Hopanoids

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Some representative hopanoids: A. Diploptene, also called 22(29)-hopene B. Diplopterol, also called hopan-22-ol, the hydrated cyclomer of diploptene C. Bacteriohopanetetrol (BHT), a common extended hopanoid D. Hopane, the diagenetic product of A and B that results from reducing conditions during deposition and persists in the rock record. The diagenetic product of C would be an extended C35 hopane. Representative hopanoids.png
Some representative hopanoids: A. Diploptene, also called 22(29)-hopene B. Diplopterol, also called hopan-22-ol, the hydrated cyclomer of diploptene C. Bacteriohopanetetrol (BHT), a common extended hopanoid D. Hopane, the diagenetic product of A and B that results from reducing conditions during deposition and persists in the rock record. The diagenetic product of C would be an extended C35 hopane.

Hopanoids are a diverse subclass of triterpenoids with the same hydrocarbon skeleton as the compound hopane. This group of pentacyclic molecules therefore refers to simple hopenes, hopanols and hopanes, but also to extensively functionalized derivatives such as bacteriohopanepolyols (BHPs) and hopanoids covalently attached to lipid A. [1] [2]

Contents

The first known hopanoid, hydroxyhopanone, was isolated by two chemists at The National Gallery, London working on the chemistry of dammar gum, a natural resin used as a varnish for paintings. [3] While hopanoids are often assumed to be made only in bacteria, their name actually comes from the abundance of hopanoid compounds in the resin of plants from the genus Hopea . In turn, this genus is named after John Hope, the first Regius Keeper of the Royal Botanic Garden, Edinburgh.

Since their initial discovery in an angiosperm, hopanoids have been found in plasma membranes of bacteria, lichens, bryophytes, ferns, tropical trees and fungi. [4] Hopanoids have stable polycyclic structures that are well-preserved in petroleum reservoirs, rocks and sediment, allowing the diagenetic products of these molecules to be interpreted as biomarkers for the presence of specific microbes and potentially for chemical or physical conditions at the time of deposition. [5] Hopanoids have not been detected in archaea. [6] [7]

Biological function

About 10% of sequenced bacterial genomes have a putative shc gene encoding a squalene-hopene cyclase and can presumably make hopanoids, which have been shown to play diverse roles in the plasma membrane and may allow some organisms to adapt in extreme environments. [8] [9]

Since hopanoids modify plasma membrane properties in bacteria, they are frequently compared to sterols (e.g., cholesterol), which modulate membrane fluidity and serve other functions in eukaryotes. [10] Although hopanoids do not rescue sterol deficiency, they are thought to increase membrane rigidity and decrease permeability. [9] [11] [12] Also, gammaproteobacteria and eukaryotic organisms such as lichens and bryophytes have been shown to produce both sterols and hopanoids, suggesting these lipids may have other distinct functions. [4] [13] Notably, the way hopanoids pack into the plasma membrane can change depending on what functional groups are attached. The hopanoid bacteriohopanetetrol assumes a transverse orientation in lipid bilayers, but diploptene localizes between the inner and outer leaflet, presumably thickening the membrane to decrease permeability. [14]

The hopanoid diplopterol orders membranes by interacting with lipid A, a common membrane lipid in bacteria, in ways similar to how cholesterol and sphingolipids interact in eukaryotic plasma membranes. [10] Diplopterol and cholesterol were demonstrated to promote condensation and inhibit gel-phase formation in both sphingomyelin monolayers and monolayers of glycan-modified lipid A. Furthermore, both diplopterol and cholesterol could rescue pH-dependent phase transitions in glycan-modified lipid A monolayers. [10] The role of hopanoids in membrane-mediated acid tolerance is further supported by observations of acid-inhibited growth and morphological abnormalities of the plasma membrane in hopanoid-deficient bacteria with mutant squalene-hopene cyclases. [15] [16]

Hopanoids are produced in several nitrogen-fixing bacteria. [9] In the actinomycete Frankia , hopanoids in the membranes of vesicles specialized for nitrogen fixation likely restrict the entry of oxygen by making the lipid bilayer more tight and compact. [17] In Bradyrhizobium , hopanoids chemically bonded to lipid A increase membrane stability and rigidity, enhancing stress tolerance and intracellular survival in Aeschynomene legumes. [18] In the cyanobacterium Nostoc punctiforme , large quantities of 2-methylhopanoids localize to the outer membranes of survival structures called akinetes. [19] In another example of stress tolerance, hopanoids in the aerial hyphae (spore bearing structures) of the prokaryotic soil bacteria Streptomyces are thought to minimize water loss across the membrane to the air. [20]

Biosynthesis

Squalene synthesis

Since hopanoids are a C30 terpenoid, biosynthesis begins with isopentenyl pyrophosphate (IPP) and dimethylallyl pyrophosphate (DMAP), which are combined to form longer chain isoprenoids. [2] Synthesis of these smaller precursors proceeds either via the mevalonate pathway or the methylerythritol-4-phosphate pathway depending on the bacterial species, although the latter tends to be more common. [21] DMAP condenses with one molecule of IPP to geranyl pyrophosphate, which in turn condenses with another IPP to generate farnesyl pyrophosphate (FPP). [2] Squalene synthase, coded for by the gene sqs, then catalyzes the condensation of two FPP molecules to presqualene pyrophosphate (PSPP) before oxidizing NADPH to release squalene. [22] However, some hopanoid-producing bacteria lack squalene synthase and instead use the three enzymes HpnC, HpnD and HpnE, which are encoded in the hpn operon with many other hopanoid biosynthesis genes. [23] In this alternative yet seemingly more widespread squalene synthesis pathway, HpnD releases pyrophosphate as it condenses two molecules of FPP to PSPP, which HpnC converts to hydroxysqualene, consuming a water molecule and releasing another pyrophosphate. Then, hydroxysqualene is reduced to squalene in a dehydration reaction mediated by the FAD-dependent enzyme HpnE. [22]

Active site of the squalene-hopene cyclase from Methylococcus capsulatus engaging the substrate, squalene, shown in gold. The cyclase is depicted as a monomer. Cyclase activesite.png
Active site of the squalene-hopene cyclase from Methylococcus capsulatus engaging the substrate, squalene, shown in gold. The cyclase is depicted as a monomer.

Cyclization

Alpha barrel structure of the squalene-hopene cyclase from Methylococcus capsulatus. Alpha helices are shown in blue, loop regions in green, and beta sheets in red. Mcapshc bbarrel colored big.png
Alpha barrel structure of the squalene-hopene cyclase from Methylococcus capsulatus. Alpha helices are shown in blue, loop regions in green, and beta sheets in red.

Next, a squalene-hopene cyclase catalyzes an elaborate cyclization reaction, engaging squalene in an energetically favorable all-chair conformation before creating 5 cycles, 6 covalent bonds, and 9 chiral centers on the molecule in a single step. [24] [25] This enzyme, coded for by the gene shc (also called hpnF in some bacteria), has a double ⍺-barrel fold characteristic of terpenoid biosynthesis [26] and is present in the cell as a monotopic homodimer, meaning pairs of the cyclase are embedded in but do not span the plasma membrane. [24] [27] In vitro , this enzyme exhibits promiscuous substrate specificity, also cyclizing 2,3-oxidosqualene. [28]

Aromatic residues in the active site form several unfavorable carbocations on the substrate which are quenched by a rapid polycyclization. [25] In the last substep of the cyclization reaction, after electrons comprising the terminal alkene bond on the squalene have attacked the hopenyl carbocation to close the E ring, the C22 carbocation may be quenched by mechanisms that lead to different hopanoid products. Nucleophilic attack of water will yield diplopterol, while deprotonation at an adjacent carbon will form one of several hopene isomers, often diploptene. [4]

Functionalization

After cyclization, hopanoids are frequently modified by hopanoid biosynthesis enzymes encoded by genes in the same operon as shc, hpn. [29] For instance, the radical SAM protein HpnH adds an adenosine group to diploptene, forming the extended C35 hopanoid adenosylhopane, which can then be further functionalized by other hpn gene products. [30] HpnG catalyzes the removal of adenine from adenosylhopane to make ribosyl hopane, which reacts to form bacteriohopanetetrol (BHT) in a reaction mediated by an unknown enzyme. [31] Additional modifications may occurs as HpnO aminates the terminal hydroxyl on BHT, producing amino bacteriohopanetriol, or as the glycosyltransferase HpnI converts BHT to N-acetylglucosaminyl-BHT. [32] In sequence, the hopanoid biosynthesis associated protein HpnK mediates deacetylation to glucosaminyl-BHT, from which radical SAM protein HpnJ generates a cyclitol ether. [32]

Importantly, C30 and C35 hopanoids alike may be methylated at C2 and C3 positions by the radical SAM methyltransferases HpnP and HpnR, respectively. [33] [34] These two methylations are particularly geostable compared to side-chain modifications and have entertained geobiologists for decades. [9]

In a biosynthetic pathway exclusive to some bacteria, the enzyme tetrahymanol synthase catalyzes the conversion of the hopanoid diploptene to the pentacyclic triterpenoid tetrahymanol. In eukaryotes like Tetrahymena , tetrahymanol is instead synthesized directly from squalene by a cyclase with no homology to the bacterial tetrahymanol synthase. [35]

In paleobiology

Hopanoids have been estimated to be the most abundant natural products on Earth, remaining in the organic fraction of all sediments, independent of age, origin or nature. The total amount in the Earth was estimated as 10 x 1018 gram (1012 ton) in 1992. [36] Biomolecules like DNA and proteins are degraded during diagenesis, but polycyclic lipids persist in the environment over geologic timescales due to their fused, stable structures. [37] Although hopanoids and sterols are reduced to hopanes and steranes during deposition, these diagenetic products can still be useful biomarkers, or molecular fossils, for studying the coevolution of early life and Earth. [37] [38]

Currently, the oldest detected undisputed triterpenoid fossils are Mesoproterozoic okenanes, steranes, and methylhopanes from a 1.64 Ga (billion year) old basin in Australia. [39] However, molecular clock analyses estimate that the earliest sterols were likely produced around 2.3 Ga ago, around the same time as the Great Oxidation Event, with hopanoid synthesis arising even earlier. [40]

For several reasons, hopanoids and squalene-hopene cyclases have been hypothesized to be more ancient than sterols and oxidosqualene cyclases. First, diplopterol is synthesized when water quenches the C22 carbocation formed during polycyclization. This indicates that hopanoids can be made without molecular oxygen and could have served as a sterol surrogate before the atmosphere accumulated oxygen, which reacts with squalene in a reaction catalyzed by squalene monooxygenase during sterol biosynthesis. [1] Furthermore, squalene binds to squalene-hopene cyclases in a low-energy, all-chair conformation while oxidosqualene is cyclized in a more strained, chair-boat-chair-boat conformation. [4] [41] Squalene-hopene cyclases also display more substrate promiscuity in that they cyclize oxidosqualene in vitro, causing some scientists to hypothesize that they are evolutionary predecessors to oxidosqualene cyclases. [41] Other scientists have proposed that squalene-hopene and oxidosqualene cyclases diverged from a common ancestor, a putative bacterial cyclase that would have made a tricyclic malabaricanoid or tetracyclic dammaranoid product. [1] [42]

2-methylhopanoids

Structure of a 2-a-methylhopane with the carbons of the base hopane structure numbered according to convention. The methyl group at the C2 position is indicated in red. 2-alpha-methylhopane annotated with carbon numbering.jpg
Structure of a 2-α-methylhopane with the carbons of the base hopane structure numbered according to convention. The methyl group at the C2 position is indicated in red.

As a biomarker for cyanobacteria

Proposal

2-methylhopanes, often quantified as the 2-α-methylhopane index, were first proposed as a biomarker for oxygenic photosynthesis by Roger Summons and colleagues following the discovery of the precursor lipids, 2-methylhopanols, in cyanobacterial cultures and mats. [43] The subsequent discovery of 2-α-methylhopanes supposedly from photosynthetic cyanobacteria in 2.7 Ga old shales from the Pilbara Craton of Western Australia suggested a 400 Ma (million year) gap between the evolution of oxygenic metabolism and the Great Oxidation Event. [44] However, these findings were later rejected due to potential contamination by modern hydrocarbons. [45]

Putative cyanobacterial presence on the basis of abundant 2-methylhopanes has been used to explain black shale deposition during Aptian and Cenomanian–Turonian Ocean Anoxic Events (OAEs) and the associated 15N isotopic signatures indicative of N2-fixation. [46] In contrast, 2-α-methylhopane index values are relatively low across similar Frasnian and Famennian sediments corresponding to the Kellwasser event(s), [47] though higher levels have been reported in later Lower Famennian sections. [48]

Dispute

The status of 2-methylhopanoids as a cyanobacterial biomarker was challenged by a number of microbiological discoveries. Geobacter sulfurreducens was demonstrated to synthesize diverse hopanols, although not 2-methyl-hopanols, when grown under strictly anaerobic conditions. [8] Furthermore, the anoxygenic phototroph Rhodopseudomonas palustris was found to produce 2-methyl-BHPs only under anoxic conditions. [49] This latter discovery also lead to the identification of the gene encoding the key methyltransferase HpnP. [33] hpnP was subsequently identified in an acidobacterium and numerous alphaproteobacteria, and phylogenetic analysis of the gene concluded that it originated in the alphaproteobacteria and was acquired by the cyanobacteria and acidobacteriota via horizontal gene transfer. [50]

Among cyanobacteria, hopanoid production is generally limited to terrestrial cyanobacteria. Among marine cyanobacteria, culture experiments in conducted by Helen Talbot and colleagues concluded that only two marine species– Trichodesmium and Crocosphaera–produced bacteriohopanepolyols. [51] A later gene-based search for hpnP in available cyanobacterial genomes and Metagenome Assembled Genomes (MAGs) drew similar conclusions, identifying the gene in ~30% of terrestrial and freshwater species, and only one of the 739 marine cyanobacterial genomes and MAGs. [52] Additionally, Nostoc punctiforme produces the greatest amount of 2-methylhopanoids when differentiated into akinetes. These cold- and desiccation-resistant cell structures are dormant and therefore not photosynthetically active, further challenging the association between 2-methylhopanes and oxygenic photosynthesis. [19]

Other interpretations

Research demonstrating that the nitrite-oxidizing bacteria (NOB) Nitrobacter vulgaris increases its production of 2-methylhopanoids 33-fold when supplemented with cobalamin has furthered a non-cyanobacterial explanation for the observed abundance of 2-methylhopanes associated with Cretaceous OAEs. Felix Elling and colleagues propose that overturning circulation brought ammonia- and cobalt-rich deep waters to the surface, promoting aerobic nitrite oxidation and cobalamin synthesis, respectively. This model also addresses the conspicuous lack of 2-methylhopanes associated with Mediterranean sapropel events and in modern Black Sea sediments. Because both environments feature much less upwelling, 2-methylhopanoid-producing NOB such as N. vulgaris are outcompeted by NOB with higher nitrite affinity and anammox bacteria. [52]

An environmental survey by Jessica Ricci and coauthors using metagenomes and clone libraries found significant correlation between plant-associated microbial communities and hpnP presence, based on which they propose that 2-methylhopanoids are a biomarker for sessile microbial communities high in osmolarity and low in oxygen and fixed nitrogen. [53]

3-methylhopanoids

3-methylhopanoids have historically been associated with aerobic methanotrophy based on culture experiments [54] and co-occurrence with aerobic methanotrophs in the environment. [55] As such, the presence of 3-methylhopanes, together with 13C depletion, are considered markers of ancient aerobic methanotrophy. [34] However, acetic acid bacteria have been known for decades to also produce 2-methylhopanoids. [54] Additionally, following their identification of hpnR, the gene responsible for methylating hopanoids at the C3 position, Paula Welander and Roger Summons identified putative hpnR homologs in members of alpha-, beta-, and gammaproteobacteria, actinomycetota, nitrospirota, candidate phylum NC10, and an acidobacterium, as well as in three metagenomes. As such, Welander and Summons conclude that 3-methylhopanoids alone cannot constitute evidence of aerobic methanotrophy. [34]

Applications

Industry

The elegant mechanism behind the protonase activity of squalene-hopene cyclase was appreciated and adapted by chemical engineers at the University of Stuttgart, Germany. Active site engineering resulted in loss of the enzyme's ability to form hopanoids, but enabled Brønsted acid catalysis for the stereoselective cyclization of the monoterpenoids geraniol, epoxygeraniol, and citronellal. [56]

Agriculture

The application of hopanoids and hopanoid-producing nitrogen fixers to soil has been proposed and patented as a biofertilizer technique that increases environmental resistance of plant-associated microbial symbionts, including nitrogen-fixing bacteria that are essential for transforming atmospheric nitrogen to soluble forms available to crops. [57]

Medicine

During later studies of interactions between diplopterol and lipid A in Methylobacterium extorquens , multidrug transport was found to be a hopanoid-dependent process. Squalene-hopene cyclase mutants derived from a wild type capable of multidrug efflux, a drug-resistance mechanism mediated by integral transport proteins, lost the ability to perform both multidrug transport and hopanoid synthesis. [12] Researchers indicate this could be due to direct regulation of transport proteins by hopanoids or indirectly by altering membrane ordering in a way that disrupts the transport system. [12]

Related Research Articles

<span class="mw-page-title-main">Squalene</span> Chemical compound

Squalene is an organic compound. It is a triterpene with the formula C30H50. It is a colourless oil, although impure samples appear yellow. It was originally obtained from shark liver oil (hence its name, as Squalus is a genus of sharks). An estimated 12% of bodily squalene in humans is found in sebum. Squalene has a role in topical skin lubrication and protection.

<span class="mw-page-title-main">Sterol</span> Chemical compound

Sterol is an organic compound with formula C
17H
28O, whose molecule is derived from that of gonane by replacement of a hydrogen atom on C3 position by a hydroxyl group. It is therefore an alcohol of gonane. More generally, any compounds that contain the gonane structure, additional functional groups, and/or modified ring systems derived from gonane are called steroids. Therefore, sterols are a subgroup of the steroids. They occur naturally in most eukaryotes, including plants, animals, and fungi, and can also be produced by some bacteria. The most familiar type of animal sterol is cholesterol, which is vital to cell membrane structure, and functions as a precursor to fat-soluble vitamins and steroid hormones.

<span class="mw-page-title-main">Lanosterol</span> Chemical compound

Lanosterol is a tetracyclic triterpenoid and is the compound from which all animal and fungal steroids are derived. By contrast, plant steroids are produced via cycloartenol.

<span class="mw-page-title-main">Sterane</span> Class of tetracyclic compounds derived from steroids

Steranes constitute a class of tetracyclic triterpanes derived from steroids or sterols via diagenetic and catagenetic degradation, such as hydrogenation. They are found in sediments and sedimentary rocks in nature. Steranes are derivatives of gonane, the steroid nucleus which is also called "cyclopentanoperhydrophenanthrene". They have an androstane skeleton with a side chain at the C-17 carbon. The sterane structure constitutes the core of all sterols. Steranes are widely used as biomarkers for the presence of eukaryotes in past ecosystems because steroids are nearly exclusively produced by eukaryotes. In particular, cholestanes are diagenetic products of cholesterol in animals, while stigmastanes are diagenetic products of stigmasterols in algae and land plants. However, some bacteria are now known to produce sterols and it is inferred that the ultimate origin of sterol biosynthesis is in bacteria. Sterols are produced via protosterols that are direct cyclization compounds of squalene by the catalysis of oxidosqualene cyclase. All known sterols in eukaryotes are enzymatically extensively modified from protosterols, while organisms that only produce protosterols are not known. The oldest record of modified steranes are in sedimentary rocks deposited ca. 720–820 million years ago. In contrast, diagenetic products of protosterols are widely distributed in older Proterozoic rocks and imply the presence of extinct proto-eukaryotes and/or sterol-producing bacteria before the evolution of crown-group eukaryotes.

<span class="mw-page-title-main">Cholestane</span> Chemical compound

Cholestane is a saturated tetracyclic triterpene. This 27-carbon biomarker is produced by diagenesis of cholesterol and is one of the most abundant biomarkers in the rock record. Presence of cholestane, its derivatives and related chemical compounds in environmental samples is commonly interpreted as an indicator of animal life and/or traces of O2, as animals are known for exclusively producing cholesterol, and thus has been used to draw evolutionary relationships between ancient organisms of unknown phylogenetic origin and modern metazoan taxa. Cholesterol is made in low abundance by other organisms (e.g., rhodophytes, land plants), but because these other organisms produce a variety of sterols it cannot be used as a conclusive indicator of any one taxon. It is often found in analysis of organic compounds in petroleum.

<span class="mw-page-title-main">Triterpene</span> Class of chemical compounds

Triterpenes are a class of terpenes composed of six isoprene units with the molecular formula C30H48; they may also be thought of as consisting of three terpene units. Animals, plants and fungi all produce triterpenes, including squalene, the precursor to all steroids.

<span class="mw-page-title-main">Farnesyl-diphosphate farnesyltransferase</span> Class of enzymes

Squalene synthase (SQS) or farnesyl-diphosphate:farnesyl-diphosphate farnesyl transferase is an enzyme localized to the membrane of the endoplasmic reticulum. SQS participates in the isoprenoid biosynthetic pathway, catalyzing a two-step reaction in which two identical molecules of farnesyl pyrophosphate (FPP) are converted into squalene, with the consumption of NADPH. Catalysis by SQS is the first committed step in sterol synthesis, since the squalene produced is converted exclusively into various sterols, such as cholesterol, via a complex, multi-step pathway. SQS belongs to squalene/phytoene synthase family of proteins.

(S)-2,3-Oxidosqualene ((S)-2,3-epoxysqualene) is an intermediate in the synthesis of the cell membrane sterol precursors lanosterol and cycloartenol, as well as saponins. It is formed when squalene is oxidized by the enzyme squalene monooxygenase. 2,3-Oxidosqualene is the substrate of various oxidosqualene cyclases, including lanosterol synthase, which produces lanosterol, a precursor to cholesterol.

<span class="mw-page-title-main">Squalene monooxygenase</span> Mammalian protein found in Homo sapiens

Squalene monooxygenase is a eukaryotic enzyme that uses NADPH and diatomic oxygen to oxidize squalene to 2,3-oxidosqualene. Squalene epoxidase catalyzes the first oxygenation step in sterol biosynthesis and is thought to be one of the rate-limiting enzymes in this pathway. In humans, squalene epoxidase is encoded by the SQLE gene. Several eukaryote genomes lack a squalene monooxygenase encoding gene, but instead encode an alternative squalene epoxidase that performs the same task.

<span class="mw-page-title-main">Lanosterol synthase</span> Mammalian protein found in Homo sapiens

Lanosterol synthase (EC 5.4.99.7) is an oxidosqualene cyclase (OSC) enzyme that converts (S)-2,3-oxidosqualene to a protosterol cation and finally to lanosterol. Lanosterol is a key four-ringed intermediate in cholesterol biosynthesis. In humans, lanosterol synthase is encoded by the LSS gene.

<span class="mw-page-title-main">Prenyltransferase</span>

Prenyltransferases (PTs) are a class of enzymes that transfer allylic prenyl groups to acceptor molecules. Prenyl transferases commonly refer to isoprenyl diphosphate syntheses (IPPSs). Prenyltransferases are a functional category and include several enzyme groups that are evolutionarily independent.

In enzymology, a geranyltranstransferase is an enzyme that catalyzes the chemical reaction

The squalene/phytoene synthase family represents proteins that catalyze the head-to-head condensation of C15 and C20 prenyl units (i.e. farnesyl diphosphate and genranylgeranyl diphosphate). This enzymatic step constitutes part of steroid and carotenoid biosynthesis pathway. Squalene synthase EC (SQS) and Phytoene synthase EC (PSY) are two well-known examples of this protein family and share a number of functional similarities. These similarities are also reflected in their primary structure. In particular three well conserved regions are shared by SQS and PSY; they could be involved in substrate binding and/or the catalytic mechanism. SQS catalyzes the conversion of two molecules of farnesyl diphosphate (FPP) into squalene. It is the first committed step in the cholesterol biosynthetic pathway. The reaction carried out by SQS is catalyzed in two separate steps: the first is a head-to-head condensation of the two molecules of FPP to form presqualene diphosphate; this intermediate is then rearranged in a NADP-dependent reduction, to form squalene:

<span class="mw-page-title-main">Squalene-hopene cyclase</span>

Squalene-hopene cyclase (SHC) (EC 5.4.99.17) or hopan-22-ol hydro-lyase is an enzyme in the terpene cyclase/mutase family. It catalyzes the interconversion of squalene into a pentacyclic triterpenes, hopene and hopanol. This enzyme catalyses the following chemical reactions.

Roger Everett Summons is the Schlumberger Professor of Geobiology at the Massachusetts Institute of Technology and Professor of Geobiology in the Department of Earth, Atmospheric and Planetary Sciences.

<span class="mw-page-title-main">Oxidosqualene cyclase</span>

Oxidosqualene cyclases (OSC) are enzymes involved in cyclization reactions of 2,3-oxidosqualene to form sterols or triterpenes.

<span class="mw-page-title-main">Tetrahymanol</span> Chemical compound

Tetrahymanol is a gammacerane-type membrane lipid first found in the marine ciliate Tetrahymena pyriformis. It was later found in other ciliates, fungi, ferns, and bacteria. After being deposited in sediments that compress into sedimentary rocks over millions of years, tetrahymanol is dehydroxylated into gammacerane. Gammacerane has been interpreted as a proxy for ancient water column stratification.

<span class="mw-page-title-main">Isoarborinol</span> Chemical compound

Isoarborinol is a triterpenoid ubiquitously produced by angiosperms and is thus considered a biomarker for higher plants. Though no isoarborinol-producing microbe has been identified, isoarborinol is also considered a possible biomarker for marine bacteria, as its diagenetic end product, arborane, has been found in ancient marine sediments that predate the rise of plants. Importantly, isoarborinol may represent the phylogenetic link between hopanols and sterols.

Paula Veronica Welander is a microbiologist and professor at Stanford University who is known for her research using lipid biomarkers to investigate how life evolved on Earth.

<span class="mw-page-title-main">Diplopterol</span> Chemical compound

Diplopterol is a triterpenoid molecule commonly produced by bacteria, ferns, and a few protozoans. This compound, classified as a member of the hopanoid family, is synthesized from triterpenoid precursor squalene. It is generally believed that hopanoids serve a similar function in bacteria as that of sterols in eukaryotes, which involves modulating membrane fluidity. Diplopterol serves as a useful biomarker for prokaryotic life, along with oxygen content at the time of sediment deposition.

References

  1. 1 2 3 Welander PV (August 2019). "Deciphering the evolutionary history of microbial cyclic triterpenoids". Free Radical Biology & Medicine. Early Life on Earth and Oxidative Stress. 140: 270–278. doi: 10.1016/j.freeradbiomed.2019.05.002 . PMID   31071437.
  2. 1 2 3 Sohlenkamp C, Geiger O (January 2016). "Bacterial membrane lipids: diversity in structures and pathways". FEMS Microbiology Reviews. 40 (1): 133–59. doi: 10.1093/femsre/fuv008 . PMID   25862689.
  3. ↑ Mills JS, Werner AE (1955-01-01). "The chemistry of dammar resin". Journal of the Chemical Society (Resumed): 3132–3140. doi:10.1039/JR9550003132. ISSN   0368-1769.
  4. 1 2 3 4 Volkman JK (2005-02-01). "Sterols and other triterpenoids: source specificity and evolution of biosynthetic pathways". Organic Geochemistry. 36 (2): 139–159. doi:10.1016/j.orggeochem.2004.06.013.
  5. ↑ Hunt JM, Philp RP, Kvenvolden KA (2002-09-01). "Early developments in petroleum geochemistry". Organic Geochemistry. 33 (9): 1025–1052. doi:10.1016/S0146-6380(02)00056-6.
  6. ↑ William W. Christie. "The AOCS Lipid Library. Hopanoids". American Oil Chemists' Society. Archived from the original on 2016-03-05. Retrieved 2015-11-17.
  7. ↑ "Hopanoids - AOCS Lipid Library". 2016-03-05. Archived from the original on 2016-03-05. Retrieved 2020-03-06.
  8. 1 2 Fischer WW, Summons RE, Pearson A (2005). "Targeted genomic detection of biosynthetic pathways: anaerobic production of hopanoid biomarkers by a common sedimentary microbe". Geobiology. 3 (1): 33–40. doi:10.1111/j.1472-4669.2005.00041.x. S2CID   2124789.
  9. 1 2 3 4 Belin BJ, Busset N, Giraud E, Molinaro A, Silipo A, Newman DK (May 2018). "Hopanoid lipids: from membranes to plant-bacteria interactions". Nature Reviews. Microbiology. 16 (5): 304–315. doi:10.1038/nrmicro.2017.173. PMC   6087623 . PMID   29456243.
  10. 1 2 3 Sáenz JP, Sezgin E, Schwille P, Simons K (August 2012). "Functional convergence of hopanoids and sterols in membrane ordering". Proceedings of the National Academy of Sciences of the United States of America. 109 (35): 14236–40. Bibcode:2012PNAS..10914236S. doi: 10.1073/pnas.1212141109 . PMC   3435179 . PMID   22893685.
  11. ↑ Wu CH, Bialecka-Fornal M, Newman DK (January 2015). Clardy J (ed.). "Methylation at the C-2 position of hopanoids increases rigidity in native bacterial membranes". eLife. 4: e05663. doi: 10.7554/eLife.05663 . PMC   4337730 . PMID   25599566.
  12. 1 2 3 Sáenz JP, Grosser D, Bradley AS, Lagny TJ, Lavrynenko O, Broda M, Simons K (September 2015). "Hopanoids as functional analogues of cholesterol in bacterial membranes". Proceedings of the National Academy of Sciences of the United States of America. 112 (38): 11971–6. Bibcode:2015PNAS..11211971S. doi: 10.1073/pnas.1515607112 . PMC   4586864 . PMID   26351677.
  13. ↑ Tippelt A, Jahnke L, Poralla K (March 1998). "Squalene-hopene cyclase from Methylococcus capsulatus (Bath): a bacterium producing hopanoids and steroids". Biochimica et Biophysica Acta (BBA) - Lipids and Lipid Metabolism. 1391 (2): 223–32. doi:10.1016/S0005-2760(97)00212-9. PMID   9555026.
  14. ↑ Poger D, Mark AE (December 2013). "The relative effect of sterols and hopanoids on lipid bilayers: when comparable is not identical". The Journal of Physical Chemistry B. 117 (50): 16129–40. doi:10.1021/jp409748d. PMID   24299489.
  15. ↑ Schmerk CL, Bernards MA, Valvano MA (December 2011). "Hopanoid production is required for low-pH tolerance, antimicrobial resistance, and motility in Burkholderia cenocepacia". Journal of Bacteriology. 193 (23): 6712–23. doi:10.1128/JB.05979-11. PMC   3232912 . PMID   21965564.
  16. ↑ Welander PV, Hunter RC, Zhang L, Sessions AL, Summons RE, Newman DK (October 2009). "Hopanoids play a role in membrane integrity and pH homeostasis in Rhodopseudomonas palustris TIE-1". Journal of Bacteriology. 191 (19): 6145–56. doi:10.1128/JB.00460-09. PMC   2747905 . PMID   19592593.
  17. ↑ Berry AM, Harriott OT, Moreau RA, Osman SF, Benson DR, Jones AD (July 1993). "Hopanoid lipids compose the Frankia vesicle envelope, presumptive barrier of oxygen diffusion to nitrogenase". Proceedings of the National Academy of Sciences of the United States of America. 90 (13): 6091–4. Bibcode:1993PNAS...90.6091B. doi: 10.1073/pnas.90.13.6091 . PMC   46873 . PMID   11607408.
  18. ↑ Silipo A, Vitiello G, Gully D, Sturiale L, Chaintreuil C, Fardoux J, et al. (October 2014). "Covalently linked hopanoid-lipid A improves outer-membrane resistance of a Bradyrhizobium symbiont of legumes". Nature Communications. 5 (1): 5106. Bibcode:2014NatCo...5.5106S. doi: 10.1038/ncomms6106 . PMID   25355435.
  19. 1 2 Doughty DM, Hunter RC, Summons RE, Newman DK (December 2009). "2-Methylhopanoids are maximally produced in akinetes of Nostoc punctiforme: geobiological implications". Geobiology. 7 (5): 524–32. doi:10.1111/j.1472-4669.2009.00217.x. PMC   2860729 . PMID   19811542.
  20. ↑ Poralla K, Muth G, Härtner T (August 2000). "Hopanoids are formed during transition from substrate to aerial hyphae in Streptomyces coelicolor A3(2)". FEMS Microbiology Letters. 189 (1): 93–5. doi: 10.1111/j.1574-6968.2000.tb09212.x . PMID   10913872.
  21. ↑ Pérez-Gil J, Rodríguez-Concepción M (May 2013). "Metabolic plasticity for isoprenoid biosynthesis in bacteria" . The Biochemical Journal. 452 (1): 19–25. doi:10.1042/BJ20121899. PMID   23614721.
  22. 1 2 Pan JJ, Solbiati JO, Ramamoorthy G, Hillerich BS, Seidel RD, Cronan JE, et al. (2015-05-27). "Biosynthesis of Squalene from Farnesyl Diphosphate in Bacteria: Three Steps Catalyzed by Three Enzymes". ACS Central Science. 1 (2): 77–82. doi:10.1021/acscentsci.5b00115. PMC   4527182 . PMID   26258173.
  23. ↑ van der Donk WA (May 2015). "Bacteria Do It Differently: An Alternative Path to Squalene". ACS Central Science. 1 (2): 64–5. doi:10.1021/acscentsci.5b00142. PMC   4827487 . PMID   27162951.
  24. 1 2 Siedenburg G, Jendrossek D (June 2011). "Squalene-hopene cyclases". Applied and Environmental Microbiology. 77 (12): 3905–15. doi:10.1128/AEM.00300-11. PMC   3131620 . PMID   21531832.
  25. 1 2 Hoshino T, Sato T (February 2002). "Squalene-hopene cyclase: catalytic mechanism and substrate recognition". Chemical Communications (4): 291–301. doi:10.1039/B108995C. PMID   12120044.
  26. ↑ Syrén PO, Henche S, Eichler A, Nestl BM, Hauer B (December 2016). "Squalene-hopene cyclases-evolution, dynamics and catalytic scope". Current Opinion in Structural Biology. Multi-protein assemblies in signaling • Catalysis and regulation. 41: 73–82. doi:10.1016/j.sbi.2016.05.019. PMID   27336183.
  27. ↑ Dang T, Prestwich GD (August 2000). "Site-directed mutagenesis of squalene-hopene cyclase: altered substrate specificity and product distribution". Chemistry & Biology. 7 (8): 643–9. doi: 10.1016/S1074-5521(00)00003-X . PMID   11048954.
  28. ↑ Rohmer M, Anding C, Ourisson G (December 1980). "Non-specific biosynthesis of hopane triterpenes by a cell-free system from Acetobacter pasteurianum". European Journal of Biochemistry. 112 (3): 541–7. doi: 10.1111/j.1432-1033.1980.tb06117.x . PMID   7460938.
  29. ↑ Perzl M, Reipen IG, Schmitz S, Poralla K, Sahm H, Sprenger GA, Kannenberg EL (July 1998). "Cloning of conserved genes from Zymomonas mobilis and Bradyrhizobium japonicum that function in the biosynthesis of hopanoid lipids". Biochimica et Biophysica Acta (BBA) - Lipids and Lipid Metabolism. 1393 (1): 108–18. doi:10.1016/S0005-2760(98)00064-2. PMID   9714766.
  30. ↑ Bradley AS, Pearson A, Sáenz JP, Marx CJ (2010-10-01). "Adenosylhopane: The first intermediate in hopanoid side chain biosynthesis". Organic Geochemistry. 41 (10): 1075–1081. doi:10.1016/j.orggeochem.2010.07.003.
  31. ↑ Liu W, Sakr E, Schaeffer P, Talbot HM, Donisi J, Härtner T, et al. (September 2014). "Ribosylhopane, a novel bacterial hopanoid, as precursor of C35 bacteriohopanepolyols in Streptomyces coelicolor A3(2)". ChemBioChem. 15 (14): 2156–61. doi:10.1002/cbic.201402261. PMC   4245026 . PMID   25155017.
  32. 1 2 Schmerk CL, Welander PV, Hamad MA, Bain KL, Bernards MA, Summons RE, Valvano MA (March 2015). "Elucidation of the Burkholderia cenocepacia hopanoid biosynthesis pathway uncovers functions for conserved proteins in hopanoid-producing bacteria" (PDF). Environmental Microbiology. 17 (3): 735–50. doi:10.1111/1462-2920.12509. PMID   24888970. S2CID   10000650.
  33. 1 2 Welander PV, Coleman ML, Sessions AL, Summons RE, Newman DK (May 2010). "Identification of a methylase required for 2-methylhopanoid production and implications for the interpretation of sedimentary hopanes". Proceedings of the National Academy of Sciences of the United States of America. 107 (19): 8537–42. Bibcode:2010PNAS..107.8537W. doi: 10.1073/pnas.0912949107 . PMC   2889317 . PMID   20421508.
  34. 1 2 3 Welander PV, Summons RE (August 2012). "Discovery, taxonomic distribution, and phenotypic characterization of a gene required for 3-methylhopanoid production". Proceedings of the National Academy of Sciences of the United States of America. 109 (32): 12905–10. Bibcode:2012PNAS..10912905W. doi: 10.1073/pnas.1208255109 . PMC   3420191 . PMID   22826256.
  35. ↑ Banta AB, Wei JH, Welander PV (November 2015). "A distinct pathway for tetrahymanol synthesis in bacteria". Proceedings of the National Academy of Sciences of the United States of America. 112 (44): 13478–83. Bibcode:2015PNAS..11213478B. doi: 10.1073/pnas.1511482112 . PMC   4640766 . PMID   26483502.
  36. ↑ Ourisson G, Albrecht P (September 1992). "Hopanoids. 1. Geohopanoids: the most abundant natural products on Earth?". Accounts of Chemical Research. 25 (9): 398–402. doi:10.1021/ar00021a003.
  37. 1 2 Summons RE, Lincoln SA (2012-03-30). "Biomarkers: Informative Molecules for Studies in Geobiology". Fundamentals of Geobiology. John Wiley & Sons, Ltd. pp. 269–296. doi:10.1002/9781118280874.ch15. ISBN   978-1-118-28087-4.
  38. ↑ Knoll AH (2003). Life on a young planet: the first three billion years of evolution on Earth. Princeton, N.J.: Princeton University Press. ISBN   0-691-00978-3. OCLC   50604948.
  39. ↑ Brocks JJ, Love GD, Summons RE, Knoll AH, Logan GA, Bowden SA (October 2005). "Biomarker evidence for green and purple sulphur bacteria in a stratified Palaeoproterozoic sea". Nature. 437 (7060): 866–70. Bibcode:2005Natur.437..866B. doi:10.1038/nature04068. PMID   16208367. S2CID   4427285.
  40. ↑ Gold DA, Caron A, Fournier GP, Summons RE (March 2017). "Paleoproterozoic sterol biosynthesis and the rise of oxygen". Nature. 543 (7645): 420–423. Bibcode:2017Natur.543..420G. doi:10.1038/nature21412. hdl: 1721.1/128450 . PMID   28264195. S2CID   205254122.
  41. 1 2 Ourisson G, Albrecht P, Rohmer M (1982-07-01). "Predictive microbial biochemistry — from molecular fossils to procaryotic membranes". Trends in Biochemical Sciences. 7 (7): 236–239. doi:10.1016/0968-0004(82)90028-7. ISSN   0968-0004.
  42. ↑ Fischer WW, Pearson A (2007). "Hypotheses for the origin and early evolution of triterpenoid cyclases". Geobiology. 5 (1): 19–34. doi:10.1111/j.1472-4669.2007.00096.x. PMID   36298871. S2CID   9351464.
  43. ↑ Summons, Roger E.; Jahnke, Linda L.; Hope, Janet M.; Logan, Graham A. (August 1999). "2-Methylhopanoids as biomarkers for cyanobacterial oxygenic photosynthesis" . Nature. 400 (6744): 554–557. doi:10.1038/23005. ISSN   1476-4687. PMID   10448856. S2CID   204995022.
  44. ↑ Brocks, J. J. (1999-08-13). "Archean Molecular Fossils and the Early Rise of Eukaryotes" . Science. 285 (5430): 1033–1036. doi:10.1126/science.285.5430.1033. PMID   10446042.
  45. ↑ French, Katherine L.; Hallmann, Christian; Hope, Janet M.; Schoon, Petra L.; Zumberge, J. Alex; Hoshino, Yosuke; Peters, Carl A.; George, Simon C.; Love, Gordon D.; Brocks, Jochen J.; Buick, Roger (2015-05-12). "Reappraisal of hydrocarbon biomarkers in Archean rocks". Proceedings of the National Academy of Sciences. 112 (19): 5915–5920. doi: 10.1073/pnas.1419563112 . ISSN   0027-8424. PMC   4434754 . PMID   25918387.
  46. ↑ Kuypers, Marcel M.M.; van Breugel, Yvonne; Schouten, Stefan; Erba, Elisabetta; Sinninghe Damsté, Jaap S. (2004). "N2-fixing cyanobacteria supplied nutrient N for Cretaceous oceanic anoxic events" . Geology. 32 (10): 853. doi:10.1130/G20458.1. ISSN   0091-7613.
  47. ↑ Haddad, Emily E.; Tuite, Michael L.; Martinez, Aaron M.; Williford, Kenneth; Boyer, Diana L.; Droser, Mary L.; Love, Gordon D. (August 2016). "Lipid biomarker stratigraphic records through the Late Devonian Frasnian/Famennian boundary: Comparison of high- and low-latitude epicontinental marine settings". Organic Geochemistry. 98: 38–53. doi: 10.1016/j.orggeochem.2016.05.007 .
  48. ↑ Marynowski, Leszek; Rakociński, Michał; Borcuch, Ewelina; Kremer, Barbara; Schubert, Brian A.; Jahren, A. Hope (June 2011). "Molecular and petrographic indicators of redox conditions and bacterial communities after the F/F mass extinction (Kowala, Holy Cross Mountains, Poland)" . Palaeogeography, Palaeoclimatology, Palaeoecology. 306 (1–2): 1–14. doi:10.1016/j.palaeo.2011.03.018.
  49. ↑ Rashby SE, Sessions AL, Summons RE, Newman DK (September 2007). "Biosynthesis of 2-methylbacteriohopanepolyols by an anoxygenic phototroph". Proceedings of the National Academy of Sciences of the United States of America. 104 (38): 15099–104. Bibcode:2007PNAS..10415099R. doi: 10.1073/pnas.0704912104 . PMC   1986619 . PMID   17848515.
  50. ↑ Ricci, J. N.; Michel, A. J.; Newman, D. K. (May 2015). "Phylogenetic analysis of HpnP reveals the origin of 2-methylhopanoid production in Alphaproteobacteria" . Geobiology. 13 (3): 267–277. doi:10.1111/gbi.12129. PMID   25630231. S2CID   7003010.
  51. ↑ Talbot HM, Summons RE, Jahnke LL, Cockell CS, Rohmer M, Farrimond P (2008-02-01). "Cyanobacterial bacteriohopanepolyol signatures from cultures and natural environmental settings". Organic Geochemistry. 39 (2): 232–263. doi:10.1016/j.orggeochem.2007.08.006.
  52. 1 2 Elling, Felix J.; Hemingway, Jordon D.; Evans, Thomas W.; Kharbush, Jenan J.; Spieck, Eva; Summons, Roger E.; Pearson, Ann (2020-12-29). "Vitamin B 12 -dependent biosynthesis ties amplified 2-methylhopanoid production during oceanic anoxic events to nitrification". Proceedings of the National Academy of Sciences. 117 (52): 32996–33004. doi: 10.1073/pnas.2012357117 . ISSN   0027-8424. PMC   7777029 . PMID   33318211.
  53. ↑ Ricci, Jessica N; Coleman, Maureen L; Welander, Paula V; Sessions, Alex L; Summons, Roger E; Spear, John R; Newman, Dianne K (March 2014). "Diverse capacity for 2-methylhopanoid production correlates with a specific ecological niche". The ISME Journal. 8 (3): 675–684. doi:10.1038/ismej.2013.191. ISSN   1751-7362. PMC   3930323 . PMID   24152713.
  54. 1 2 Zundel, Magali; Rohmer, Michel (July 1985). "Prokaryotic triterpenoids. 3. The biosynthesis of 2beta-methylhopanoids and 3beta-methylhopanoids of Methylobacterium organophilum and Acetobacter pasteurianus ssp. pasteurianus". European Journal of Biochemistry. 150 (1): 35–39. doi: 10.1111/j.1432-1033.1985.tb08984.x . ISSN   0014-2956. PMID   3926496.
  55. ↑ Elvert, Marcus; Niemann, Helge (February 2008). "Occurrence of unusual steroids and hopanoids derived from aerobic methanotrophs at an active marine mud volcano" . Organic Geochemistry. 39 (2): 167–177. doi:10.1016/j.orggeochem.2007.11.006.
  56. ↑ Hammer SC, Marjanovic A, Dominicus JM, Nestl BM, Hauer B (February 2015). "Squalene hopene cyclases are protonases for stereoselective Brønsted acid catalysis". Nature Chemical Biology. 11 (2): 121–6. doi:10.1038/nchembio.1719. PMID   25503928.
  57. ↑ US 2017107160,Newman DK, Kulkarni G, Belin BJ,"Hopanoids producing bacteria and related biofertilizers, compositions, methods and systems",issued 2016-10-19, assigned to California Institute of Technology
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