eChapters

Animal husbandry faces increasing pressure to produce safe milk, meat and eggs while improving animal welfare and reducing environmental impacts. Traditional observation-based management is increasingly inadequate for large and complex livestock systems. This chapter introduces digital transformation through Precision Livestock Farming, which combines IoT devices, smart sensors, wearables, computer vision, artificial intelligence, machine learning and digital twins. Continuous animal-centred data enables timely decisions concerning health, reproduction, feeding, behaviour and welfare. The chapter explains how digital technologies can support early disease detection, efficient resource use and improved productivity across commercial and smallholder farms, creating more profitable, sustainable and welfare-conscious livestock systems.

Escherichia coli is an important model organism for studying microbial metabolism, metabolic regulation, and metabolic engineering. This chapter introduces the use of metabolomics to investigate the metabolic architecture and physiological responses of E. coli. It examines metabolite profiling, central carbon metabolism, metabolic pathways, environmental responses, and metabolic flux analysis. The chapter explains how metabolomic data can reveal changes in cellular metabolism and support the identification of pathway bottlenecks and regulatory mechanisms. Applications in microbial biotechnology, recombinant production, metabolic engineering, and optimization of fermentation processes are considered. The chapter demonstrates how E. coli serves as a useful experimental system for connecting metabolite changes with cellular function.

Genetics is the study of what genes are, how they carry information, how their information is expressed, and how they are replicated and passed to subsequent generations or other organisms.

DNA in cells exists as a double-stranded helix; the two strands are held together by hydrogen bonds between specific nitrogenous base pairs: A-T and C-G.

A gene is a segment of DNA, a sequence of nucleotides, that code for a functional product, usually a protein.

When a gene is expressed, DNA is transcribed to produce RNA; mRNA is then translated into proteins. This is also referred as Central Dogma of Life. The DNA in a cell is replicated before the cell divides, so each daughter cell receives the same genetic information.

Antibodies, also called immunoglobulins, are the proteins produced by the immune system against antigens. These are the protective proteins which interact with antigens and neutralize their effects. Antibodies are produced by B lymphocytes. An immunoglobulin has a Y-shaped structure consisting of four polypeptide chains.

Trans-boundary Animal Diseases (TADs) are highly contagious diseases of livestock in the world and transmissible diseases which have the potential for very serious and rapid spread, irrespective of national borders, which has serious socio-economic or public health consequence and they are importance in the international trade of animals and animal products. With rapidly increasing globalization, an associated risk of movement of trans-boundary diseases is emerging. Trans-boundary animal diseases represent a serious threat. They reduce production and productivity, disrupt local and national economies and also threaten human health (zoonotic). Trans-boundary animal disease is a concern globally; cumulative effort is needed at international level to minimize the spread of infectious diseases across the borders.
Considering that livestock rearing constitutes a significant share in the national economy of a developing country, it is imperative to take up disease control initiatives. Measures are required to safeguard the livestock industry from epidemics of infectious diseases and to uphold safe international trade of  livestock and their products. In this regard, it is essential to develop scientific and risk-based standards that facilitate the international trade in animal commodities.
Introduction
Trans- boundary Animal Diseases (TADs) are highly contagious diseases of livestock in the world. Moreover, their economic importance is a major constraint in international trade. Their implication on human Health and National food security cannot be over emphasized. Zoonotic diseases among TAD’s include diseases like West Nile Virus (WNV), Rift Valley Fever (RVF), Mad Cow disease (BSE), Bovine Tuberculosis and Highly Pathogenic Avian Influenza (HPAI). Other important TADs are Foot and Mouth Disease (FMD), Contagious Bovine Pleuropneumonia (CBPP), Lumpy Skin Disease, African
Swine Fever (ASF) and Newcastle Disease (ND). They have the potential for very rapid spread, irrespective of national borders and these diseases can cause serious socio-economic and possibly public health consequences.

Antibodies are a group of glycoproteins having a globular compact structure. They are known as immunoglobulins. On the basis of their experiments, Tiselius and Kabat, in 1939, demonstrated that most antibodies are found in the g globulin fraction of serum proteins. When serum from rabbit, immunized with ova albumin, was subjected to electrophoresis, it showed a peak for g globulin (Fig. 4.1). Studies have revealed that the major part of IgG is found in the g globulin fraction of the serum proteins. Other fractions, a and b, too, have other immunoglobulins along with small part of IgG.

Metabolomic databases provide essential information for identifying metabolites, interpreting experimental results, analyzing pathways, and understanding biochemical relationships. This chapter introduces major databases used in metabolomics and explains their roles in modern biological research. Resources such as KEGG, BRENDA, HMDB, MetaboLights, METLIN, and LIPID MAPS provide information on metabolites, enzymes, pathways, structures, spectra, diseases, and experimental datasets. The chapter discusses their applications in metabolite identification, pathway analysis, biomarker discovery, systems biology, and translational research. It also considers challenges including data volume, database completeness, continuous updating, standardization, and integration with other omics resources.

D gene segments, diversity gene segments     :    D gene segments, or diversity gene segments, are short DNA sequences that join the V and J gene segments in rearranged immunoglobulin heavy-chain genes and in T-cell receptor â and ä chain genes. See gene segments.    
D loop    :    An extended loop of single-stranded DNA displaced from a duplex structure by an oligonucleotide.

R    :    Gas constant.

R factors  R plasmids      :    Plasmids bearing one or more drug resistant genes.

R group    :    Shorthand for the side chain of an amino acid. 

A. Answer the following.

Q.1.     What is the full form of the followings : MALT, GALT and BALT
Ans.    MALT : Mucosa associated lymphoid tissue ; GALT : Gut associated lymphoid tissue ; BALT : Bronchus associated lymphoid tissue

Q.2     What is the definition of antigen ?
Ans.    Antigen is any agent capable of binding specifically to components of the immune response such as lymphocytes and antibodies.

Q.3.     What is the definition of immunogen ?
Ans.    Immunogen is any agent capable of inducing an immune response.

The major components of the immune system are the lymphocytes which constitute lymphoid system (Figure 2.1).The lymphoid organs are classified into two categories: primary and secondary lymphoid organs.

In this century the usage of plastics had become very common. However, it is important to know as to what kinds of plastics are used for food handling and storage and the health hazards caused by using it. It has been observed that plastic packaging plays a significant role for the enhanced shelf life and in the ease of storage and cooking for many foods. Some kinds of plastic materials which are widely used for handling and storage of food and water include polyethylene terephthalate (PET). It is used in soft drinks, water, sport drinks, ketchups, salad dressing bottles, peanut butter, pickle, jelly and jam jars. This plastic is strong, heat resistant, resistant to gases and acidic foods. It can be transparent or opaque. It does not leach any chemicals that are suspected of causing cancer or disrupting hormones and can also be recycled.

Usage of High density polyethylene (HDPE) has been found to be common in milk, water, juice bottles, yogurt, margarine tubs, grocery, trash and retail bags. High-density polyethylene is stiff and strong but is not heat stable (it melts at a low temperature). It does not leach any chemicals that have a role in causing cancer or disrupting the hormones. HDPE can be recycled. Low-density polyethylene (LDPE) is used into making films of various types, some bread and frozen food bags and also in the making of squeezable bottles. Low-density polyethylene is relatively transparent. Many of the films are not heat stable either and may melt the food in case it is touching it. However, polypropylene (PP) is more heat resistant, harder, denser and more transparent than polyethylene and is therefore used for heat-resistant microwavable packaging and sauce or salad dressing bottles. Polycarbonate is clear and heat resistant. It is also durable and often used to make refillable water bottles and sterilisable baby bottles, microwave ovenware, eating utensils, plastic coating for metal cans. Tiny amounts of bisphenol A are formed when polycarbonate bottles are washed with harsh detergents or bleach (sodium hypochlorite). At high levels of exposure, bisphenol A is potentially hazardous as it mimics the female hormone estrogen. In addition, polystyrene (PS) and polyvinyl chloride (PVC) are also used during food material transportation and handling in supermarkets. Modern food safe plastic bags are plasticizer-free which do not leach harmful chemicals into the food during cooking.

The genus Clostridium consists of gram positive, spore forming anaerobic bacilli. The spores are wider than the bacillary bodies, giving the bacillus a swollen appearance, resembling a spindle. Hence, the name clostridium (Kloster- meaning spindle) was given.
Systematics
Domain : Bacteria
Phylum : Firmicutes
Class : Clostridia
Order : Clostridiales
Family : Clostridiaceae
Genus : Clostridium
The clostridia can be divided into four major groups according to the kind of
disease they produce. They are as follows.

Farming System of India

Based on how income is derived from a farming enterprise: Specialized farming, diversified farming and mixed farming.

Based on mode of ownership and organization of farms: Individually owned, co-operative farming and collective farming

Based on scale of operations: Small scale farming and Large scale farming.

Different basic as well as advanced laboratory equipment need to be used in a laboratory while conducting experiments. Many of them like pH meter, laminar air-flow hood, viscometer, thermometer, magnetic stirrer, microwave ovens, incubators, sand-bath, water-bath, oil-bath, etc. are the basic and simple equipment which require to be used routinely while conducting experiments in a laboratory. However, basic knowledge of their operation, handling procedure, when to be used, how to be used, and more importantly what not to be done with it, etc. are essential for keeping them in serviceable condition as well as for the accuracy/precision in their operation. In this chapter, we will discuss about some of the routinely used laboratory equipment along, while some other sophisticated equipment will be discussed in other chapters.

pH Meter

A pH meter measures exactly the H+ concentration of a solution; thus indicates acidity or alkalinity of a solution with greater precision. Actually, it measures the difference in electrical potential between a pH electrode and a reference electrode, and display the results converted into the corresponding pH value. Electrode is the key part (rod-like structure, usually made of glass) of a pH meter, having a bulb at the bottom containing a sensor. The pH meters range from simple and inexpensive pen-like devices (portable/pocket pH meter) to complex and expensive laboratory instruments with computer interface (Figure 5.1).

Frequent calibration of a pH meter using the solutions of known pH (standard solution of pH 4.01, 7.00, 10.01, Figure 5.2), generally before each use, ensures the accuracy of the instrument. For very precise work the pH meter should be calibrated before each measurement. For normal use calibration should be performed at the beginning of each day. This is necessary because the glass electrode does not give a reproducible measurement over a longer period of time.

Introduction

The antibiotics are low molecular weight natural, semi-synthetic, or synthetic substance that kills or slows the growth of germs while causing little or no harm to the host is considered an antimicrobial (Walsh, 2000). Antibiotics are the type of medicine produced by some microorganisms that kill or slow the growth of other microorganisms. It includes any of a large group of chemical substances, as penicillin or streptomycin, produced by various microorganisms and fungi, having the capacity in dilute solutions to inhibit the growth of or to destroy bacteria and other microorganisms, used chiefly in the treatment of infectious diseases (De Vetten et al., 2003). However today, a large number of bacteria are resistant to various antibiotics. Antibiotic resistance occurs when a bacterium becomes able to survive and multiply despite the presence of an antibiotic that would normally control or kill it. In other words, the bacteria become “resistant” and continue to grow even at therapeutic levels of the antibiotic. While antibiotic resistance is a natural phenomenon, it is accelerated by the selective pressure exerted when an antibiotic is used. Bacteria that are naturally resistant to the antibiotic have a better chance of survival compared to those that are susceptible. As the susceptible bacteria are killed or inhibited, resistant strains are favored and continue to thrive (Holme et al., 2006). Some resistance arises without human influence, as bacteria can naturally produce antibiotics against other microorganisms, resulting in a low-level, natural selection for antibiotic resistance. However, the current surge in antibiotic resistant bacteria is largely attributed to the overuse and misuse of antibiotics. One of the main issues facing public health is antimicrobial resistance, particularly in developing nations where access to and use of medications are easier than in developed nations, leading to a disproportionately higher rate of inappropriate antibiotic use and higher resistance levels (Ganguly et al., 2011). Antimicrobial resistance will make it more difficult to control infections in the community and make health care services less effective (Bhatia et al., 2010). It is well known that India has one of the highest rates of infectious disease burdens in the world, and that the country’s high rates of malnutrition and inadequate sanitation make these circumstances worse (http://www. resistancestrategies.org/wpcontent/uploads/2011/03/Indiareport).

Introduction

Antimicrobials, viz. antibiotics, antivirals, antifungals and anthelmintics are substances widely used to prevent and treat infections in humans, fish & prawn, livestock animals, and crops. In a situation where microorganisms such as bacteria, viruses, parasites or fungi become resistant to antimicrobial treatments to which they were previously susceptible, it is apprehended that antimicrobial resistance in the microbes has evolved. In fact, antibiotic resistant bacteria evade the effects of antibiotics and multiply in their own way leading to severe health consequences in human and animals. The menace is such that antimicrobial resistance (AMR) hinders treatment modalities targeted for infectious diseases. The hazards of antimicrobial resistance is frequently observed in various pathogenic and non-pathogenic organisms, viz. Salmonella spp., Campylobacter spp., Yersinia sp., E. coli serotype O157:H7, enterococci, Pasteurella sp., Actinobacillus sp. with varying severity (McEwen and Fedorka-Cray, 2002). Microorganisms that develop resistance to commonly used antimicrobials are referred to as superbugs. Globally it is a matter of great concern that it spreads rapidly and threatening the ability to treat common infectious diseases, resulting in prolonged illness, disability and death. Without any effective antimicrobial agent, treatment of infectious diseases, many medical procedures like cancer therapy, diabetes management, organ transplantation, and major surgery will not be possible. The microbes showing resistance to multiple antimicrobials are commonly known as multidrug resistance (MDR) organisms (Magiorakos et al., 2012).

Systems biology examines living organisms as integrated and interconnected systems rather than as isolated genes, proteins, or metabolic pathways. This chapter introduces the historical development, principles, and major components of systems biology. It explains biological networks, pathway architecture, transcriptome analysis, gene-expression analysis, and interactions among genes, proteins, enzymes, and metabolites. Network-based approaches provide a framework for understanding complex biological processes and predicting cellular responses. The chapter also introduces synthetic biology and synthetic networks and discusses applications of systems biology in medicine, biotechnology, agriculture, and environmental research. Advantages, limitations, computational requirements, and future developments are considered as systems approaches continue to expand biological understanding.