes that were engulfed by primitive eucaryotic cells and developed a symbiotic relationship with them”.[10] The characterization of the host as a eukaryotic cell is the element most affected by subsequent work.

Attribution requires care. Lynn Margulis, publishing under the name Lynn Sagan, presented the modern case in 1967 and defended it for decades against considerable resistance. She was not its originator. Constantin Mereschkowsky advanced a comparable proposal for chloroplasts in 1905, and Ivan Wallin argued for a bacterial origin of mitochondria during the 1920s. Margulis assembled the supporting evidence and sustained the hypothesis through a long period of rejection, which is a distinct contribution from originating it.

The bacterial ancestor

The mitochondrial endosymbiont derived from an alphaproteobacterial lineage. Comparative analysis of the mitochondrial proteome identified a core of proteins “descended from the ancestral alpha-proteobacteria symbiont”, while also establishing that the modern organelle is a mosaic whose proteins derive from several distinct sources.[11]

The precise relationship of the mitochondrial ancestor to extant alphaproteobacterial lineages is unresolved. Some analyses place it within the group and others recover it as a sister lineage to the sampled or core Alphaproteobacteria.

Phylogenetic approaches have produced inconsistent results depending on the method, the taxonomic sampling and the corrections applied for artifacts, and the identity of the closest living relatives is treated as an open question in the current literature.[12]

The archaeal host

The host cell was an archaeon. Phylogenomic analysis of an expanded sampling of Asgard archaeal genomes placed eukaryotes with high confidence as a well-nested clade within the Asgard archaea, as a sister lineage to the Hodarchaeales, a proposed order within the Heimdallarchaeia.[13]

Fluorescence microscopy of elongated Asgard archaeal cells from marine sediment showing ribosomal signal and a single confined DNA focusHodarchaeales-related Asgard archaeal cells from Aarhus Bay sediment, imaged by CARD-FISH and super-resolution confocal microscopy. The first two columns show ribosomal RNA probe signal, the third shows DNA stained with DAPI, and the fourth is the overlay. Note the elongated cell shape and the single compact DNA focus. Image by Avcı et al., mBio, 2025, cropped from Figure 2. Licensed under CC BY 4.0.

The degree of cellular complexity the host had already achieved is the subject of active work. A relaxed molecular-clock analysis dated duplication events in gene families associated with eukaryotic cellular systems and inferred that substantial cytoskeletal, membrane-trafficking, endomembrane and nuclear or protonuclear complexity predated mitochondrial endosymbiosis. The timing of phagocytosis specifically is less certain: dates associated with the endolysosomal system overlap the earliest mitochondrial dates, and the authors state that they cannot discriminate which came first.

These duplication ages constitute maximum-age constraints on paralogue-specific functions rather than direct dates for the cellular structures themselves, and no known extant lineage represents the intermediate stages.[14]

Direct observation of Asgard archaea is consistent with a structurally complex host. Imaging of Asgard cells recovered from marine sediment identified cells up to approximately 5 micrometers in length with irregular morphology and confined central DNA, which the authors suggest could represent a transitional stage toward eukaryotic complexity.[15]

The order of events remains unresolved

Models span mitochondrion-early, mitochondrion-intermediate and mitochondrion-late scenarios, and the intermediate class is a substantive position rather than a midpoint between the other two.

At the two ends of this range, mitochondrion-late models hold that an already complexified archaeal host acquired the endosymbiont, while mitochondrion-early models hold that the endosymbiont preceded and financed the development of eukaryotic complexity.

The principal argument for the early position is energetic: a prokaryotic host lacking mitochondria and attempting to subsist by ingesting other prokaryotes would face a severe ATP deficit, on one estimate requiring the ingestion of approximately 34 times its body weight in prokaryotic prey per division, from which it follows that phagocytosis becomes physiologically viable only in a cell that already possesses mitochondria.[16]

The position supported by current evidence is limited but secure at its core. The host belonged to an archaeal lineage related to the Asgard archaea. Its precise degree of eukaryotic complexity, and the mechanism by which the endosymbiont was internalized, remain disputed. Describing the host as a proto-eukaryotic archaeal cell is defensible; describing it as a modern-style eukaryotic cell is not.

Two-domain and three-domain trees

Placing eukaryotes within the Asgard archaea implies a two-domain tree of life, which stands in tension with the three-domain framework in which Eukarya forms an independent branch. The element of Woese’s work that remains secure is the separation of Archaea from Bacteria. What has changed is the attachment point of Eukarya.

Improved evolutionary models and denser archaeal sampling now provide strong support for eukaryotes branching from within Archaea. Dissenting analysis published in 2018 raised objections concerning contamination in Asgard genome assemblies, the presence of conflicting phylogenetic signals within the same concatenated marker sets, and topologies that shift according to which fast-evolving taxa are included.[17] 

Subsequent evidence has strengthened the two-domain position, and those objections are best understood as an earlier stage of the debate rather than a currently equivalent alternative.

Evidence that mitochondria descend from bacteria

An independent genome

Mitochondria retain their own genome. The human mitochondrial genome is a circular DNA molecule of 16,569 nucleotides, present in multiple copies per cell.[18]

Circularity should not be generalized. Investigation of plant mitochondrial DNA using fluorescence microscopy and pulsed-field gel electrophoresis found genome-sized circles to be exceedingly rare, with branched linear structures the most frequently observed physical form.[19] Mitochondrial genomes across eukaryotes may be circular, linear, branched or divided among multiple chromosomes.

Non-Mendelian inheritance

In humans and most other animals, mitochondria and mitochondrial DNA are inherited from the mother, which is the basis for using mitochondrial DNA to trace maternal lineages.[20] Other eukaryotic groups show biparental and paternal transmission. The animal pattern can be explored using the Mitochondrial Inheritance Calculator.

An independent translation system

Mitochondria maintain their own ribosomes. Human mitochondria retain mitoribosomes that synthesize the 13 proteins encoded by human mitochondrial DNA. These mitoribosomes have nevertheless diverged substantially from their bacterial origin, incorporating 36 mitochondria-specific proteins and losing several bacterial ribosomal elements.[21] 

Descent from bacteria is well established; structural identity with bacterial ribosomes is not.

The figure of 13 protein-coding genes applies to humans and most other animals rather than to mitochondria generally. The set of genes retained in mitochondrial DNA, together with its organization and physical structure, varies markedly across eukaryotes.[22]

Bacterial machinery in the outer membrane

The mitochondrial inner membrane derives from the plasma membrane of the bacterial endosymbiont, which is why chemiosmosis occurs there. The outer membrane is not simply a residual host vesicle.

It contains beta-barrel proteins inserted by a dedicated sorting and assembly machinery whose core subunit, Sam50, belongs to the Omp85 superfamily and is homologous to the bacterial BamA subunit of the beta-barrel assembly machinery. The endosymbiotic origin of mitochondria is the accepted explanation for that conservation.[23]

The mitochondrial proteome is a mosaic

The small number of mitochondrially encoded proteins is sometimes read as a measure of how much of the endosymbiont genome relocated to the nucleus. That inference is unsound.

A proportion of ancestral bacterial genes was transferred, a substantial proportion was lost outright, and a large share of the modern mitochondrial proteome originated elsewhere: in the host lineage, in other bacteria, or as later eukaryotic innovations.

The mesosome: a discredited bacterial organelle

The generalization that prokaryotes possess no membrane-bounded organelles is a serviceable approximation at introductory level and inaccurate beyond it. Several well-characterized exceptions exist. None is a mitochondrion, and none is evolutionarily related to one.

Magnetosomes

Magnetotactic bacteria assemble chains of magnetite crystals that align the cell along geomagnetic field lines. Each crystal is enclosed within a membrane vesicle formed by invagination of the cytoplasmic membrane.

Cryo-electron tomogram of a magnetosome in Magnetospirillum gryphiswaldense showing a magnetite crystal inside a 45 nanometre membrane vesicle
A magnetosome in Magnetospirillum gryphiswaldense, imaged by cryo-electron tomography. The dark magnetite crystal sits inside a membrane vesicle roughly 45 nm across, formed by invagination of the cytoplasmic membrane. Image by Raschdorf et al., PLOS Genetics, 2016, cropped from Figure 1. Licensed under CC BY 4.0.

Magnetosomes are described in the literature as unique organelles and as among the most complex structures found in prokaryotic cells.[25] They constitute genuine lipids-bilayer-bounded organelles within a bacterium.

The anammoxosome

Anaerobic ammonium-oxidizing bacteria contain a large intracytoplasmic compartment, the anammoxosome, occupying most of the cell volume. It has been characterized as a prokaryotic organelle analogous to the eukaryotic mitochondrion, with the anammox reaction coupled across its curved membrane, possibly generating a proton motive force and supporting ATP synthesis.[26] 

Its membrane contains ladderane lipids, which occur nowhere else in nature. The relationship to mitochondria is one of analogy rather than homology.

Thylakoids in cyanobacteria

Most cyanobacteria maintain an internal thylakoid membrane system, distinct from the plasma membrane and carrying a different protein complement. In these species the thylakoid membrane is the sole site of photosynthetic electron transport and the major site of respiration, while the plasma membrane carries transporters, sensors and components of the motility apparatus.[27]

Transmission electron micrograph of Synechocystis cyanobacteria showing concentric internal thylakoid membranes
Wild-type Synechocystis sp. PCC 6803 in cross section. The concentric sheets running around the inside of each cell are thylakoid membranes, an internal membrane system distinct from the plasma membrane. scales bars 0.5 micrometres. Image by Bryan et al., PLOS ONE, 2011, cropped from Figure 6. Licensed under CC BY 4.0.

The arrangement is not universal. Members of the early-branching Gloeobacterales lack thylakoid membranes and conduct photosynthesis at the cytoplasmic membrane, a feature relevant to reconstructing the origins of oxygenic photosynthesis.[28]

A thylakoid is not a mitochondrion. The reason is not the absence of a dedicated genome, since many accepted organelles including lysosomes lack genomes. It is that the thylakoid differs from the mitochondrion in structure, in function and in evolutionary history.

Carboxysomes and other protein-bounded microcompartments

Carboxysomes enclose ribulose-bisphosphate carboxylase and carbonic anhydrase within a polyhedral shell, elevating local CO2 concentration and suppressing competing photorespiration. The shell is constructed entirely from protein. As one recent review states, “in contrast to the membrane-bound organelles of eukaryotes, prokaryotes utilize protein-based complexes to compartmentalize these reactions”.[29] 

Prokaryotic compartmentalization is therefore real, but it does not always employ lipid membranes.

Eukaryotes that lack mitochondria

Hydrogenosomes and mitosomes

Numerous anaerobic eukaryotes carry reduced derivatives of the mitochondrion, known collectively as mitochondrion-related organelles. Hydrogenosomes generate ATP and release molecular hydrogen. Mitosomes do not generate ATP, and their retained functions vary between lineages, with iron-sulfur cluster assembly the most widespread.

As of a comprehensive 2012 review, no exception to the general rule was known: “All known eukaryotic groups possess an organelle of mitochondrial origin, mapping the origin of mitochondria to the eukaryotic common ancestor.”[30]

Variation between mitosomes is considerable. The mitosome of Entamoeba histolytica lacks the majority of recognized mitochondrial components and instead retains enzymes for sulfate activation, alongside lineage-specific proteins that make it markedly divergent from the mitosomes of other anaerobic protozoa.[31]

The amitochondriate oxymonads

The 2012 generalization no longer holds without exception. Monocercomonoides exilis, an oxymonad flagellate of the animal gut, was described as the first eukaryote arguably without any mitochondrion.

Subsequent genomic analysis confirmed complete mitochondrial loss in three oxymonad species, M. exilisBlattamonas nauphoetae and Streblomastix strix, and concluded that the amitochondriate condition is likely common to the Oxymonadida as a whole, dating to a diversification approximately 100 million years ago.[32]

These organisms represent secondary loss rather than primitive absence. Their ancestors possessed mitochondria and dispensed with them after acquiring a replacement pathway for iron-sulfur cluster biosynthesis.

All current evidence on mitochondria and mitochondrion-related organelles remains consistent with a single ancestral acquisition.

Prokaryotic cell and mitochondrion compared

The following comparison describes typical cases. Most rows admit documented exceptions, noted beneath the table.

FeatureProkaryotic cellMitochondrion
Electron transportPlasma membrane in most respiring species; internal membranes in cyanobacteria and some others; absent in fermentersInner membrane
ATP synthaseTypically F-type in bacteria, typically A-type or V-type in archaea, with exceptions in both directions; proton or sodium couplingF-type, closely related to the bacterial enzyme
Soluble metabolismGlycolysis, pyruvate oxidation and most of the citric acid cycle in the cytoplasmCitric acid cycle in the matrix; glycolysis remains in the host cytosol
GenomeUsually a single circular chromosome in a nucleoid; linear and multiple chromosomes also occurOwn genome; 16,569 bp in humans, with structure and gene content varying widely across eukaryotes
RibosomesOwn. Bacterial and archaeal ribosomes are distinct, and archaea share a set of ribosomal proteins with eukaryotes that bacteria lackOwn mitoribosomes, of bacterial descent but substantially modified
MembranesA single plasma membrane in monoderms; an inner and an outer membrane in diderms such as gram-negative bacteriaTwo, outer and inner
PropagationUsually binary fission; budding and other modes also occurPropagates through growth and fission; many mitochondria also undergo fusion; dynamics are host-controlled
Independent existenceCommon, though obligate symbionts and intracellular parasites cannot survive independentlyNo. Most of its proteins are encoded in the host nucleus
📝 Notes on the comparison

Gram-negative bacteria are diderms. Their envelope comprises a plasma membrane, a thin peptidoglycan layer and an outer membrane, with the periplasm occupying the intervening space, an architecture that distinguishes them from gram-positive cells and their thicker single-barrier walls.[33]

Binary fission is prevalent but not universal. Within the Planctomycetota, members of the class Planctomycetia reproduce by asymmetric budding while other classes divide by binary fission, and at least one described species initiates division by lateral budding along the side of the cell rather than at a pole.[34]

On ribosomes, a defined set of ribosomal proteins is present only in archaeal and eukaryotic ribosomes, contributing to the stabilization of ribosomal structure and to the interaction between subunits.[35] This is among the clearer structural indications of shared ancestry between the two groups.

❌ Common misconceptions

  1. That prokaryotes produce energy in the cytoplasm. Soluble metabolism is cytosolic. Electron transport and oxidative phosphorylation take place at a membrane.
  2. That prokaryote is a synonym for bacterium. The term covers Bacteria and Archaea, which differ in membrane chemistry, ATP synthase type and information-processing machinery.
  3. That a modern eukaryotic cell engulfed a bacterium. The host was an archaeon related to the Asgard archaea. Its complexity at the time, and the mechanism of internalization, remain disputed.
  4. That mesosomes are bacterial mitochondria. Mesosomes are an artifact of chemical fixation and are absent from living cells.
  5. That prokaryotes have no internal compartments. Magnetosomes, anammoxosomes, thylakoids and carboxysomes are all documented compartments.
  6. That all mitochondrial DNA is circular and encodes 13 proteins. Both claims describe human and typical animal mitochondria, not eukaryotes generally.

FAQs

Do prokaryotic cells have mitochondria?

No. No prokaryote, bacterial or archaeal, possesses a mitochondrion. Respiring species conduct electron transport at a membrane, most often the plasma membrane, using an ATP synthase closely related to the mitochondrial enzyme.

Do bacteria have mitochondria?

No. The relationship runs in the opposite direction: mitochondria are descended from bacteria. A bacterium has no mitochondrion because the mitochondrion is a derived, domesticated bacterium.

How do prokaryotes produce ATP without mitochondria?

Pathways such as glycolysis can supply ATP by substrate-level phosphorylation. In respiring species, most ATP is generally generated by chemiosmosis at a membrane, where an electron transport chain establishes an ion gradient that ATP synthase converts into ATP. Terminal electron acceptors include oxygen in aerobic respiration and nitrate, sulfate, fumarate or carbon dioxide in anaerobic respiration. Fermenting species dispense with the electron transport chain entirely.

Why don’t prokaryotes need mitochondria?

Chemiosmosis requires membrane area, and small cells have a high ratio of surface area to volume. The stronger claim, that mitochondria removed an energetic ceiling and thereby enabled cellular complexity, is a leading hypothesis rather than a settled conclusion, and quantitative analyses have found no clean energetic discontinuity between prokaryotes and eukaryotes.

Do prokaryotes have any organelles?

Not the canonical eukaryotic set. The blanket statement that prokaryotes have no organelles is nonetheless too strong. Magnetotactic bacteria build membrane-bounded magnetosomes, anammox bacteria contain the anammoxosome, most cyanobacteria maintain thylakoid membranes, and many bacteria assemble protein-bounded microcompartments such as the carboxysome.

Do prokaryotes have chloroplasts?

No. Cyanobacteria perform oxygenic photosynthesis using thylakoid membranes rather than a chloroplast, and the Gloeobacterales lack even those. The situation parallels mitochondrial evolution: primary plastids ultimately descend from cyanobacteria, whereas mitochondria descend from an alphaproteobacterial relative.

Are there eukaryotes without mitochondria?

Yes, though very few. Oxymonads including Monocercomonoides exilis have lost the organelle completely. Many other anaerobic eukaryotes retain reduced derivatives in the form of hydrogenosomes or mitosomes. Every documented case represents loss from an ancestor that possessed mitochondria.

What distinguishes a mitochondrion from a bacterium today?

A mitochondrion cannot exist independently. Its genome encodes only 13 proteins in humans, and the remainder of its proteome is supplied by the host nucleus and drawn from several evolutionary sources. A free-living bacterium carries thousands of genes and reproduces autonomously.

Cite this page

BioExplorer. (2026, September 5). Do Prokaryotes Have Mitochondria?. https://www.bioexplorer.net/do-prokaryotes-have-mitochondria.html/

Key References

All sources are peer-reviewed journal articles or reference works hosted by the US National Institutes of Health or the National Human Genome Research Institute. Where a paper appeared in a subscription journal, the open-access or author-manuscript copy on PubMed Central is cited so that readers can reach the full text. All links verified September 4, 2026.

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This article was last reviewed and fact-checked on September 4, 2026. Related reading on BioExplorer: Mitochondria Functions, Do Bacteria Have a Nucleus?, Cytoplasm Functions, and Cellular Organization.

About the author

Anastasiia Nesterenko
10 yrs
research

Anastasiia Nesterenko

MSc Genetics & Cytology


Anastasiia Nesterenko holds an MSc in Genetics and Cytology and spent sixteen years as a research assistant at the Mechnikov Institute for Microbiology and Immunology. She has written for BioExplorer since 2016, from genetics and immunology to primates, insects, plants and flowers.

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