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Infrared spectroscopy (IRspectroscopy) is the spectros copy that deals with the infrared region of the electromagnetic spectrum, that is light with a longer wavelength and lower frequency than visible light. It covers a range of techniques, mostly based on absorption spectroscopy. As with all spectroscopic techniques, it can be used to identifyand study chemicals. A common laboratory instrument that uses this technique is a Fourier transform infrared (FTIR) spectrometer.

The infrared portion of the electromagnetic spectrum is usually divided into three regions; the near-, mid- and far- infrared, named for their relation to the visible spectrum. The higher energy near-IR, approximately 14000–4000 cm^–1 (0.8–2.5 μm wavelength) can excite overtone orharmonic vibrations. Themid-infrared, approximately 4000– 400 cm^–1 (2.5–25 μm) may be used to study the fundamental vibrations and associated rotational-vibrational structure. The far-infrared, approximately 400–10 cm^–1 (25–1000 μm), lying adjacent to the microwave region, has low energy and may be used for rotational spectroscopy. The names and classifications of these sub regions are conventions, and are only loosely based on the relative molecular or electromagnetic properties.

Infrared spectroscopy exploits the fact that molecules absorb specific frequencies that are characteristic of their structure. These absorptions are resonant frequencies, i.e. the frequency of the absorbed radiation matches the frequency of the bond or group that vibrates. The energies are determined by the shape of the molecular potential energy surfaces, the masses of the atoms, and the associated vibronic coupling.

In conventional breeding for genetic upgradation of yield and other desirable attributes of crop plants, favourable assemblages of genes from two or more parents are made to develop a commercial variety. The important steps of this exercise are: locating the right kind of parents that possess the desired characteristics; making crosses between or among them; handling the segregating generations in an appropriate manner so as to identify the required recombinants; stabilizing the recombinants and finally evaluating their performance in a series of trials. This approach has been very successful in the sense that it has provided increments in productivity continuously. In an analysis done by the American Society of Agronomy on the genetic contributions to yield gains of five major crop plants, it was concluded that sorghum yields increased due to genetic improvements at the rate of 1.2 per cent per year between 1950 and 1980. For corn, the corresponding yield increase was 90 kg/ha/year between 1930 and 1980, which is equivalent to a rate of increase of 1 per cent per year. It was also estimated that 70 per cent of the total gains in corn yields are attributable to genetic improvement and 30 per cent of the yield gains are due to non-seed inputs like fertilizers, pesticides and cultural practices.

In India also, the improvement of productivity of the major food, fibre and several cash crops has been very impressive. The success is due to intensive research in plant breeding resulting in the evolution of varieties with very high genetic yield potentials and the concurrent support from other disciplines that has provided the package of practices which help in the realization of the created potential. In all crop plants, where the breeding efforts have been intensive, the phenomenon of plateauing of yields has become apparent. Wheat provides, perhaps, the best example of the situation. Since the 1970s, when the gains from genetic restructuring of the plant type had been established, major yield increases have not occurred. Since the demands of the future will be undoubtedly much larger, and additional cultivable land will not be available, ways will have to be found for a sizable increase in productivity per unit area in the immediate future. This requirement calls for the development of strategies and procedures that will make dramatic yield gains possible. For meeting the challenge, a continuous search is being made for innovative methods which will give yield increments of a much higher order than those provided by the conventional approach. In this chapter, an attempt has been made to introduce some such promising approaches.

Introduction
Currently, about 350,000 species of flowering plants have been described under global flora, but only a few of them have been rigorously screened for plant breeding parameters and systematic research accomplished in terms of varietal development. According to the Great Medical Encyclopaedia, medicinal plants are those used as a source of raw material for preparation of medicinal products of natural origin. Medicinal and aromatic plants occupy a pivotal position in the socio cultural, health care and spiritual arena of rural people of India. Medicinal plants contribute significantly to the rural livelihoods for their sustenance and income generation. Medicinal and aromatic plants are being used since ancient time for the treatment of many diseases in traditional and recognized systems of healthcare and for therapeutic, fragrance and flavoring products in pharmaceutical and cosmetic industries besides as sources of natural dye, fat, essential oil, biopesticide, resin, protein, vitamin, condiment, spice, timber, fiber and other useful substances. Medicinal and aromatic plants-based livelihood systems are often mediated by the market forces and/ related directly to employment and income of the poor people.
Based on the research work carried out by International Development Research Centre (IDRC) in South Asia, MAP and other biodiversity-based livelihoods can not only become poverty alleviating but also been made socially equitable and gender balanced. According to the World Health Organization, 80% of people from developing countries depend mainly on traditional medicine for primary health care. India is one of the worlds’ richest sources of medicinal plants comprising of nearly 45,000 species, of which nearly 100 species find major commercial use as per the statistics of National Medicinal Plant Board, New Delhi. In 2017, the estimated global market value of herbal medicine and herbal supplements was in the region of $107 billion (Yao et al, 2019), and not surprisingly, the substantial demand and consumption of these products have resulted in shortages, and in some cases even the exhaustion, of several medicinal plant resources, leading to habitat destruction and the loss of genetic diversity.
Plant secondary metabolites specific to each medicinal herb are derived from the precursors obtained from the primary metabolic processes related to one plant species or related group of species. These metabolites protect plants against plants being eaten by herbivores or being infected by microbial pathogens. They serve as attractants for pollinators and as agents of plant-plant competition and plant microbe symbioses. The rise of chemical taxa of medicinal and aromatic plants can be considered as consequence of biochemical and metabolic processes mostly under genetic control. It is assumed that differentiation of cell is mostly manifested in chemo-differentiation at a molecular level and the fundamental differences of protein present in an organism, between different enzyme systems. Moreover, the identity of a medicinal plant is attributed to the dissimilarities in their metabolic profiling intra specific chemical adaptations influenced by the ecological and geographical conditions. This discrete chemical difference is known as poly chemism that occur in autogamous species like medicinal and aromatic plants

This chapter serves as an essential primer on R, providing step-by-step instructions for installing both R and RStudio, one of the most popular integrated development environments (IDEs) for R. Additionally, the chapter covers important aspects such as importing data into R and setting the working directory.

Install R and RStudio

R and RStudio can be installed on Windows, MAC OSX, and Linux platforms. RStudio (the IDE of R) offers a code editor, a unified console, and a suite of visualization tools. It simplifies the use of R, making it more accessible and efficient for data analysis and statistical computing tasks.

Steps to install R and RStudio

1. R can be downloaded and installed from the Comprehensive R Archive

Network (CRAN) webpage (http://cran.r-project.org/).

2. After installing R software, install the RStudio software available at:

http://www.rstudio.com/products/RStudio/.

3. Launch RStudio and start using R inside R studio.

Agriculture is not only the main source of employment, income and food for over 70% of the population but also the main culture of the rural families. But the linear growth in population and unplanned colonization lead to rapid fragmentation of land holdings and shrinkage in fertile cultivated land. In India, more than 70% of the total population of the country still live in villages and mainly depend on agriculture and/or related enterprises. Marginal and small farmers constitute more than 84% of the 115 million operational holdings in India which are cultivating only 29% of the arable land (Singh et al., 2011). 

Abstract

In recent years there has been a world-wide shift in consumer choice and preferences for herbal drugs. Herbal drugs are crude preparations of various kinds of medicinal plants. It involves dried plant or any part such as leaf, stem, root, flower, or seed. According to WHO survey, about 70-80% of the world population particularly in the developing countries rely on non-conventional medicines mainly of herbal sources for their primary health care.^[1] Herbal medicines are being widely accepted for their safety, efficacy, cultural acceptability, better compatibility with the human body and lesser side effects. With the legal acceptance in many countries of the world as an alternative system of medicine, the growth rate of ayurvedic and herbal industry is estimated to be more than 30% for the last 25 years. 

Introduction

With an ever-increasing global inclination towards the consumption of herbal medicines, there is a growing need of raw materials and to identify the active principles that should be available in optimum quantities at the requisite time. Currently, the herbal medicine sector faces numerous challenges such as narrow genetic base, identification and authentication of species, chemical characterization of active compounds and identification of the target molecules. The pharmacologically active metabolites are produced in very low amounts by the plants and their chemical synthesis is expensive, hence there is a growing pressure of procuring these active metabolites from the wild leading to diminishing the populations, loss of genetic diversity and local extinctions. Domestic cultivation of medicinal plants offers an attractive alternative but not much information is available regarding the cultivation practices for many plants and also, there are issues related to storage practices, quality, safety and stability assessment that need to be addressed. Futher, the study of secondary metabolites and their enhancement is a bottleneck due to lack of knowledge about characterized biosynthetic pathways and enzymes in many plants and how their synthesis is regulated at molecular level. To address these challenges, new molecular tools and biotechnological approaches are much warranted. However, the rapidly changing pace of technology and development of high-throughput research, the field of plant biotechnology is beginning to suffer from data overload. All biotechnological efforts have involved empirical, labor-intensive and time-consuming methods. Bioinformatics is one such approach in which biology and information technology converge. It is an interdisciplinary scientific tool that facilitates both the analysis and integration of information from ‘omics’ technologies including genomics, transcriptomics, proteomics, metabolomics and phenomics. The present chapter highlights some of the important areas in bioinformatics which play a significant role and could also have immense impact in medicinal plants research.

Introduction
Identification of crop varieties is one of the major tasks required in modern agriculture, plant breeding, and seed certification systems. The correctness of identification ensures that the varietal purity is sustained, advocates the rights of plant breeders, and guarantees quality seeds that will perform expectedly under specified agro-climatic conditions to farmers (Yu and Chung, 2021). The growing number of crop varieties due to the intensive breeding programmes all over the world makes it equally important to be able to differentiate between cultivars. Variety identification serves several purposes, such as:
• Seed Quality Assurance: Used to prevent the sale of spurious or mislabeled seeds.
• Intellectual Property Rights (IPR): Legal protection of new plant varieties by acts like the Plant Variety Protection (PVP).
• Biodiversity Conservation: Tracking and documenting existing genetic resources.
• Regulatory Compliance: Aids in Distinctness, Uniformity and Stability (DUS) testing protocols.
• Traceability in Food Supply Chains: Ensures safety for consumers and compliance with labeling standards.
Thus, crop variety identification forms the basis of integrity in agricultural systems and is the coordination mechanism for protecting innovations in plant breeding with regulatory frameworks both at national and international levels (Jones et al., 2013; Kage et al., 2016; Cockram et al., 2012).

Modern biological systems cannot be fully understood through a single molecular layer. This chapter examines the integration of genomics, transcriptomics, proteomics, and metabolomics to obtain a comprehensive systems-level understanding of biological processes. It explains the role of each omics discipline and shows how their combined analysis can connect genetic information, gene expression, protein activity, metabolic states, and phenotypic outcomes. The chapter discusses the need for multi-omics integration, computational and network-based analysis, and systems biology workflows. Applications include disease diagnosis, precision medicine, crop improvement, stress tolerance, biotechnology, metabolic engineering, synthetic biology, and environmental research. Multi-omics integration provides improved biological interpretation, biomarker discovery, pathway prediction, and therapeutic target identification.

I. PUBLIC POLICY CONCERNS

The working of the Trade Related Aspects of Intellectual Property Rights Agreement (TRIPS) Agreement, 1995 along with World Intellectual Property Organization (WIPO) and the jurisprudence developed for the last twenty years is a testimony to the fact that although TRIPS is geared to promote the protection of intellectual property rights internationally, yet some controversial public policy issues need to be addressed and solutions devised for addressing these public policy issues otherwise there is a possibility of seeing the demise of TRIPS Agreement or sidetracking it by some other methods which may not be conducive for maximizing the welfare of the international trading community. As all of us know that intellectual property and international trade are mutually inclusive and the minimum standards set forth in the TRIPS Agreement are economically value oriented. The trade offs among and between the members of the WTO need to be balanced on an even keel, otherwise the possibility of camaflouging the TRIPS Agreement and the attendant jurisprudence becomes real. The TRIPS Agreement addresses seven categories of IP rights such as; Copyright and related rights; Patents; Trademarks and Service marks; Geographical Indications; Undisclosed Information or Trade Secrets; Industrial Designs ; and Layout Designs of Integrated Circuits and read with other WIPO Treaties obligates the members of the World Trade Organization (WTO) to reduce distortions and impediments to international trade by taking into account the effective and adequate protection of intellectual property rights as well as the procedures for the enforcement should not become barriers to international trade. The TRIPS Agreement also recognizes the need to cater to the special needs of the developing and least developed countries.

Intellectual property (IP) refers to creations of the human mind, such as inventions, literary and artistic works, symbols, names, images, and designs, which are protected by law. The protection of intellectual property is essential for promoting innovation, creativity, and economic growth. In order to ensure effective protection of intellectual property rights, various governing bodies, organizations, agreements, and treaties have been established at national and international levels. These bodies are responsible for setting and enforcing standards and regulations related to IP, as well as facilitating cooperation and coordination among different countries and stakeholders. Some of the major international organizations and agreements that deal with intellectual property include the World Intellectual Property Organization (WIPO), The Agreement on Trade-Related Aspects of Intellectual Property Rights (TRIPS), and the Paris Convention for the Protection of Industrial Property. These organizations and agreements play a crucial role in creating a conducive environment for innovation, investment, and development, while at the same time ensuring fair and equitable access to intellectual property for all.

Introduction

One of the main challenges in sustainable farming is determining the patentability of living organisms, including genetically modified crops and biotech innovations. Balancing the rights of inventors and the public’s access to agricultural resources can be so complex the Seed saving and farmer’s rights Seed saving is a traditional practice where farmers save and reuse seeds from their harvest. However, some intellectual property rights (IPR) regimes restrict farmers’ ability to save and exchange seeds, potentially limiting their autonomy and leading to dependence on commercial seed suppliers. Biopiracy and traditional knowledge Protecting traditional knowledge and preventing biopiracy is a significant concern in sustainable farming. Nearby agriculturists and inborn individuals habitually have imperative conventional information approximately plant sorts and rural procedures that’s esteemed, and they are decently compensated for their endeavors. Maintainable advancement became a major worldwide agenda thing within the afterward decades of the 20th century! According to the Brundtland report from 1987: “Our Common Future,” provided the most recognized concept of sustainable development, meeting future demands without sacrificing existing practices to be adopted for future aspects. (Ahmed Abdel-Latif, 2021). While a few Intellectual property rights have been pointed out such as the plant breeder’s rights trademark, security of plant assortments and ranchers’ rights (PPV and FR), topographical signs, and exchange insider facts are exceptionally significant to horticulture. In expansion, format plans for chips particularly planned for farming; logical papers, and tv programs covering thoughts related to horticulture and partnered segments must be considered. (Datta, 2016).

Intellectual property (IP) encompasses creations of the human intellect, including inventions, artistic and literary works, as well as symbols, names, and designs. Intellectual property rights (IPR) are legal mechanisms thaprovide creators with exclusive rights to use, manage, and profit from their creations. These rights help protect the interests of innovators and promote continued creativity and innovation.
Intellectual Property Rights refer to the legal entitlements granted to individuals or organizations over their creative and intellectual works, such as patents, trademarks, and copyrights. These rights grant exclusive control or usage privileges for a specific duration, often creating a temporary monopoly. While the concept of intellectual property began to take shape in the 19th century, it was only during the 20th century that it was formally integrated into global legal frameworks.
Intellectual Property Rights (IPR) safeguard the creations of the human mind, such as inventions, artistic and literary works, brand names, logos, designs, and images used in commerce. These rights help foster innovation by allowing creators and inventors to benefit economically from their work.
Key Points
1. Intellectual Property Rights are legal protections acquired by creators or owners of intellectual works.
2. Intellectual property encompasses intangible assets that result from human creativity and thought.

Intellectual Property: Intellectual property is an intangible creation of the human mind, usually expressed or translated into a tangible form that is assigned certain rights of property. It includes, inventions, trademarks, industrial design and geographical indications.

Intellectual Property Rights: Intellectual property rights (IPR) are the rights given to people over the creation of their minds. They usually give the creator an exclusive right over the use of his/her creations for a certain period of time. It includes, creations of the mind: inventions, literary and artistic works, and symbols, names, images, and designs used in commerce.

Introduction

Intellectual property encompasses the products of human creativity, including inventions, artistic works, and commercial symbols. It can be categorized into two main types: industrial property and copyright. Industrial property covers patents, trademarks, industrial designs, and geographic indications of source. Copyright, on the other hand, protects literary and artistic works such as novels, poems, films, music, and visual arts. Intellectual property rights (IPRs) also extend to related areas such as performers’ rights, recording producers’ rights, and broadcasting rights. These rights safeguard the interests of creators by granting them exclusive ownership over their creations. However, unlike tangible property, intellectual property lacks physical characteristics and must be expressed in a discernible manner to be protected.

Traditionally, intellectual property comprised four primary types: patents, trademarks, copyrights, and trade secrets. However, the concept has evolved to encompass newer forms, such as geographical indications, plant variety protection, semiconductor and integrated circuit (IC) protection, and undisclosed information. This expansion reflects the changing landscape of innovation driven by rapid technological, scientific, and medical advancements.

Introduction

For upliftment of the Indian economy agriculture plays an important role as it has contributed immensely. Nearly, three quarters of India’s family depend on rural incomes. Majority of India’s poor live in rural areas. Most people depend upon the crops, vegetables, fruits grown by these rural population. India’s food security is depended upon the inputs made by the farmers which has been a reason for increasing food insecurity in India. To meet with this accelerated pace a productive, competitive, diversified and sustainable agriculture sector needs to be introduced (The World Bank, 2012).

India being a global agricultural powerhouse, is the world’s largest producer of millet, pulses and spices and also has the largest cattle herd in the world, India also produces largest amount of wheat, rice and cotton. Agriculture is a part of India’s culture and tradition. In India, the culture, tradition and festivals are in a way related to different crops grown by the farmers. Along with this agriculture is deeply rooted with the community lifestyle in India. The community freely share their knowledge related to growing, sowing and harvesting of crops, they also distribute or share the produced crops among each other freely (OECD, 2018).

Biotechnology is a field of science that applies technology to living organisms, cells, and their molecular components, to develop products and services that improve human life. Biotechnology covers a wide range of applications, from agriculture and food production to medicine and healthcare, environmental management, and industrial biotechnology. Intellectual property rights (IPRs) are legal rights that protect the creations of the human mind, such as inventions, literary and artistic works, symbols, and designs. In the context of biotechnology, IPRs are critical to incentivize research and development, protect the fruits of scientific discoveries, and ensure that the inventors and investors of biotechnological inventions can benefit financially from their investment.

The importance of protecting biotechnological inventions lies in the fact that these inventions can be expensive and time-consuming to develop, and may require significant financial resources bring to market. Without appropriate legal protection, biotechnological inventions may be vulnerable to unauthorized use, duplication, and exploitation by third parties, leading to reduced incentives for research and development and potential loss of economic benefits for inventors and investors.

Intellectual property : Refers to creations of the mind: inventions, literary and artistic works, and symbols, names, images, and designs.

Since the mid 1980s, genome identification and selection has progressed rapidly with the help of PCR technology. A large number of marker protocols that are rapid and require only small quantities of DNA have been developed. Three widely-used PCR-based markers are RAPDs (Williams et al., 1990), SSRs or microsatellites (Tautz, 1989), and AFLPs (Vos et al., 1995). Each marker technique has its own advantages and disadvantages. RAPD markers are very quick and easy to develop (because of the arbitrary sequence of the primers) but lack reproducibility (Karp et al., 1997; Hansen et al., 1998; Jones et al., 1999; Virk et al., 2000). AFLP has medium reproducibility but is labour intensive and has high operational and development costs (Karp et al., 1997). Microsatellites are specific and highly polymorphous (Karp et al., 1997, Jones et al., 1999), but they require knowledge of the genomic sequence to design specific primers and, thus, are limited primarily to economically important species.

The choice of a molecular marker technique depends on its reproducibility and simplicity. The best markers for genome mapping, marker assisted selection, phylogenic studies, and crop conservation have low cost and labour requirements and high reliability. Since 1994, a new molecular marker technique called inter simple sequence repeat (ISSR) has been available (Zietkiewicz et al., 1994). ISSRs are semiarbitrary markers amplified by PCR in the presence of one primer complementary to a target microsatellite. Amplification in the presence of nonanchored primers also has been called microsatellite-primed PCR, or MP-PCR, (Meyer et al., 1993).

Abstract

Development of reliable automated techniques for the identification and annotation of exon and intron regions in a gene has been an important area of research in the field of computational biology. Several classical approaches like probabilistic model, artificial intelligence and digital signal processing are already in use to cater to this challenging task. In this work, we propose a Support Vector Machine based kernel learning approach for detecting splice site patterns and their conservation across the species. Electron-Ion Interaction Potential (EIIP) values of nucleotides were used to map DNA character sequences to corresponding numeric sequences. Radial Basis Function (RBF) SVM kernel was trained with cross validation using these EIIP numeric sequences. This was then tested on test gene datasets of multiple species for detection of splice site pattern. Receiver Operating Characteristic (ROC) curves and various other statistical measures have been utilized for displaying the performance of the classifier. Results indicate an inter-species splice site conversion profile.

An electron impringing on a solid surface may be scattered once, several times, or never. When an incident electron beam bombard atoms of the sample, secondary electrons (SEs) and backscattered electrons (BSEs) emerge from the sample surface. Multiple scatterings occur if the dimension of the material is greater than approximately twice the mean free path of the electrons. This scattering may be elastic or inelastic. A pear shaped volume (interaction volume) is formed as shown in Fig. 1 and this volume of excitation increases with increase in the beam voltage (electron energy) and decreases with the increasing specimen density (ion atomic number).