eChapters

Food is the basic requirement for maintaining the life process. Plants supply the bulk of foods required for human and animal. With limited cultivable area and ever increasing pressure of human population, the demand for food is constantly rising which can not be alone met by conventional plant breeding technologies. Novel techniques like plant genetic engineering are gaining momentum for production of superior plants or yield enhancement of a species.  It has been observed that the most commercially successful application of recombinant DNA technology is in genetic engineering of plants, which led development of multinational seed companies deriving monetary benefit from genetically modified crop and food products. From production of herbicide resistant or insect pest tolerant plants to alter the inherent quality composition of human food, plant genetic engineering has established firmly the commercial viability of recombinant DNA technology.

Preternatural development of recombinant DNA technology has established genetic engineering in animals the most important field in application of biology for human benefit, from production of genetically modified animals to providing crucial technologies to medical science sector. On the basis of the nature of the target tissues, genetic engineering may target single cell line, particular tissue sectors or the organism as a whole. The purpose of transformation may be basic research involving elucidation of gene function, study effect of directed mutations, examination of physiological and developmental processes in animals or may be target oriented, such as production of proteins or metabolites in large quantities in a cell line, incorporating rDNA in the germline cells, gene therapy, use of rDNA in disease diagnostics, or production of transgenic animals for specific purposes.

Molecular markers or DNA markers are considered to be one of the most successfully applied component of molecular biology techniques that have relevance in almost every sphere of biology, from paleobotany to transgenic technology. In true sense, a marker is a characteristic of an individual that differentiates the individual from others. Morphological descriptions like cotyledon colour of Pea, eye colour of Drosophila, shape and size of fruits in summer squash etc. are examples of typical morphological markers. However, a single morphological marker is not sufficient for describing the uniqueness of an individual, for many pea plants will have green cotyledon or many Drosophila may have red eye. To define the uniqueness of an individual, we have to find a number of marker traits characteristic of that individual. Unfortunately, morphological variations are not sufficient to differentiate between a large number of individuals, or between groups or sub groups within a species, simply because the level of polymorphism is low. Besides, morphological characters or phenotypic expressions are affected by environmental changes, so stability of expression is low and sometimes uncertain.

While structural genomics aims to describe the protein structures coded by the genes present in the genome, functional genomics deciphers meaning of the coded information at transcriptome, proteome and interactome level. In the previous chapter we have seen how a gene can be identified by creation of mutants, genetic and physical mapping, and by sequencing the gene. Another source of possible gene structures come from genome sequence information, which by using computational algorithms identifies a number of ORFs that have the structural configuration of a gene. A third option of identifying a gene is identification of differences between wild type and mutant at RNA level, by analyzing the transcriptome. If we are able to identify differences in RNA expression pattern between these two, the information can be used to search back the gene sequences responsible for the differences. From proteome analysis inferences on expression of proteins and their interaction in the functional network of the cell with other proteins, DNA, RNA and cellular 

The primary target of genomics is identification and characterization of genes and gene products. Starting point of genomics may be a whole genome sequence, from which gene and protein structures can be predicted by computational and bioinformatics approaches (in silico genomics), or genes can be identified step by step starting from identification of a phenotype by induction and detection of mutation, construction of a genetic map demarkating the position of the character, physical location, identification of the gene, cloning and characterization of the gene or genome sequence by sequencing followed by expression analysis to correlate the phenotypic expression (in vivo genomics). Alternatively, genes can be identified by developing knockout mutants by random or site directed disruption of a reading frame and then determining the protein product as well as phenotypic expression.

One of the primary targets of genome analysis is to manipulate it at the level of genes, the units of inheritance. Genes, as explained earlier have distinct positions and sequence configurations in the genome which are expressed in the form of RNA or proteins controlling the functionality and identity of an organism. To understand the function of a gene several methodologies may be adopted. As genes have conserved sequences like promoters preceding the reading frame, initiation sequences, exon-intron junctions and end sequences, these features can be used to screen genome sequence to identify the regions containing genes. An open reading frame (ORF) is the sequence of a gene for which functions have been assigned, i.e., the sequence codes for a protein or RNA. On the other hand, an unassigned reading frame (URF) is a sequence which has structural features of a gene, but no function has yet been assigned to it.

The information that drives the process of life is encoded in the genome of the organism. Structurally defined, a genome is an organization of genetic information consisting of nucleic acids (deoxyribonucleic acid or ribonucleic acid). Arrangement of nitrogenous bases in the nucleic acid codes the information for execution of cellular processes. Four types of bases (Adenine, Guanine, Cytosine and Thymine) are present in deoxyribonucleic acid (DNA) while in RNA Uracil replaces thymine group of any three bases on transcribed RNA represent a codon. With four types of bases, sixty four types of codons can be formed. Genetic information encrypted in these codons is released in the form of arrangement of polypeptides consisting proteins via mRNA intermediate. This universal process of flow of genetic information from DNA to RNA to protein is known as the central dogma of life. The whole set of information coded in 64 codons, out of which 61 codes for one or more amino acids (building block of polypeptides/proteins) and three indicating where to stop is called the book of life or genetic code.

Process of life of an organism is defined, driven and depicted by its genetic constitution, or the genome. A genome is a collection of genetic material present in the cell as nuclear or organelle DNA. To be precise, it is the sum of all single copy genetic materials present in the cellular subcompartments. Thus a diploid organism having two copies of each chromosome contains genetic material constituting two copies of the genome, while a gamete of the same organism contains single copy of the same. Organelle genome is shared by chloroplast and mitochondria. In these two organelle genetic material is present in single copy per organelle, although many copies of organelle ensures that a cell harbours many copies of mitochondrial or plastid genome. Unraveling the structure and function of the genome is, therefore, the central objective of biological science. Technologies that would help to understand the basis of genetic, biochemical and physiological processes are pivotal to execute the knowledge for the betterment of mankind and environment.

Medicinal and aromatic plants have been known for millennia and are rich source of therapeutic and cosmetic agents for the prevention of health diseases and critical skin ailments. India is the rich source for the medicinal and aromatic plants and export many plant parts for the research work to the many countries as raw materials. The major market in the world for essential oils is the United States, followed by Japan and Europe. However, production continues to be concentrated in Europe, with seven of the world’s largest essential oil processing firms. In the United States, the major users of essential oils are the soft drink companies. Japan accounts for 10 % of the world demand. The Canadian market is domi­nated by the United States perfume and flavouring industry. France is dominating the world perfumery market, and Switzerland is one of the leaders in the pharma-ceutical field. Britain and India are known to feature strongly in the flavouring sector. The essential oil industry is characterised by a number of difficulties, including lack of stable quality, inconsistent supplies, and variability of active ingredients owing to environmental effects. Even though according to World Health Organization, herbal medicines are lucrative globally and represent a steady high market value in every year.

Agarwood Oil

Biological Source : Wood of Aquilaria agalloch, Aquilaria crassna, A. Khasiana.
Family : Thymelaeaceae
Common names : Agarwood, Aloeswood, Eaglewood, Gaharu or Oudh.

Plant Introduction : Aquilaria is a fast-growing, archaic tropical forest tree, which occurs in South and Southeast Asia, from the foothills of the Himalayas to the rainforests of Papua New Guinea. Agarwood is a fast growing, evergreen tree, that normally grows to 18 - 21 m but sometimes up to 40 m in height. It bears sweetly-scented, snow-white flowers. The trees occasionally become infected with a parasite mould and begin to produce an aromatic resin in response to this attack. As the fungus grows, the tree produces a very rich, dark resin within the heartwood. The tree grows in natural forests at an altitude of a few meters above sea level to about 1000 meters, and it grows best around 500 meters. It can grow on a wide range of soils, including poor sandy soil. Seedlings need a lot of shade and water. Trees grow very fast, and start producing flowers and seeds as early as four years old.

A concentrated, hydrophobic liquid containing volatile aroma compounds obtained from aromatic plants is referred to as essential oil. It is so-called to indicate that the oil is the fragrant essence of the plant from which it is extracted generally through various distillation methods. The economics working behind essential oils has three components. First, the cultivation of herbs and plants used to extract essential oils; second, the actual process of extraction of the oils; and, third, the marketing and actual sale of these oils. But the major emphasis is often given to the agrotechnology, since the crop yield and yield of the essential oil depends on the quality of cultivation. The cost of cultivation of herbs in the developing countries per hectare is estimated at US $ 600 to 1100. This cost mainly comprises labour cost and as such this industry is uniquely suitable only for developing nations. The revenue from essential oils after the extraction per hectare is estimated to be around US $ 2500 to US $ 6500. According to industry sources, more than 3,500 essential oils are known. Out of these, some 400 are used for commercial purposes on a regular basis. These are obtained mostly from agricultural plants, some from wild plants that may be seasonal or perennial. Oil can be extracted from any part of plants—from leaves, flowers, fruits, roots etc. Whatever the source of essential oils, they have complex compositions, containing alcohol, aldehydes, ketones, phenols, esters, ethers and turpenes in varying proportions.

Plant oils are obtained from their plant hosts through a variety of processes commonly called Extraction process. Essential oils are extracted from different parts of the plants. The quality and quantity of the oil is mainly depends on the method of extraction and the quantity of the raw materials used. For example, Lavender is extracted from its flowers, Orange from the rind of its fruit, Frankincense from the resin of its tree, Cinnamon from its bark, Pine from its needles, clove from flower buds and so on. Production of a good quality essential oil, the cultivation factors also play a vital role like soil quality, climatic and geographic conditions etc. As example, Jasmine flowers must be picked by hand at dawn on the very first day they open. A Sandalwood tree must be 30 years old and 30 feet high before it is ready to produce its best quality oil. Further the quantity of the plant materials are also matters for the price and quality of the essential oil. As an example, it takes roughly 12,000 Rose blossoms to produce 5 ml of Rose. Whereas it take 100 kilos of Lavender leaves to produce 3 liters of Lavender. As a result Rose is roughly 24 times more expensive than Lavender.

The concern for nature and the focuss for all things which are basic and natural has been spearheading to a green movement of everything natural and nature-based consumer products all over the world. God has given diseases and remidies also in the nature only we have to properly find out. In today’s world of consumer boom, the role of essential oils has increased many folds. Uptil now known applications of essential oils, more and more areas are opening up which will benefit the industry. Use of essential oils in therapeutics is becoming popular in India, China, Japan and European countries. Aromatherapy involves the use of essential oils and aromatics derived from plants to cure diseases. These plants are known as aromatic plants. Aromatic plants possess odorous volatile substances which occur as essential oil, gum exudate, balsam and oleoresin in one or more parts, namely, root, wood, bark, stem, foliage, flower and fruit. The characteristic aroma is due to a variety of complex chemical compounds. The term essential oil is concomitant to fragrance or perfumes because these fragrances are oily in nature and they represent the essence or the active constituents of the plants. They are called volatile or ethereal oils as they evaporate when exposed to air at ordinary temperatures. Essential oils are highly concentrated, low volume, high value products.

The North Eastern Region of India possesses unique potential for fishery activities. The region represents all agro-climatic zones ranging from warm water drainage system to cold water conditions facilitating freshwater fishing and is identified as the hot spot of freshwater biodiversity. So far about 267 fish species have been reported to be present in the region, which is approximately 33.13% of the total Indian fresh water fishes (Munilkumar and Nandeesha, 2007). The total land coverage of the region is 2.55 lakh sq. km. which is about 7.76% of the country, out of which 70% is hilly terrain (Mahanta and Tyagi, 2003). The main fishery resources of the region comprises of rivers (18,968 km), reservoirs (8,019 ha), beels/lakes (1,48,491 ha) and tanks and ponds (42,782 ha) (Ghosh and Ponniah, 2008).

The North Eastern Region of India with its large fish eating population, needs planned sustainable development of its existing as well as potential fishery resources. A challenging environment for fisheries development prevails in the region by way of very high demand and price of fish. Given the socio-economic conditions and vast fishery resources of the region, there is a strong chance for diversion of work force to productive sectors like fisheries thus transforming the economy of the region and further socio-economic development.

Introduction

Aquaculture has been shown to offer high potential to fill the gap between supply and demand for fish and fish products to mitigate the problems of malnutrition with ever increasing world population. Globally, aquaculture has been growing rapidly in the last decade, approximately at 10-15% per year. The total aquaculture production, which was 26.7 million metric tonnes in 1996 increased to 37.5 million metric tonnes in 2001, in which tropical countries have been particularly contributing well, with the Asian component exceeding 80% (Ayyappan and Jayanthi, 2004).

The country has varied and enormous aquatic resources (coastline: 8041kms, EEZ: 2.02 million sq. km., river & canals: 171334 km., brackish water area: 1.422 million ha., reservoirs: 2.050 million ha., ponds: 2.855 million ha., beels & oxbow lakes: 0.788 million ha) (Gopakumar, 2000). The North-Eastern region of India is endowed with rich diversity of aquatic and biotic resources, which needs judicious and scientific exploitation for diversification of farm practices so as to mitigate the problem of demand and supply of quality food.

Introduction

Pearls have been favourite jewel of humanbeing since ancient times. Pearl is a natural gem and is produced by living organisms, the pearl oysters and mussels (Molluscs), unlike other precious stones. It is perhaps, the only gem that does not require the treatment by lapidary. According to our Indian system of gemmology, of the nine maharatnas (Heera, Mukta, Manikya, Pravala/Munga, Gomeda, Indra-neela, Vaidurya, Pushyaraga, and Panna) pearl (Mukta) is only next to diamond (Heera). The science of pearl culture has not been widely popular, however, the art and trade form has reached the zenith.

With the turn of the last century, the demand for pearls increased, but their supplies from the existing fishing grounds have diminished due to overexploitation and pollution. Such a situation necessitated tremendous research attention in the following decades with support from state and trade sectors, the world over. This led to the evolution of culture pearl technology as a booming aquaculture enterprise in Japan and China. These two countries have a monopolistic control over pearl trade.

The aquaculture sector showed an overwhelming growth of 468% during the last two decades and is presently playing a key role in the changing Indian economic growth. The contribution from aquaculture is 21.6% by volume and 49.3% by value to the total fisheries exports. Inland fisheries sector had shown consistent growth of over 5% per annum over the period of 1999-2005. High demand of aquaculture products in the world has forced the aquaculturist to change the culture system from extensive to intensive. This has led aquaculturist to lose millions of dollars due to fish mortalities associated with fish disease and related conditions. Out break of disease has been considered as a major stumbling block in intensive aquaculture practices.

Disease is a very complex interaction between three important factors, namely the susceptible fish, the disease causing agents (pathogen) and the environment. These three factors are most important and must be considered in any fish disease outbreak. The environment in which the causative agent of diseases and their host fish interacts, may favour one or the other. Changes in the environment, whether natural or artificial, may shift the balance from one side to the other and will often determine whether the host will survive or succumb. Understanding and managing the stress and their causative factors are thus the key factors for successful aquaculture.

Introduction

Packing and transportation forms an important component in fish trade whether live fish, fish seed, fresh fish, iced fish or dried fish. There are few reasons necessitating packing and transportation.

    ·    The movement of fry/juvenile for stocking into farms or restocking into natural environment.
    ·    The movements of fish to markets for sale selling/consumption.
    ·    The movements of ornamental aquarium live fish for trade.
    ·    The movement of aquatic animals for research purpose.

Availability of quality fish seed is the critical and basic input for successful fish culture operations. Till the sixties, a major part of the seed required for culture was being collected from the riverine sources, which had several disadvantages. Indian major carps viz. Catla, Rohu & Mrigal and Chinese carps viz. Silver carp & Grass carp mature in the pond but do not spawn or lay eggs in standing waters. Usually they breed or spawn naturally in flowing rivers during monsoon months. In artificial breeding, certain inducing agent (hormone) is injected to fish for successful spawning.

In India, the first successful induced breeding of carp was achieved through use of pituitary hormone in 1957. Increased seed production of fish today is a direct result of improved technologies of breeding, hatching and rearing.

Three decades ago, earthen “pit” hatcheries were used for hatching eggs around bunds. Today large commercial hatcheries exist, where all activities such as raising of brood stock, breeding and fry rearing can be undertaken. This has certainly marked the growth of the industry. Commercial Chinese hatchery facilitates not only large-scale production of fish seeds but also improves the survival percentage of seed.

Background

In simple term, what agriculture is to land aquaculture is to water and can be defined as the art, science, and business of cultivating plants and animals in water. Considering scope of inland aquaculture in the present discussion would be limited mostly to grow desirable fish/prawn (hence forth termed as fish) in fresh water ponds and to some extent to their seed production in hatcheries. The important activities in aquaculture includes deliberate interventions during the rearing process or life cycle of the stock, management of the culture system and production process so as to increase survival and production of stock. Since, the main goal of aquaculture is to maximize the fish production per unit land/water resources per unit time which primarily depends on the degree of management and intervention. The important forms of intervention and management practices are regular stocking, fertilization, feeding, liming etc. The degree of care taken or effort put in these aspects would determine the level of production.