Tuesday, July 18, 2023

GENETIC IMPROVEMENT OF FERMENTATION PROCESSES

The genome of the organism ultimately controls its metabolism. Although improved fermenter engineering design and optimal cultural conditions can quantitatively enhance the microbial products, this will only be up to a limit. Genetic improvement of the organism is fundamental to the success of fermentation technology. Mutation and recombination are the two ways to meet this end.

A. MUTATION


A certain amount of mutational change in the genome occurs as a natural process, though the probability is small. Exposing a culture of a micro-organism to UV light, ionising radiation or certain chemicals, enhances the rate of occurrence of mutations. But it is a tremendous task for the industrial geneticist to screen the very large number of randomly produced mutants and to select the ones with the desired qualities.

The synthesis of a number of products of cell metabolism is controlled by a 'feed-back inhibition'. When a compound reaches a particular level of accumulation, its synthesis is stopped. Synthesis starts again when the level of the compound falls below the specific level. If a mutant is produced, in which the feedback signalling is suppressed, the product is synthesised continuously. By such a manipulation, a high producing strain of Corynebacterium glutamacium was developed to recover very high quantities of lysine. Such strains that do not produce controlling end products are called auxotrophs.

B. RECOMBINATION

Recombination is defined as any process that brings together genes from different sources.

A strain of Brevibacterium flavum is a high producer of lysine, but is limited by its poor capacity to absorb glucose. Another strain of the bacterium, which is an efficient absorber of glucose but which does not produce lysine, was used to develop a recombinant strain, through protoplast fusion. The new strain utilises high levels of glucose and yields higher levels of lysine.

A gene for the synthesis of phenylalanine was transferred to a chosen strain of Escherichia coli, which was a non-producer, but a good experimental and production tool.

Transformation of a high cephalosporin producing strain of Cephalosporium acremonium with a plasmid containing the gene REXH has significantly increased the titre.


A number of human proteins, such as insulin, human growth hormone, bone growth factor, alpha, beta and gamma interferons, interleukin-2, tumour necrosis factor, tissue plasminogen activator, blood clotting factor VIII, epidermal growth factor, granulocyte colony stimulating factor, erythropoietin, etc., are being produced through recombinant micro-organisms.


C. DNA MANIPULATION

In vitro DNA technology was used to increase the number of copies of a critical pathway gene (operon), as for example the production of threonine in Escherichia coli, at rates 40 to 50 times higher than usual.

Wednesday, July 4, 2007

GENETIC IMPROVEMENT OF FERMENTATION PROCESSES

The genome of the organism ultimately controls its metabolism. Although improved fermenter engineering design and optimal cultural conditions can quantitatively enhance the microbial products, this will only be up to a limit. Genetic improvement of the organism is fundamental to the success of fermentation technology. Mutation and recombination are the two ways to meet this end.

A. MUTATION


A certain amount of mutational change in the genome occurs as a natural process, though the probability is small. Exposing a culture of a micro-organism to UV light, ionising radiation or certain chemicals, enhances the rate of occurrence of mutations. But it is a tremendous task for the industrial geneticist to screen the very large number of randomly produced mutants and to select the ones with the desired qualities.

The synthesis of a number of products of cell metabolism is controlled by a 'feed-back inhibition'. When a compound reaches a particular level of accumulation, its synthesis is stopped. Synthesis starts again when the level of the compound falls below the specific level. If a mutant is produced, in which the feedback signalling is suppressed, the product is synthesised continuously. By such a manipulation, a high producing strain of Corynebacterium glutamacium was developed to recover very high quantities of lysine. Such strains that do not produce controlling end products are called auxotrophs.

B. RECOMBINATION

Recombination is defined as any process that brings together genes from different sources.

A strain of Brevibacterium flavum is a high producer of lysine, but is limited by its poor capacity to absorb glucose. Another strain of the bacterium, which is an efficient absorber of glucose but which does not produce lysine, was used to develop a recombinant strain, through protoplast fusion. The new strain utilises high levels of glucose and yields higher levels of lysine.

A gene for the synthesis of phenylalanine was transferred to a chosen strain of Escherichia coli, which was a non-producer, but a good experimental and production tool.

Transformation of a high cephalosporin producing strain of Cephalosporium acremonium with a plasmid containing the gene REXH has significantly increased the titre.


A number of human proteins, such as insulin, human growth hormone, bone growth factor, alpha, beta and gamma interferons, interleukin-2, tumour necrosis factor, tissue plasminogen activator, blood clotting factor VIII, epidermal growth factor, granulocyte colony stimulating factor, erythropoietin, etc., are being produced through recombinant micro-organisms.


C. DNA MANIPULATION

In vitro DNA technology was used to increase the number of copies of a critical pathway gene (operon), as for example the production of threonine in Escherichia coli, at rates 40 to 50 times higher than usual.

TYPES OF CULTURE SYSTEMS

A. BATCH PROCESSING OR CULTURE

At about the onset of the stationary phase, the culture is disbanded for the recovery of its biomass (cells, organism) or the compounds that accumulated in the medium (alcohol, amino acids), and a new batch is set up. This is batch processing or batch culture.

The best advantage of batch processing is the optimum levels of product recovery. The disadvantages are the wastage of unused nutrients, the peaked input of labour and the time lost between batches.

B. CONTINUOUS PROCESSING OR CULTURE


The culture medium may be designed such that growth is limited by the availability of one or two components of the medium. When the initial quantity of this component is exhausted, growth ceases and a steady state is reached, but growth is renewed by the addition of the limiting component. A certain amount of the whole culture medium (aliquot) can also be added periodically, at the time when steady state sets in. The addition of nutrients will increase the volume of the medium in the fermentation vessel. It is so arranged that the increased volume will drain off as an overflow, which is collected and used for recovery of products. At each step of addition of the medium, the medium becomes dilute both in terms of the concentration of the biomass and the products. New growth, stimulated by the added medium, will increase the biomass and the products, till another steady state sets in; and another aliquot of medium will reverse the process.

This is continuous culture or processing. Since the growth of the organism is controlled by the availability of growth limiting chemical component of the medium, this system is called a chemostat. The rate at which aliquots are added is the dilution rate that is in effect the factor that dictates the rate of growth.

The events in a continuous culture are:

a) the growth rate of cells will be less than the dilution rate and they will be washed out of the vessel at a rate greater than they are being produced, resulting in a decrease of biomass concentration both within the vessel and in the overflow;

b) the substrate concentration in the vessel will rise because fewer cells are left in the vessel to consume it;

c) the increased substrate concentration in the vessel will result in the cells growing at a rate greater than the dilution rate and biomass concentration will increase; and

d) the steady state will be re-established.

Hence, a chemostat is a nutrient limited self-balancing culture system, which may be maintained in a steady state over a wide range of sub-maximum specific growth rates.


The continuous processing offers the most control over the growth of cells.

Commercial adaptation of continuous processing is confined to biomass production, and to a limited extent to the production of potable and industrial alcohol.

The steady state of continuous processing is advantageous as the system is far easier to control. During batch processing, heat output, acid or alkali production, and oxygen consumption will range from very low rates at the start to very high rates during the late exponential phase. The control of the environmental factors of the system becomes difficult. In the continuous processing, the rates of consumption of nutrients and those of the output chemicals are maintainable at optimal levels. Besides, the labour demand is also more uniform.


Continuous processing may suffer from contamination, both from within and outside. The fermenter design, along with strict operational control, should actually take care of this problem.

The production of growth associated products like ethanol is more efficient in continuous processing, particularly for industrial use.

Continuous culturing is highly selective and favours the propagation of the best-adapted organism in culture.

A commercial organism is highly mutated such that it will produce very high amounts of the desired product. But physiologically such strains are inefficient and give way in culture to inferior producers--a kind of contamination from within.

C. FED-BATCH CULTURE OR PROCESSING

In the fed-batch system, a fresh aliquot of the medium is continuously or periodically added, without the removal of the culture fluid. The fermenter is designed to accommodate the increasing volumes. The system is always at a quasi-steady state.

Fed-batch achieved some appreciable degree of process and product control.

A low but constantly replenished medium has the following advantages:

a) maintaining conditions in the culture within the aeration capacity of the fermenter;

b) removing the repressive effects of medium components such as rapidly used carbon and nitrogen sources and phosphate;

c) avoiding the toxic effects of a medium component; and

d) providing limiting level of a required nutrient for an auxotrophic strain.

Production of baker's yeast is mostly by fed-batch culture, where biomass is the desired product. Diluting the culture with a batch of fresh medium prevents the production of ethanol, at the expense of biomass; the moment traces of ethanol were detected in the exhaust gas.

The production of penicillin, a secondary metabolite, is also by fed-batch method. Penicillin process has two stages: an initial growth phase followed by the production phase called the 'idiophase'. The culture is maintained at low levels of biomass and phenyl acetic acid, the precursor of penicillin, is fed into the fermenter continuously, but at a low rate, as the precursor is toxic to the organism at higher concentrations.

DESIGN OF INDUSTRIAL FERMENTATION PROCESS

The fermentation process requires the following:

a) a pure culture of the chosen organism, in sufficient quantity and in the correct physiological state;

b) sterilised, carefully composed medium for growth of the organism;

c) a seed fermenter, a mini-model of production fermenter to develop an inoculum to initiate the process in the main fermenter;

d) a production fermenter, the functional large model; and

e) equipment for i) drawing the culture medium in steady state, ii) cell separation, iii) collection of cell free supernatant, iv) product purification, and v) effluent treatment.

Items a) to c) above constitute the upstream and e) constitutes the downstream, of the fermentation process,

Fermenters/bioreactors are equipped with an aerator to supply oxygen in aerobic processes, a stirrer to keep the concentration of the medium uniform, and a thermostat to regulate temperature, a pH detector and similar control devices.

PHASES OF MICROBIAL GROWTH

When a particular organism is introduced into a selected growth medium, the medium is inoculated with the particular organism. Growth of the inoculum does not occur immediately, but takes a little while. This is the period of adaptation, called the lag phase.


Following the lag phase, the rate of growth of the organism steadily increases, for a certain period--this period is the log or exponential phase.

After a certain time of exponential phase, the rate of growth slows down, due to the continuously falling concentrations of nutrients and/or a continuously increasing (accumulating) concentrations of toxic substances. This phase, where the increase of the rate of growth is checked, is the deceleration phase.

After the deceleration phase, growth ceases and the culture enters a stationary phase or a steady state. The biomass remains constant, except when certain accumulated chemicals in the culture lyse the cells (chemolysis). Unless other micro-organisms contaminate the culture, the chemical constitution remains unchanged. Mutation of the organism in the culture can also be a source of contamination, called internal contamination

Microbial growth kinetics while fermentation

I.1. Lag phase
II.2. Acceleration phase
III.3. Exponential (logrithmic) phase
IV.4. Deceleration phase
V.5. Stationary phase
VI.6. Accelerated death phase
VII.7. Exponential death phase
VIII.8. Survival phase
From: EL-Mansi and Bryce (1999) ,Fermentation Microbiology and Biotechnology.


Typical Microbial Production Process

Create Production Host
2-4 weeks
Fermentation Process
3-20 days
Recovery Process/Formulation
2-10 days




The Fermenter -Design and Engineering aspects