eChapters

Introduction

Cereal crops are of global importance and the lifeline of the humane civilization. Nutritionally, they are important sources of dietary protein, carbohydrates, Vitamin B complex, Vitamin E, iron, trace minerals and fiber. Major cereal crops produced worldwide include wheat, rice, maize and millets. Among them, wheat, maize and rice together comprise at least 75% of the world’s grain production. More than 70 per cent of the cereal crop produced in developed countries is fed to livestock whereas, in developing countries, 68-98 per cent of the cereal crop is used for human consumption (Chaven and Kadam, 1989). Rice is the most important and widely cultivated crop in the world and is the staple food for about 60% of the world’s human population. It is basically a crop of humid tropics, but it varies widely in physiological adaptability, hence grown successfully both in tropical and temperate conditions. Wheat (Triticum aestivum L.) is the another important and widely cultivated food crop in the world and important rabi crop of our country. In India, wheat is the second stable food crop after rice which contains more protein than any other cereals. Maize is an important kharif cereal in hilly, sub-mountained and even in plain regions of our country where it forms staple diet of the people.

The global importance of cereal crops to the human diet and moreover to the written history of man and agriculture cannot be overstated. Cereal grains are the fruit of plants belonging to the grass family (Gramineae) most important group of food crops produced in the world. Nutritionally, they are important sources of dietary protein, carbohydrates, complex vitamin B, vitamin E, iron, trace of minerals, and fiber. It has been estimated that global cereal consumption directly provides about 50 per cent of protein and energy necessary for the human diet. Some cereals, notably wheat, contain proteins that form gluten, which is essential for making bread. Major cereal crops produced worldwide include wheat, rice and maize. Wheat, rice, maize, sorghum, and millet are produced in large quantities in India.

Integrated Disease Management

Disease control is, managing the plant disease severity below the economic threshold following economically viable, eco-friendly and easily operational procedures. The position of IDM in the overall agricultural system indicates clearly that it is an important sub-system and interacts with other such systems that fall under the cropping system.

Introduction

Vegetables contain large quantities of minerals, vitamins and essentials amino acids required for normal functioning of human metabolic processes and plays an important role in food and nutritional security. India is the second largest vegetables producing countries next to China and occupies 7.981 million ha area with an annual production of 129.077 million tons (Anonymous, 2009). Due to expanding urbanization and deforestation, most of the natural resources are depleting and shrinking with a rapid pace. With the limited land and depleting water resources, India has to feed the burgeoning population without destroying the ecological balances. In this context, we must have to look after the vertical expansion through increase in the intensity, diversification, mixed and intercropping of vegetable crops. Besides this, vegetables are also more prone to insect pests and diseases mainly due to their tenderness and softness as compared to other crops.

Vegetables not only provide nutritional security but also income security to small and marginal land holders growing vegetables in the hinterlands of urban markets and dollar earners in global markets. India is endowed with favorable tropical, subtropical and temperate climate making it conducive for producing high quality vegetables round the year in one or other part of the county. As far as production is concerned, India is in number two in the world after China. But, as a matter of fact, in terms of productivity and subsequently for per capita availability, we are still lagging behind many countries of the world. Per capita availability of vegetables is 210-gm/capita/day against 300 gm/capita/day recommended by ICMR. There is urgent need to increase the productivity of vegetables in our country to feed the increasing population.

Introduction

Mites and ticks belong to acarology an offshoot of animal science Zoology a common man mites and insects look alike but former can be easily differentiated by absence wings and antennae and presence of four pairs of legs in most farms. Parasitic mites and ticks live on domestic animals, pets and poultry (Baker and Pritchard, 1960; Baker and Tuttle, 1994; Krantz and Walter, 2009). They are responsible for inducing paralysis, host intoxication, irritation carriers of pathogens and other health disorders to them. The severe bites of ticks cause tick toxicosis producing deep wounds, which bleed and are open to secondary infection. Parasitic mites are among the serious pests of the bees the world over. At times they cause mass mortality of brood and put a heavy loss to apiculture industry. Both solitary and social bees that are important pollinators are parasitized by Messostigmatid mites reducing their life span and foraging efficiency. They parasitize silkworm larvae, pupae and adults. By their toxication silkworms die in few hours. Man himself is not free from the attack of mites. Human itch mite, scabies mite and pyroglyphid mites causing allergic asthma are notorious examples of parasitic mites on man. Dancing on the head of a pin’ is definitely impossible for most animals. However, a large number of mites, the smallest Arachnida could do it. The size of these creatures ranges from a fraction of a millimetre, invisible to the naked eye, to about one centimetre in ticks.

Introduction

India is bestowed with a wide variety of agro-climatic conditions and has unique comparative advantage for growing almost all horticultural crops (fruits and vegetables) in the country. Horticulture has remained as a major sub-sector of agriculture and forms an integral part of food and nutritional security, employment generation and enhancing the farm income. The growing economic importance of these crops could be attributed to increasing demands in domestic as well as in overseas market. The total area under fruit is 6.10 million hectare and total production is 68.47 million tonnes which accounts for 11 per cent of the world total fruit production (Anonymous, 2009).

Since, there is a limited scope to enhance the horticultural production in traditionally growing areas, emphasis has to be laid on harnessing the potential of vast wasteland and dry land spread over more than half of the geographical area of the country. Dry and rainfed area constitutes a major share of wasteland and untapped land resource where several indigenous horticultural crop species can be commercially exploited to strengthen the agro-based industries and providing the livelihood to the masses.

India is the second largest producer of fruits and vegetables. The area under fruits alone is 32.05 lakh hectares with a production of 329.55 lakh tones. Jammu and Kashmir is the most important horticultural state with unique temperate fruit and European type of vegetable crop production. The total area during 2005-06 under the fruit crops in the state was 2.83 lakh hectares with a production of 1504.01 thousand metric tones (Table 1). Almost 45 per cent of economic returns under agriculture sector are contributed by horticulture, thereby adding 7 per cent to the Gross State Domestic Product (Anonymous, 2007). Among the fresh and dry fruits, apple and walnut, respectively, are the most important fruit crops in the Jammu and Kashmir. However, there is a wide gap between the present yield and the potential yield of fruits. One of the limiting factors for this gap in fruit production is severe attack of arthropod pests and diseases affecting yield and quality. Unlike agricultural crops, horticultural crops are grown as perennial monocultures, therefore, harbor the insect pest and disease problems that are entirely different and complex in nature. These two factors impose huge losses upon horticulture in terms of alleviated production, reduced quality and cost of management.

Introduction

Fruits, oldest forms of food known to man, are not only good source of nutrition to the body but also have medicinal property and treat ailments. Fruits like apple, lemon, orange and pomegranate aid in proper functioning of the heart. Nutrients in apple, date and mangoes sharpens memory, prevents exhaustion, hysteria, insomnia and mental tension. All berries are rich in iron, phosphorus and sodium which are essential minerals for blood building and nervous system strengthening. Liver ailments, indigestion and rheumatism can be cured by the use of Lemons. Watermelons are good kidney cleansers. Pineapple, pomegranates help in soothing inflammation of nose, throat, fever and other chronic or bronchial ailments. Grapefruit juice is an effective aid for common cold. Fresh and ripe fruits like grapes, apples, bananas and figs are good for all brain deficiencies. Even the kernel of walnut is a helpful remedy for weakness of the brain.

Introduction

Plant parasitic nematodes occur wherever plants grow. These nematodes are referred to as plant pathogenic when they cause crop losses by direct injury to roots, stems, leaves and seeds. A large number of plant parasitic nematodes have been found associated with fruit crops in all over India but pathogenisity has not been proved for all. Most of commonly occurring nematodes belong to genera Meloidogyne spp., Pratylenchus spp., Rotylenchulus spp., Hoplolaimus spp., Tylenchulus spp., Xiphinema spp., and Radopholus spp. etc. The nematodes damage the crops not only by feeding on plants but also by interacting with various other organisms like fungi, bacteria and viruses etc. Estimated overall average annual yield loss of the world’s major crops due to damage by plant parasitic nematodes was 12.3%. Estimated annual crop losses in India have been accounted to Rs. 242.1 billion. The crop losses due to nematode pests are not only in the form of reduced plant growth and yield but are also in the marketable quality of the produce.

Introduction

Walnut is the oldest cultivated fruit in the world (Ozkan and Koyuncu, 2005). Juglans regia L., the Persian walnut, is probably native to a wide region extending from the Carpathian Mountains across Turkey, Iraq, Iran, Afghanisan and southern Russia to northern India. Species of walnuts, genus Juglans, are found in the forests of the eastern and southern parts of the USA, in Mexico and Central America, the Andean parts of Southern America from Columbia to Argentina, the West Indies, Japan, China, southern Asia from India to Turkey and southern Europe to the Carpathian Mountains of Poland (McGranahan and Leslie,1990). The trees are large and tall with round headed canopy. The rather smooth, light coloured, large nuts are free of the hull at maturity. Shell thickness varies from paper–thin to very thick and hard. The Greeks probably obtained J. regia from Persia from where, the seeds were transported to Rome, where they were known as Jovis Glans, or Jupiter’s acorn, from which comes Juglans. From Italy, it spreaded to what is now France, Spain, Portugal and southern Germany. Trees of the species were in England by 1562, and were bought to America by the earlier settelers. The American colonists are said to have called the species English walnut to distinguish it from the eastern black walnut, J. nigra. It is generally prefer to call it Persian walnut as it is associated with the place of origin bit commercially, it is called as English walnut. The term Carpathian walnut is sometimes used to refer to cold hardy Persian walnuts (Forde and McGranahan,1996). The other important species are J. ailantifolia Carr. syn. J. sieboldiana Maxim. (Japanese walnut), J. nigra L. (American black walnut), J. cinerea L. (butternut), J. microcarpa Berlander (Texus Black walnut), J. major Heller (Arizona black walnut), J. californica S. Wats (Southern California black walnut) and J. hindsii Jeps. (Northern California black walnut).

Introduction

The cultivated strawberry (Fragaria x ananassa Duch.), octoploid in nature is a result of hybridization of two American species, the Chilean F. chiloensis and Virginian F. virginiana. The name strawberry does not incidentally, seems to have anything to do with the practice of putting straw around the plants and long predates their cultivation. It probably comes from ‘strayberry’ for the runners cause young plants to stray from the parent. Strawberry (Fragaria x ananassa Duch.) is one of the most important soft fruits, and its cultivated area has increased significantly during the last few years in sub-tropical areas despite of its temperate nature. Being a high input requiring crop, the profit of margin is reduced in sub-tropical areas due to lack of runnering caused by high temperature and high light intensity. Strawberry is one of the most popular rosaceous vegetable used as preferable fruit has a great value for local consumption as well as for export. Attractive appearance, unique taste, availability of fresh fruits during the period of fresh fruits scarcity in the market, short duration nature, high return per unit area, twice earnings in a year (through fruits during spring and runners during autumn) and wider acceptability of its processed products, the strawberry has become a choicest crop of growers of sub tropical areas, and being grown commercially around the various cities of northern India. Although it is a quick and high return giving fruit crop, but the margin of profit in strawberry cultivation under sub-tropical areas is greatly reduced due to regular annual investment (Rs. 0.60 lakhs/ha) by the growers for the procurement of runner plants in every planting season (October) from temperate areas, as high temperature (>35⁰C) and intense light following fruit harvesting restrict the runnering as well as survival of mother plants in these areas (Sharma and Yamdagni, 2000).

Introduction

Increased food production is required to ensure food security in the face of the rising world population. The strategy will include cropping of the rising world population. The strategy will include cropping of the new geographical areas and increase in the per hectare crop yields, through better crop management; losses of the food in storage will have to be minimized.

The food grains and their products are susceptible to deterioration by a variety of biotic and abiotic factors. These include the high temperature, moisture, micro-organisms, mites, insects and rodents. Together they account for loss of about 25% of food grains worldwide. The losses are highest in the tropical and sub-tropical areas where conditions are relatively conductive for rapid growth and multiplication of the organisms that cause damage to the food materials, especially insects. Reliable pesticide and storage techniques are required for limiting the damage to food grains in storage in most of the developing countries of the areas.

Introduction

According to an estimate by World Health Organization (WHO), about one million cases of pesticides poisoning and 20, 000 deaths occur every year due to pesticide residues in food chain including cereals, pulses, vegetables, fruits, oils, milk and milk products (including mother’s milk), fishes, poultry, meat and water. At global level, chemical pesticide worth US$ 30 billion is being used annually for the management of diseases and insect pests. In spite of this, epidemics of diseases, infestations of insect pests and colonization by weeds results in significant losses in agriculture production worldwide. As a result of crop improvement programs to incorporate resistance to pests, devastations epidemics and infestations are rare. Nevertheless, pests continue to exert a heavy toll in terms of yield losses. The last global estimate of yield losses due to pests, made crops like rice, wheat, maize, cotton, soybean, barley and coffee were equivalent to approximately US $ 250 billion annually during the period the period 1989-1990 (Table 1). Since these eight crops occupy only half of the global cropped area, yield losses due to all pests on all crops would be much high. The estimates indicate that 42 per cent of the total global attainable production of the eight major crops is lost due to pests, of which 16, 13 and 13 per cent losses are due to insects, diseases and weeds, respectively. Post harvest losses are estimated to cause an additional 10 per cent loss. Developing countries incur higher losses than industrial countries. (Table 2).

Introduction

Diffusion is the process by which an innovation is communicated through certain channels over time among the members of a social system (Rogers, 1962, 1983, 1995, 2003). It is a broader term, which encompasses unplanned as well as planned and directed spread of an innovation. Dissemination is planned and directed diffusion of an innovation. In case of Integrated pest management which is a complex sort of decision making process, many technology transfer approaches were/are tried for dissemination of IPM technologies to farmers. These include radio, television, print media, training and visit, field days, demonstrations, extension field visits and participatory learning approaches like participatory technology development (PTD) and farmers field school (FFS). While Training and Visit (T&V) system failed, Farmers Field School (FFS) approach of educating farmers followed by ‘Community IPM’ activities and ‘Farmers to Farmer’ approach registered success in IPM implementation in developing countries (Matteson, 2000).

Introduction

Plant protection in India is mainly based on use of pesticidal chemicals. Chemical control is one of the effective and quicker methods in reducing pest population where farmer gets spectacular results within a short time. However, indiscriminate use of pesticides results in a series of problems in the agricultural ecosystem mainly the development of resistance in insects to insecticides, resurgence of treated population, environmental contamination and residue hazards. Destruction of natural enemies of insect-pests, expenses on pesticides etc. contributed to a new way of thinking concerning pest control practices i.e. integrated approach of pest control. IPM was first proposed by Stern and his collegues for integration of biological and chemical control measures. This is not altogether a new concept; it was practiced before the advent of modern chemicals. The date of sowing the crop were carefully studied to ensure that crop was not being planted when it would encounter severe pest problems, cultural practices such as ploughing after harvest, timely weed control, well timed irrigation and reduced use of fertilizers all contributed to reduce pest population. Most of these methods were curtailed when modern pesticides become available it was thought that these chemicals alone could control pests, but now we know that this is not possible and a single method of approach in pest control is not feasible. An integrated approach of pest management (IPM) was devised on the principles of managing the pest rather than eradicating them. IPM is a broad ecological approach for managing pest problem encompassing available methods and techniques such as cultural, biological, mechanical and chemical in a compatible manner to reduce and maintain the pest problem below the economic injury level.

The World Trade Organization (WTO) is an international organization designed to supervise and liberalize international trade. It was established on 1^st January 2005 and is responsible for making and enforcing rules for trade between nations. WTO marks a major change in global trade rules. As an organization, it replaces the General Agreement on Tariffs and Trade (GATT), which had been in existence since 1947. The Eighth Round of Multilateral Trade Negotiations under GATT, which started in Uruguay in 1986, was concluded in 1994, leading to the creation of WTO as the new permanent international trade organization. The role of WTO is much more extensive than that of GATT, which dealt with trade in goods. Apart from goods, the two other broad areas that WTO covers are services and intellectual property, which previously belonged to the domestic domain. Accordingly, WTO administers not only the Multilateral Trade Agreements (MTAs) in goods but also the General Agreement on Trade in Services (GATS) and the Agreement on Trade Related Aspects of Intellectual Property Rights (TRIPS), which came into existence with WTO. All the agreements annexed to the Agreement establishing the WTO were signed as part of a package deal. Member countries did not have the option of choosing some and rejecting others. Another important difference with the erstwhile GATT is that WTO has a stronger compliance mechanism than did GATT-a member’s failure to meet the obligations can invoke retaliation across agreements and sectors.

Introduction

Impact of WTO or Globalization of Indian agrarian sector claims to extend benefit of trade even to widely spread villages. In India, a sizeable number of rural masses are self-employed and able to produce what is needed just for their livelihood. They cannot be brought into market exchange relationship. So, there is every possibility of their being deprived of expected benefits. Globalization, rather, will widen the disparity between who are associated with market and who are not. Developed countries seem to have held globalization as a powerful weapon in their hands. They are stressing on opening up of national boundaries for movement of their goods and capital to developing countries but they are putting lot of restrictions on technology and labour movement, which can be far more beneficial to developing countries.

Variation is inherent in almost all biological populations. In any science, research work, that is, the study and explanation of development changes in a phenomenon can be theoretical as well as experimental. Thus, in order to have solution to a problem the need arises to collect relevant information (called data) their analysis and interpretation through appropriate statistical tools. Statistical analyses help the biologists to draw appropriate conclusions. For instance, in Integrated Pest Management (IPM) the entomologists are primarily concerned with the estimation of insect-pest population, its distribution pattern over time and space, its relationship/fluctuation in population with the prevailing weather parameters and ultimately its control measure through the judicious use of chemicals, biological control agents and resistant varieties etc. There are two broad modes of collection of data:

Introduction

The contribution of agrochemicals in improving food security and human health cannot be undermined. They are, however, like a double-edged weapon; their indiscriminate use could result in a serious threat to the sustainability of the agricultural production system and human health. Though their long-term effects on environment and human health are yet to be fully understood, the short-term adverse effects of their indiscriminate use became apparent soon after their invention during the World War II. Many insect pests have developed resistance to chemical pesticides, and a number of beneficial insects that are natural enemies of the pests have disappeared. Realizing these threats, the scientific community has been proactive and developed safer alternatives using flora and fauna as substitutes for chemical pesticides. These alternatives are claimed to be as effective as chemical pesticides. Experimental evidences indicate that these provide effective protection against pests when used in conjunction with other methods of pest control, including chemical pesticides. The strategy is often referred to as Integrated Pest Management (IPM). Since the adoption of IPM as a cardinal principle of plant protection in 1985, India has devised and implemented many IPM programmes encompassing research, extension and education with the objective to reduce the use of chemical pesticides, improve farm profitability, conserve environment and reduce adverse effect of pesticides on human health. Their effect is revealed in considerable reduction in pesticide-use, particularly during 1990s. The purpose of this paper is to provide a perspective on the IPM with emphasis on food security and safety.

Need of Bioinformatics

Bioinformatics, an emerging area offering a fundamental tool to the scientific community, to speed up the research, application and commercialization of biotechnology. In fact the best thing, which has happened towards the end of the 20^th century and in the 21^st century, is the marriage between biotechnologists and information technologists leading to the growth and development of this field. India took a lead as early as in the 1980s but more precisely from 1986 onwards by establishing a strong base of Bioinformatics with the necessary infrastructure. As a result one has seen major breakthroughs in biology and the growth of biotechnology has been phenomenal in the last decade, especially with the most outstanding technological breakthrough of the 20^th century wherein the draft human genome sequence was completed in 2000 and now the genetic code is completely sequenced. This has provided the worlds scientific community information on the vast sequence and structure of the Genomes, the crystal structures and there is an increasing dependence on computational approaches. Biotechnology has emerged as a front-line area with vital significance in unraveling secrets of life, particularly in the studies of new biology and biotechnology. The genomic revolution has underscored the central role of Bioinformatics in understanding the very basic of life processes.

Introduction

In this era of international competitiveness of knowledge economy, there is an emergent need for identifying new knowledge streams likely to emerge for mapping the directions for transition of knowledge from industry to information technology. National Knowledge Commission, Government of India has undertaken a survey of agricultural sector for exploring and discovering the dynamic role of innovation of knowledge for growth and competitiveness and recommended for ascertaining the role of the Governmental factors as innovation enablers in development of Indian economy (Anon, 2006). The knowledge network and development of knowledge infrastructure in the field of information and communication technology lead for knowledge generation, knowledge transfer and it’s preservation as intellectual property right which will support for adoption of effective knowledge management practices and provide guidelines for envisioning the policy makers to formulate appropriate plans in the filed of research and development.

Introduction

The biological information that are being generated by research in modern biology worldwide is so huge that it is not possible to manage through conventional file keeping or simple computing. Secondly, analysis of these data certainly needs specific interfaces, software and management facilities. Therefore, such requirements to store, analyze and manage the biological information/data in an appropriate way has led to the origin of a new branch of science called “Bioinformatics”. Here, emphasis will be given on the disciplines of research mostly from which generation of data is made. Broadly, they can be classified as follows.

Introduction

Nucleotide and protein sequences construct the core of Bioiformatics. These biological sequences form complex and very large datasets. Various Statistical techniques have been used for analysis and extraction of precise information form small as well as large biological datasets. Evolution and natural selection makes biological sequences redundant and statistically biased. Once the mechanisms involved in such biases have been characterized, their analysis and systematic investigation become valuable tools for use in predicting the properties of other biological sequences. This biased nature results in relative codon usage value among the synonymous codons or Relative Synonymous Codon Usage (RSCU) value. Codon usage variation within a single genome can be an important source of information about gene expression levels and events of horizontal gene transfer (Medigue et al., 1991). The analysis of codon usage patterns can be traced back to when first molecular sequence databases were being colleted (Grantham et al., 1981). In order to evaluate the codon and amino acid usage variation, multivariate analysis options like Correspondence Analysis, Principal Component Analysis, Cluster Analysis, Factor Analysis, Multidimensional Scaling and Eigenanalysis Ordination are available (Morrison et al., 1994). It is well established that codon usage by its nature is multivariate. These methods provide a low dimensional point representation of genes, where the proximity of gene specific points indicates (CoA) a similar codon usage of associated genes. Correspondence Analysis is an exploratory graphical approach that requires contingency tables and generates results in the form of tables, scattered plots and graphs. CoA can identify the major sources of variation in the dataset. The output from a CoA can be used to evaluate other aspects of genes, such as base composition, expressivity, aromaticity and location on the genome (Thiouse et al. 1997).

Introduction

Recent advances in bioinformatics such as microarray analysis are bringing about a revolution in our understanding of the molecular mechanisms underlying normal and dysfunctional biological processes. With the help of microarray technologies, biologists are currently capable of observing the abundance of transcripts from tens of thousands genes in biological samples, enabling the exploration of the dynamics of transcription and interaction between genes on a genome-wide scale. With the accumulation of gene expression dataset, the challenging task of all microarray experiments is how to extract meaningful and trustworthy information out of thousands of genes that do not contribute in the designed experiments. To achieve this goal, many rigorous mathematical tools and computational software were introduced to the field, like statistical techniques for data normalization, clustering algorithms, class prediction methods, ANOVA, and gene-gene interaction studies. Microarray technology has been used widely in various areas of agriculture and allied field. Application of statistics in microarray is limited particularly in experiments involving fishes. In this chapter it is attempted to present various statistical methods applied to accessory microarray experiments with illustrated example of fish microarray data.

Introduction

The United Nations’ Food and Agricultural Organisation reported that global aquaculture is increasing by 11 percent per year and is the world’s fastest growing food-producing sector. More than 38 million people are employed in aquaculture and associated industries worldwide, and 131 aquatic species are currently being commercially cultured. In 2002, Asia led the world in the aquaculture production, with about 12.4 million tonnes, while Europe and America together produced 1.2 million tonnes.

Among the Asian countries, India ranks second in aquaculture and third in capture fisheries. Freshwater aquaculture in India is mainly based on Indian major carps (Labeo rohita, Catla catla and Cirrhinus mrigala) with an annual production of 1.8 million tonnes, and exotic carps, which together contribute to over 87% of the total aquaculture production of 2.2 million tonnes. Disease problems represent important constraint to the aquaculture industry. The need to control endemic diseases imposes severe year-on-year costs on producers. The advances made in the development of vaccines for diseases of Indian major carps are very meager.

Introduction

Fish production in aquaculture has increased dramatically over the last 20 years with an increment of 9-10% per year over the last decade. Microbial disease problems are prevalent in aquaculture as in any other intensive animal or plant production sector. Vaccines are used as disease prevention and can be very effective, however, they do not work at all developmental stages of fish or in all species. Therefore, antibiotics play a major role in control of fish bacterial diseases, although serious concerns have been raised with respect to development of antibiotic resistance and its transfer to human pathogenic bacteria. Also, new EU regulations call for specific license for antibiotic use in aquaculture and this is too costly even for fish farmers.

The urgent need for development and application of non-antibiotic disease control measures has led to research in probiotic organisms. Probiotics are “live microorganisms which when administered in adequate amount, confer a health benefit on the host (FAO/WHO 2001)” and the principle is most widely known from the belief that ingestion of high numbers of lactic acid bacteria (fermented foods) can control human pathogenic organisms in the intestine. Fish pathogenic agents, however, can invade via skin and gills and probiotic organisms may therefore be as efficient if applied to the outer environment of the fish.

Introduction

Brood stock management is an essential component of fish farming since the success of aquaculture industry mainly depends on quality of brood stock in order to ensure the production of top quality offspring. Their health condition is also important from culture point of view, which in turn increases the fish production. Unfortunately, in India, less attention is given to the brood stock management during non-breeding seasons. The pond aquaculture is also becoming over utilized due to high stocking beyond the carrying capacity, addition of huge quantities of chemicals, drugs, fertilizers and supplementary feeds etc. Physical injury due to rough handling, temperature fluctuations, extremes in oxygen levels can also work in a cumulative way and produce stress and make the fish susceptible to variety of diseases. Environmental deterioration, which occurs due to dumping of pesticides and chemicals alongwith metabolic waste products, left out feed materials and organic load of the pond bottom regularly come in contact with certain vital organs and tissues of fish. All such factors can cause deterioration of fish health and magnify the risk of outbreak of diseases. Disease outbreaks are one of the stumbling blocks in the development of aquaculture industry affecting both the economic development and socio-economic revenue from this sector. Today, there is no availability of exact figure on loss due to diseases in fish farming. The phenomenon is more common in carp Industry, and mortalities due to disease outbreaks cause major management problems and economic loss every year.

Introduction

Indian major carps viz. Catla catla, Labeo rohita and Cirrhinus mrigala are the fast growing, consumer preferred and the stay component species in Indian pond aquaculture system. These carps breed spontaneously in natural water viz. river and bundh type tanks where fluviatile condition prevails (Hora, 1945; David 1959; Quasim and Qayyam, 1962; Natarajan, 1971). Above three species under culture condition attain sexual maturity but do not spawn in confined water (Chaudhuri, 1960; Chaudhuri and Singh, 1984). Khan and Jhingran (1975) in their review described several factors viz. temperature, run off water, photoperiod, turbidity and water depth that are playing important roles in initiating natural spawning in ‘bundhs’ and rivers. They further described that no single factor can be considered responsible for spawning separately. The act spawning involves a chain of interrelated conditions as prerequisite to spawn. Monsoon, flood forms the spawning ground and initiates natural spawning. Although fish bred in its natural environment, it was difficult to understand why some species do not breed in confined water where as other species in the same environment breed somoto.

The initial attempt to induce breed IMC (mrigal) was made during 1937. Khan (1938) was able to induce ovulation in Cirrhinus mrigala by administration of mammalian pituitary extract but eggs were not fertilized. No remarkable success on induced breeding of Indian major carps was made till 1957. Indian major carps were induced to breed for the first time on 10th July, 1957 by the injection of aqueous carp pituitary extract at Govt. Fish Farm, Angul of Orissa state by the scientific team from pond culture substation, Cuttack (Chaudhuri and Alikunhi 1957). Eversince 1957, the induced breeding of carps have been tried by many permutation and combination, addition and alteration of inducing agents.

Introduction

Majority of the commercially important freshwater prawns belongs to the genus Macrobrachium of family Palaemonidae. Among the commercially important freshwater prawns of India the most important cultivable species at present is the giant freshwater prawn Macrobrachium rosenbergii due to its superior cultivable attributes such as fast growth rate, large size, wide range of salinity tolerance, hardiness and compatibly to grow with carps. The species enjoys good consumer preference and domestic as well as export market demand. Freshwater prawns are cultured in freshwater or low saline brackish water (salinity <10 ppt) and can be cultured either alone (monoculture) or in combination with fishes such as carps, tilapia and milkfish (polyculture). Freshwater prawn culture can be carried out in earthen ponds, cement cisterns, in pens or in cages. However, most of the operations are being carried out in earthen ponds.

Introduction

Global diversity in domestic animals and aquatic organisms is considered to be under threat worldwide. Worldwide 11 % birds, 25 % mammals and 34 % of fish species are threatened (Lovell-Badge, 2001; Vemuganti and Balasubramanian, 2002) and aquatic ecosystem is becoming more vulnerable to disasters due to run off from agriculture and industrial sources, oil spills or sudden environmental changes leading to total elimination of stocks from different ecosystems. The multifarious human activities in open waters have threatened the fish diversity all round the world. Fish worldwide are in crisis. The effective population sizes in fish hatcheries are getting smaller and smaller that causes loss to farmers worldwide. The World Resources Institute has reported that nearly 70 percent of the world’s marine fish stocks are over fished or are being fished at their biological limit. Apart from fish, across all live stock species there is a shrinking pool of genetic diversity. For instance, the effective population size for all dairy cattle breeds is less than 60 animals. To preserve the gene pool of unique populations by protecting them from extinction, loss of genetic variability (inbreeding) and dilution due to inter breeding with unrelated populations (hybridization) gene banks or germplasm repository can play a vital role. Germplasm repositories in fisheries could be used for: 1) restoration of threatened species, 2) brood stock improvement through genetic modification of a targeted population, and 4) information and technology development including gene pool database management.

The term ‘Ecology’ deals with the study of organisms from all sources and their interaction with surrounding environments. The aim of ecology is, therefore, to understand and also to explain the relationships of all organisms to their environment. In this respect, the duty of the ecologist is to study a particular environment, estimate the population of each species, recognize the communities, and determine their activities and their interactions with both related species, the rest of the community, and their environment. Macroecological studies always initiate by defining the species composition and then proceed to draw certain conclusions on the role of these species in the ecosystem. On the other hand microbial, especially bacterial classical taxonomy (based on isolation techniques and determination of morphology and in vitro biochemical characteristics of isolates) for determination of each species of aquatic bacteria is almost impossible, except in a few cases. Consequently, the microbial ecologist has to depend upon certain methods that can measure the biomass or activity of a very large conglomerate of coexisting microbial taxa in an aquatic environment. Probably, this has caused the very slow development of microbial ecology concepts and application of a general ecological theory to the microbial ecology.

Introduction

Ornamental fish keeping in aquarium has emerged as the second most popular hobby next to photography. As these fishes usually are kept in aquarium, they are popularly known as ‘Aquarium Fishes’. These beautiful fishes form an important commercial component of aquaculture, providing for aesthetic requirements and upkeep of the environment. At present the market for ornamental fish in the world for public aquaria is less than 1% and over 99% of the market is still confined to hobbyist. In India the hobby of ornamental fish keeping is nearly 70 years old. The brilliant, flamboyant color and exotic appearance of fish appeal almost for every one, children and aged alike. According to psychiatrists, placing aquaria with ornamental fishes in the patient’s house could treat certain type of mentally disordered problems. The relatively minimum requirement of space or attention compared to other pet animals is the reason of growing interest in keeping aquaria all over.

Introduction

Activities to promote and monitor the growth of aquaculture inherently have a spatial component, because of the variations among biophysical and socio-economic characteristics from location to location. Biophysical characteristics may include water quality, soil type and climate. Socio-economic characteristics in aquaculture development may include administrative regulations, competing resource uses, market conditions, infrastructure support, and availability of technical expertise. Geographical Information Systems (GIS) provides the spatial information needed for decision-makers who evaluate such biophysical and socioeconomic characteristics as part of aquaculture planning efforts more effectively and timely (Kapetsky and Travaglia, 1995). GIS is potentially a powerful tool for assisting this class of decision-makers, and is already being effectively used for such purposes in some places (Carswell, 1998; Arnold et al., 2000) where advanced capabilities in terms of infrastructure and trained personnel exists. Nath et al. (2000) discussed various applications of GIS in aquaculture. In general spatial information technologies are being effectively used for sustainable management of aquaculture and inland fisheries. Some potential applications are as follows:

Introduction

India is an agrarian society where 70% of the population depends on agriculture, animal husbandry and fisheries. Fishery is an important sector, its planning and development largely depends on a sound and reliable data and information on resource, production, marketing and distribution. Generating reliable information basically needs identification, conceptualization, classification and sound scientific techniques for collection, compilation and analysis of data. Geographical Information System emerged as an efficient tool to access, organize, update and analyse the information and to utilize it in an optimal way.

A proper computer based information system is the need of day to organize such complex data in order to draw reliable conclusions which may help in drawing action programmes. This multidimensional nature of information on topography, physico-chemical parameters, socio-economics and fish production data can only be handled and processed by Geographical Information System (GIS).

Introduction

The major potential areas for inland aquaculture have already been explored in India. Additional production can only be achieved through successful manipulation of available resources that influence the productivity of various aquaculture systems. This can be achieved through maintenance of adequate levels of nutrients in the pond environment. Pond management in fish culture is mainly concerned with fertilization requirements and strategies with better management practices (BMP) of pond soil and water quality. BMP could be achieved through adoption of advanced technology, computer based diognostic/decision tools, software packages for quick, accurate, authetic data management.

Introduction

Of the five human sensory perceptions, the feelings of sight, hearing and touch have been simulated by artificial sensors quite successfully. Electronic eyes (digital cameras), electronic ears (microphones) and touch sensitive electronic devices are quite common nowadays. In comparison to these devices, the perception of smell and taste are relatively unexplored. Sensing of smell and taste is full of uncertainty and the prevalent technology is at its infancy. Electronic noses for smell and electronic tongues for taste or a combination of both have vast prospects in the field of standardization of quality of food and agro products. In India, proper use of these instruments can revolutionize the quality of the food and agro products, thereby increase the export worthiness of these products. In this article, we have tried to discuss applicability various electronic olfaction technologies like electronic nose and electronic tongue for fish freshness determination. A report on an experiment with electronic nose on fish samples has been presented.

Nanotechnology: The Next Big Thing is Really Small

Nanotechnology can be considered as a brainchild of Richard Feynman, as the conceptual underpinings of nanotechnologies were first laid out in 1959 in his historical lecture, ‘ There is plenty of room at the bottom’. The term ‘nanotechnology’ was not used until 1974, when a researcher, Norio Taniguchi, at the University of Tokyo, Japan, used it to refer to the ability to engineer materials precisely at the nanometer level. The prefix ‘nano’ is derived from the Greek word ‘drawf’. One nanometer (nm) is equal to one billionth of a meter or about the width of six carbon atoms or ten water molecules. A human hair is approximately 80,000 nm wide and a red blood cell is approximately 7000 nm wide¹. Nanotechnology can be defined as the science and engineering involved in the design, synthesis, characterization and application of materials and devices whose smallest functional organization in at least one dimension is on the nanometer scale or one billionth of a meter^2-5. It is a multidisciplinary field, which covers a vast, and diverse array of devices derived from Engineering, Physics, Chemistry and Biology and the cumulative efforts of all the disciplines is necessary for any significant outcome.

Introduction

Technologies and tools that have developed in the recent information technology revolution can play a very vital role in overcoming most of the present problems related to agriculture and rural development. In order to achieve the goal of an economically sound and stable society through environmentally friendly systems of agricultural production, it is imperative to have a comprehensive data storage system. This will not only help in providing systematic and periodic information to the planners, decision-makers and developmental agencies, but also help to manage our limited natural resources efficiently. The development of a data warehouse is one of the recent tools in the field of information technology that can fulfill the demands of the information that is required in the field of agriculture research, management and education

Introduction

The development of DNA technology over the last few decades has led to generation of huge amount of data from plant and animal genome. The main sources of markers are mitochondrial DNA (mt DNA), minisatellites, micro satellites and anonymous nuclear sequences assayed using highly specific PCR primers or by using the RAPD technique. A major contribution comes from molecular markers used for analyzing genetic variations. There has been the infusion of computers, softwares and online databases into the daily activities of many molecular geneticists. The identification of abundant, highly variable loci, detectable by a wide variety of techniques has led to a revolution in the way researcher view and analyses levels of variation. We will here discuss about current computer programs in this area to characterize the DNA profiles and data analysis for intra and inter population structure, phylogenetic inference and parentage determination.

Introduction

In this computer age software plays a vital role in speeding up the research activity. Software and databases help in storage, processing and accessing large volumes of information. Software helps to retrieve right information at the right time at the right place for the right purpose. The time of researchers is very precious. Instead of spending it in monotonous and tedious tasks, it could be used more effectively for new findings. With the advent of computer and its softwares, this problem could be overcome to a considerable extent.

Software is a set of instructions given to the computer to perform certain tasks. In this era of information technology, its essential to apply different softwares to speed up the research activity. It is therefore, utmost importance to have information about the different software already developed in the area of fisheries/aquaculture worldwide. Almost all the routine tasks which the scientists or the farmers are doing, could be automated in the areas like financial & economic analysis, development planning and project appraisal, facility design, management planning and production forecasting, facility construction, management decision support and record keeping, disease diagnosis and treatment, environmental regulation and aquaculture databases. FAO, World Fish Centre and other International Research Organisations have contributed software and database development in the area of aquaculture (Anon, 1999; ICLARM, 1998; FAO, 1999; Erist, 1998). In India also initiative to develop software and database has been taken up. Preliminary report on the availability of fishery related software and databases are available (Roy, 2000). In this communication, an attempt has been made to list softwares and databases that may be used in fisheries and aquaculture research and development/activities.

Introduction

Improvements in Information and Communication technology are revolutionizing the way people access information. These new technologies are helping to improve communication, disseminate information and facilitate sharing of knowledge and skills. Zijp (1994) notes, Information Technology is making both public and private sector agricultural information systems more accessible and more rapid in transmission. The increase in electronic information and communication technologies and in particular networked information is the most notable change to affect the working practices of information professionals in recent years. Digital technologies have led to the emergence of wide-area connectivity through the Internet, making information on agriculture available worldwide and on-demand. Information technology and electronic networking particularly can strengthen organizations by improving their knowledge base and ability to share information and experiences with partners in the field. Electronic networking not only helps in the exchange of the growing volume of information but also brings people together in partnerships and facilitates a joint programme of action on common themes.

Introduction

Fish and the aquaculture products contribute a significant amount of animal protein to the diet of the people worldwide. Being highly nutritive they serve as valuable food supplement in diets lacking essential vitamins and minerals. Besides its role of food security, fish is a source of income for millions of people around the World. Though the trade is not prominent at Global level, in some countries its contribution to foreign currency earning is vital to the National Economy. India has a coastline measuring 7500 km and important aquaculture country in the World. Being the home for more than 10% of the global fish biodiversity, the country ranks third in the World in the total fish production with an annual fish production of about 6.4 million tones. Constituting over the 1% of the GDP, fisheries contributes to 5.3% of the agricultural GDP. The estimated foreign earning for the year 2006 was US$ 1365 million.

Introduction

We shall discuss in this section some of the fundamental Statistical Tests that may be applied in the field of research in Aquaculture. Introduction to tests of hypothesis, test procedures and the concept of decision making are also covered here. At the outset, stages of research process and different formulae are briefly enlisted, for a quick reference by the young researchers. Later, a detail discussion is made on various fundamental statistical tests, including one-way and two-way ANOVA.

Research Methodology

What is Research

A good researcher should first feel/realize the importance/relevance of the research, he is undertaking. It should be quite convincingly clear to him particularly on the issue of “why” such research.

Introduction

A careful compilation and scrutiny of data of aquaculture variables is essential for appropriate statistical analysis and meaningful statistical inference and interpretation of results. In nature, many aquaculture variables are inter-related with each other and the changes in variables would often depend on different variables which are either correlated or independent. In some cases, the variables could also be intra-related over a period of time. For statistical analysis of data of aquaculture variables comprising of different physical growth variables like fish weight, body mass, length and bio-chemical growth variables like muscle protein, lipid, glycogen, protease etc. and variables like pond size, water and its quality, the environmental parameters, type of feed, chemicals used etc., appropriate statistical procedures of correlation and regression could be explored for statistical analysis, testing and interpretation of results. Different statistical procedures are used for analysis of aquaculture data with the objective of making an assessment of

Introduction

In almost all biological studies, it will be impossible to account for every individual in a population. Therefore, it is necessary to examine a sub-group of the total population and extrapolate from this to the whole population. The process by which the sub-group of the population is selected is sampling. Nearly, all statistical tests make a fundamental assumption that sampling of individual will be at random from all the individuals that could possibly be sampled. It is very important that timing is taken into account either by sampling strategy or by later analysis. Most population will be affected by season, time of day and local weather conditions.

What is considered here is the problem faced by an ecologist working in the field and trying to design a suitable sampling strategy. The use of the very powerful statistical technique; analysis of variance (ANOVA) is more common in the situation of a controlled experiment, where, we are analyzing the effects of different levels of a treatment (e.g. feed, fertilizer, temperature etc.) on some measured aspect of population, Then, to get a true estimate of the effect of the treatment, experimental design will be of paramount importance.

Introduction

The method of obtaining the data for each and every unit belonging to the population or universe, which is the aggregate of all units of a given type under consideration, is known as complete enumeration survey or complete census. Examples of units are family, a period of time such as an hour, day, fishing village, fishing household, fishing establishment, fishing boat, fish landing centres etc. The type of unit to be considered would depend on the purpose of the view. The population may be finite or infinite. It is obvious that for any statistical investigation complete enumeration of the population is rather impracticable. For example, if we want to have an idea of the total catch of fish (monthly) in India, we will have to enumerate all the fishers who catch fish in the country, which is rather a very difficult task. If the population is infinite, complete enumeration is not possible. In addition, if the units are destroyed in the course of inspection, 100% inspection though possible, is not at all desirable. However, even if the population is finite or the inspection is not destructive, complete enumeration is not taken because it is time-consuming, expensive, and as well as it needs a large amount of resources in terms of trained personnel.

The need for better analytical tools to analyze the data in aquaculture leads to major developments in statistics. These tools play a significant role in the analysis and interpretation of data. Improvement in carp culture through genetic techniques is the only alternative for increasing the carp production and its quality when area of pond is fixed. For better hybrids or efficient strains for higher production it is essential to collect the data on the genetic diversity among the different carp species on the basis of traits. Therefore, sound statistical procedures are needed in the design of experiments as well as in the analysis of the data. This involves, the use of variability studies and the use of multivariate statistical techniques like correlations, path coefficients, D² analysis and other classificatory analysis.

Introduction

India possesses rich fish germplasm resources, accounting for about one-tenth of the 20,000 and odd species of fish known in the world. The Ganga network of rivers in the North, the Brahmaputra and the Mahanadi in the East, the Sutlej, the Narmada & the Tapti in the West and, the Godavari, the Krishna and the Cauvery in the South are very rich sources, harbouring bulk of the important fish fauna. (Jhingran, 1982).

The major carps of India which are also referred to as Gangetic carps are the most important among the commercial fish species and form the major component of the aquaculture system in the country (Jhingran, 1982). Since the last two to two and a half decades, there was a steady progress in carp farming in India due to the availability of seed of the major carps and the development of different packages of culture technologies (Chaudhuri et al. 1975).

Introduction

Information Technology (IT) is a relatively-recent gift of Science and Technology for the mankind, revolutionising even the basic perception of people. It is a boon to the ever-growing complexities of life in each sphere. Be it simple household chores to the complex and humanly impossible task of advanced space research, Bioinformatics is the application of Information Technology in the field of bio- or life-sciences. The advantages from this fusion of two sciences are many. Bioinformatics in particular, and information technology revolution in general have been a grace to today’s biological researchers, particularly the groups involved in experiments at micro level, be it microorganisms (such as bacteria) of microbiologists or macromolecules (of micro/nano size, such as DNA/RNA) of geneticists/molecular biologists or the nanotechnologists. For example, computer software package IMPAC (Interactive Modeling Package for Carbohydrates) has its applications in the modeling of 3-D structure of carbohydrates. MYCIN is another package popular amongst medical doctors for diagnosis of bacteriological diseases and to prescribe treatments.

Introduction

Data collection, compilation and analysis of Aquaculture data has a major role to play in Aquaculture research. The time spent in collecting, compiling, analysing statistical data and taking appropriate timely action creates a gap in aquaculture. Therefore timely action is very much essential. This gap can be reduced by taking help of computers in collection, compilation and analysis of statistical data which will save time as well as manpower and will help in taking appropriate action in appropriate time. Electronic spreadsheet has a major role to play in this context even if the user is having little or no programming knowledge. The most widely used office automation package is one of the components which consists of spreadsheet application, in which accounting, balance sheet calculations, statistical data analysis, graphical presentations, etc. are possible with few key strokes and mouse operation only. EXCEL has several capabilities which include opening of a workbook; entering and editing data; building formulas to calculate values; managing list of data; formatting data; creating a chart; saving a workbook; opening and saving files from other spreadsheets; linking documents from other spreadsheets, data analysis, etc.