Halorespiration
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Halorespiration
Halorespiration or dehalorespiration or organohalide respiration is the use of halogenated compounds as terminal electron acceptors in anaerobic respiration. Halorespiration can play a part in microbial biodegradation. The most common substrates are chlorinated aliphatics (PCE, TCE), chlorinated phenols and chloroform. Dehalorespiring bacteria are highly diverse. This trait is found in some Campylobacterota, Thermodesulfobacteriota, Chloroflexota (green nonsulfur bacteria), low G+C gram positive Clostridia, and ultramicrobacteria. Process of Halorespiration The process of halorespiration, or dehalorespiration, uses reductive dehalogenation to produce energy that can be used by the respiring microorganism to carry out its growth and metabolism. Halogenated organic compounds are used as the terminal electron acceptor, which results in their dehalogenation. Reductive dehalogenation is the process by which this occurs. It involves the reduction of halogenated compounds by removing the ...
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Dehalococcoides
''Dehalococcoides'' is a genus of bacteria within class Dehalococcoidia that obtain energy via the oxidation of hydrogen and subsequent reductive dehalogenation of halogenated organic compounds in a mode of anaerobic respiration called organohalide respiration. They are well known for their great potential to remediate halogenated ethenes and aromatics. They are the only bacteria known to transform highly chlorinated dioxins, PCBs. In addition, they are the only known bacteria to transform tetrachloroethene ( perchloroethene, PCE) to ethene. Microbiology The first member of the genus ''Dehalococcoides'' was described in 1997 as ''Dehalococcoides ethenogenes'' strain 195 (nom. inval.). Additional ''Dehalococcoides'' members were later described as strains CBDB1, BAV1, FL2, VS, and GT. In 2012 all yet-isolated ''Dehalococcoides'' strains were summarized under the new taxonomic name '' D. mccartyi'', with strain 195 as the type strain. GTDB release 202 clusters the genus into thre ...
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Chloroform
Chloroform, or trichloromethane, is an organic compound with chemical formula, formula Carbon, CHydrogen, HChlorine, Cl3 and a common organic solvent. It is a colorless, strong-smelling, dense liquid produced on a large scale as a precursor to PTFE. It is also a precursor to various refrigerants. It is trihalomethane. It is a powerful anesthetic, euphoriant, anxiolytic, and sedative when inhaled or ingested. Structure The molecule adopts a tetrahedral molecular geometry with C3v symmetry group, symmetry. Natural occurrence The total global flux of chloroform through the environment is approximately tonnes per year, and about 90% of emissions are natural in origin. Many kinds of seaweed produce chloroform, and fungi are believed to produce chloroform in soil. Abiotic processes are also believed to contribute to natural chloroform productions in soils although the mechanism is still unclear. Chloroform volatilizes readily from soil and surface water and undergoes degradation in ...
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Electron Acceptor
An electron acceptor is a chemical entity that accepts electrons transferred to it from another compound. It is an oxidizing agent that, by virtue of its accepting electrons, is itself reduced in the process. Electron acceptors are sometimes mistakenly called electron receptors. Typical oxidizing agents undergo permanent chemical alteration through covalent or ionic reaction chemistry, resulting in the complete and irreversible transfer of one or more electrons. In many chemical circumstances, however, the transfer of electronic charge from an electron donor may be only fractional, meaning an electron is not completely transferred, but results in an electron resonance between the donor and acceptor. This leads to the formation of charge transfer complexes in which the components largely retain their chemical identities. The electron accepting power of an acceptor molecule is measured by its electron affinity which is the energy released when filling the lowest unoccupied molecul ...
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Ethylene
Ethylene (IUPAC name: ethene) is a hydrocarbon which has the formula or . It is a colourless, flammable gas with a faint "sweet and musky" odour when pure. It is the simplest alkene (a hydrocarbon with carbon-carbon double bonds). Ethylene is widely used in the chemical industry, and its worldwide production (over 150 million tonnes in 2016) exceeds that of any other organic compound. Much of this production goes toward polyethylene, a widely used plastic containing polymer chains of ethylene units in various chain lengths. Ethylene is also an important natural plant hormone and is used in agriculture to force the ripening of fruits. The hydrate of ethylene is ethanol. Structure and properties This hydrocarbon has four hydrogen atoms bound to a pair of carbon atoms that are connected by a double bond. All six atoms that comprise ethylene are coplanar. The H-C-H angle is 117.4°, close to the 120° for ideal sp² hybridized carbon. The molecule is also relatively weak: rota ...
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Dehalobacter
''Dehalobacter'' is a genus in the phylum Bacillota (Bacteria). Etymology The generic name ''Dehalobacter'' derives from Latin ''de'', from; ''halogenum'' from Swedish, coined by Swedish chemist Baron Jöns Jakob Berzelius (1779–1848) from Greek ''hals'', ''halos'' "salt" + ''gen'' "to produce", so called because a salt is formed in reactions involving these elements; a rod '' bacter'', nominally meaning "a rod", but in effect meaning a bacterium, a rod; giving ''Dehalobacter'', a halogen-removing, rod-shaped bacterium. Species The genus contains a single species, namely '' D. restrictus'' ( Holliger ''et al''. 1998, type species of the genus. The specific name is from Latin ''restrictus'', limited, restricted, confined, referring to the limited substrate range used. Recently, ''Dehalobacter'' sp. UNSWDHB, which dechlorinate chloroform to dichloromethane, and its reductive dehalogenase were identified. See also * Bacterial taxonomy * Microbiology * List of bacterial ord ...
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Magnetospirillum
''Magnetospirillum'' is a Gram-negative, microaerophilic genus of magnetotactic bacterium, first isolated from pond water by the microbiologist R. P. Blakemore in 1975. They have a spiral (helical) shape and are propelled by a polar flagellum at each end of their cells. Four species have been described: ''M. magnetotacticum'' strain MS-1 (originally classified as ''Aquaspirillum magnetotacticum''; ''M. magneticum'' strain AMB-1; ''M. gryphiswaldense'' and ''M. bellicus''. Habitat The typical habitat of ''Magnetospirillum'' species consists of shallow fresh water and sediments, characterized by low concentrations of oxygen for growth (microaerophilic) where they live in the upper portion of the sediment (oxic/anoxic interface) and prefer an oxygen gradient of around 1–3%. Magnetotaxis Probably the most peculiar characteristic of ''Magnetospirillum'' species is their capacity to orient themselves according to Earth's magnetic field, magnetotaxis. This is achieved through the ...
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Vinyl Chloride
Vinyl chloride is an organochloride with the formula H2C=CHCl. It is also called vinyl chloride monomer (VCM) or chloroethene. This colorless compound is an important industrial chemical chiefly used to produce the polymer polyvinyl chloride (PVC). About 13 million metric tonne are produced annually. VCM is among the top twenty largest petrochemicals (petroleum-derived chemicals) in world production. The United States currently remains the largest VCM manufacturing region because of its low-production-cost position in chlorine and ethylene raw materials. China is also a large manufacturer and one of the largest consumers of VCM. Vinyl chloride is a gas with a sweet odor. It is highly toxic, flammable, and carcinogenic. It can be formed in the environment when soil organisms break down chlorinated solvents. Vinyl chloride that is released by industries or formed by the breakdown of other chlorinated chemicals can enter the air and drinking water supplies. Vinyl chloride is a common ...
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1,2-Dichloroethene
1,2-Dichloroethene, commonly called 1,2-dichloroethylene or 1,2-DCE, is the name for a pair of organochlorine compounds with the molecular formula CHCl. They are both colorless liquids with a sweet odor. It can exist as either of two geometric isomers, ''cis''-1,2-dichloroethene or ''trans''-1,2-dichloroethene, but is often used as a mixture of the two. They have modest solubility in water. These compounds have some applications as a degreasing solvent. In contrast to most ''cis-trans'' compounds, the ''Z'' isomer (''cis'') is more stable than the ''E'' isomer (''trans'') by 0.4 kcal/mol. Production and use ''cis''-DCE, the ''Z'' isomer, is obtainable by the controlled chlorination of acetylene: :CH + Cl → CHCl Industrially both isomers arise as byproducts of the production of vinyl chloride, which is produced on a vast scale. Unlike vinyl chloride, the 1,2-dichloroethylene isomers do not polymerize. ''trans''-DCE has applications including electronics cleaning, ...
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Oxidizing Agent
An oxidizing agent (also known as an oxidant, oxidizer, electron recipient, or electron acceptor) is a substance in a redox chemical reaction that gains or "Electron acceptor, accepts"/"receives" an electron from a (called the , , or ). In other words, an oxidizer is any substance that oxidizes another substance. The oxidation state, which describes the degree of loss of electrons, of the oxidizer decreases while that of the reductant increases; this is expressed by saying that oxidizers "undergo reduction" and "are reduced" while reducers "undergo oxidation" and "are oxidized". Common oxidizing agents are oxygen, hydrogen peroxide and the halogens. In one sense, an oxidizing agent is a chemical species that undergoes a chemical reaction in which it gains one or more electrons. In that sense, it is one component in an Redox, oxidation–reduction (redox) reaction. In the second sense, an oxidizing agent is a chemical species that transfers electronegative atoms, usually oxygen ...
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In Situ
''In situ'' (; often not italicized in English) is a Latin phrase that translates literally to "on site" or "in position." It can mean "locally", "on site", "on the premises", or "in place" to describe where an event takes place and is used in many different contexts. For example, in fields such as physics, geology, chemistry, or biology, ''in situ'' may describe the way a measurement is taken, that is, in the same place the phenomenon is occurring without isolating it from other systems or altering the original conditions of the test. The opposite of ''in situ'' is ''ex situ''. Aerospace In the aerospace industry, equipment on-board aircraft must be tested ''in situ'', or in place, to confirm everything functions properly as a system. Individually, each piece may work but interference from nearby equipment may create unanticipated problems. Special test equipment is available for this ''in situ'' testing. It can also refer to repairs made to the aircraft structure or flight con ...
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Aquifer
An aquifer is an underground layer of water-bearing, permeable rock, rock fractures, or unconsolidated materials (gravel, sand, or silt). Groundwater from aquifers can be extracted using a water well. Aquifers vary greatly in their characteristics. The study of water flow in aquifers and the characterization of aquifers is called hydrogeology. Related terms include aquitard, which is a bed of low permeability along an aquifer, and aquiclude (or ''aquifuge''), which is a solid, impermeable area underlying or overlying an aquifer, the pressure of which could create a confined aquifer. The classification of aquifers is as follows: Saturated versus unsaturated; aquifers versus aquitards; confined versus unconfined; isotropic versus anisotropic; porous, karst, or fractured; transboundary aquifer. Challenges for using groundwater include: overdrafting (extracting groundwater beyond the Dynamic equilibrium, equilibrium yield of the aquifer), groundwater-related subsidence of land, gro ...
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Hepatotoxicity
Hepatotoxicity (from ''hepatic toxicity'') implies chemical-driven liver damage. Drug-induced liver injury is a cause of acute and chronic liver disease caused specifically by medications and the most common reason for a drug to be withdrawn from the market after approval. The liver plays a central role in transforming and clearing chemicals and is susceptible to the toxicity from these agents. Certain medicinal agents, when taken in overdoses (e.g. paracetamol) and sometimes even when introduced within therapeutic ranges (e.g. halothane), may injure the organ. Other chemical agents, such as those used in laboratories and industries, natural chemicals (e.g., microcystins), and herbal remedies (two prominent examples being kava, mechanism unknown, and comfrey, through its pyrrolizidine alkaloid content) can also induce hepatotoxicity. Chemicals that cause liver injury are called hepatotoxins. More than 900 drugs have been implicated in causing liver injury (see LiverTox, exter ...
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