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1. Breakdown of organic matter by living microorganism like bacteria, fungi and other biological means.
2. It can be degraded by aerobically (in presence of oxygen) or anaerobically (in absence of oxygen).
Biotransformation:
Part of organic matter is degraded. Remaining part is converted to smaller organic molecules.
Bioremediation : Use of either naturally occurring or deliberately introduced microorganisms to consume and
break down environmental pollutants.
Organic Pollutants
Soil Humus: The soil organic matter consists of a whole series of products
that ranges from undecomposed plant and animal tissue to fairly Amorphous
material.
Advantages:
1. It protects soil from erosion and helps in forming good soil structure.
➢ Xenobiotic chemicals are biologically active molecules that are foreign to an organism.
Industrial
chemical
(Formalin)
Man-made Xenobiotics
H2O
PET
Polyethylene terephthalate
Natural product can also be a Xenobiotic like phytotoxins.
➢ Different organic residues contain different groups of organic compounds, so their decomposition procedure and rate
differ.
➢ Very slowly decomposed compounds are lignin, fat, wax, cellulose, and hemicellulose.
Enzyme
The enzyme is a substance, composed of proteins capable of lowering the activation energy of the reaction.
ases
The most representative enzymes involved in bioremediation include cytochrome P450s, laccases, hydrolases,
dehalogenases, dehydrogenases, proteases, and lipases, which have shown promising potential in degradation of
polymers, aromatic hydrocarbons, halogenated compounds, dyes, detergents, agrochemical compounds, etc
Enzyme activity
Mechanism of degradation by microorganism
The microbial organisms transform the substance through
metabolic or enzymatic processes. It is based on two processes:
growth and cometabolism.
➢ Among oxygenases reported, methane monooxygenase (MMO) expressed by methane-oxidizing bacteria (i.e.,
methanotrophs) is one of the well-studied oxygenases. Methanotrophs can express two types of MMOs, particulate
(pMMO) and soluble (sMMO). Compared to pMMO, sMMO has a broader substrate range and is known for its ability to
degrade various environmental contaminants with some of the most persistent organics like pesticides, and halogenated
aliphatic and aromatic compounds.
➢ During cometabolic degradation of trichloroethylene (TCE; a chlorinated solvent), methanotrophs use MMO to oxidize
both methane (growth substrate) and TCE (co-metabolic substrate) with an expense of reducing energy, reduced
nicotinamide adenine dinucleotide (NADH), and oxygen. During methane oxidation, MMO will first convert methane to
methanol, which is further oxidized to formaldehyde, formate and then carbon dioxide, resulting in a net production of
reducing energy (NADH) and metabolites (formaldehyde and/or CO2) available for microbial cell growth.
There are two forms of MMO: the well-studied soluble form (sMMO) and the particulate form (pMMO). The active
site in sMMO contains a di-iron center bridged by an oxygen atom (Fe-O-Fe), whereas the active site in pMMO
utilizes copper. Structures of both proteins have been determined by X-ray crystallography; however, the location
and mechanism of the active site in pMMO is still poorly understood and is an area of active research.
Proposed catalytic cycle and mechanism sMMO
➢ As MMO is responsible for both methane and TCE oxidation, competitive inhibition of TCE degradation has
resists
been observed in the presence of methane.
➢ Different from methane oxidation, TCE is oxidized to TCE epoxide, which is quickly hydrolyzed to chlorine
and carbon dioxide, resulting a net loss of reducing energy.
➢ Another unfavorable consequence is product toxicity- metabolites like TCE epoxide cause damage to cells
and the degradative enzymes – limiting the amount of TCE can be biotransformed per cell.
TCE degradation
NADH
PQQ: Pyrroloquinoline
quinone. Peptide
derived redox cofactor
Methane and TCE oxidation pathways in methane-oxidizing bacteria. Enzymes: 1, MMO; 2, methanol dehydrogenase; 3,
formaldehyde dehydrogenase; 4, formate dehydrogenase.
Aerobic and Anaerobic
In situ Bioremediation
Pollutants
Most organic and inorganic chemicals are subject
to enzymatic attack through the activities of living
organisms
Type of pollutants
BTEX (Benzene, Toluene, Ethylbenzene, Xylene)
PAH (Polycyclic aromatic hydrocarbon)
Nitroaromatic compounds
PCB (Polychlorinated biphenyls)
Chlorinated aliphatic compounds like, trichloroethylene (TCE), dichloroethylene (DCE), vinyl
chloride (VC)
MTBE: Methyl tert-butyl ether
Agricultural chemical wastes (Triazine, DDT)
Compounds with differential aerobic vs. anaerobic
degradation potential
Benzene, polynuclear aromatic
hydrocarbons (PAH)
Methane mono-oxygenase enzyme expressed by methane-oxidizing bacteria helps in the following organic convertion.
1. Methane to formaldehyde
2. Methane to methanol
3. Methane to formic acid
4. Methane to carbon dioxide