eChapters

ANALYSIS OF CODON USAGE VARIATION

Multivariate analysis methods such as Correspondence Analysis and Principle Component Analysis have often been used to identify major trends of variation in synonymous codon usage among inter or intra specific genes. Genetic codes are degenerate meaning most of amino acids can be encoded by more than one codon (triplet of nucleotides); such codons are synonymous and usually differ by one nucleotide in the third position. The alternative synonymous codons are not used with similar frequency and their usage varies among different genes. Hence there is the presence of Relative Synonymous Codon Usage values. 

SEQUENCE DATA

The gene sequences downloaded from Genbank of National Center for Biotechnology Information that is the nucleotide sequence repository known worldwide, serves as the secondary data used for analysis. Relative synonymous codon usage value of each gene is extracted separately using the Codon Usage software of Sequence Manipulation Suite. These are the raw data which needs to be normalized to be used before application of various multivariate analysis.

Abstract: Economy of Bihar is solely dependent on agriculture. Only 7% area is under forest as against a minimum 33% required for ecological balance. To counter the environmental degradation and to provide fuel, fodder and timber, different tree-crop combinations were tried for accessing their compatibility. As a result some agroforestry systems have been recommended and are discussed in this paper. Economics of some of the successful system has also been discussed. A detailed account of prevalent agroforestry practices in Bihar is also given. Agri-horticulture system is most popular system adopted by large and medium farmers in the region. Finally, constraints in adopting and carrying out research in agroforestry along with future strategies to extend agroforestry in Bihar are also given in the paper.

Introduction

Agroforestry land use system is one of the most important means for improving productivity of rural resources. People’s perception about agroforestry varies with their use perspectives. Only 7 % area is under forest as against a minimum 33 % required for ecological balance. Per capita consumption of wood fuel in Bihar is 0.27 m3 per year and industrial wood is 0.054 m3. One of the studies, on demand and supply of wood in Bihar conducted by Division of Forestry

12.1    Shelf Life
    
12.2    Pre-Treatments Vs. Shelf Life/Storage (Hot Water, Fungicides, Coatings and other Chemicals)
    
12.3    Surface Coatings
    
12.4    1-MCP Gas Exposure
    
12.5    Use of Botanicals
    
12.6    Other Chemicals/Methods
    
12.7    Evaporative Cool Storage
    
12.8    Modified Atmosphere Storage (MAS)
    
12.9    Controlled Atmosphere Storage (CAS)
    
12.10    Vacuum Packaging
    
12.11    Hypobaric Storage
    
12.12    Irradiation
    
12.13    Chilling Injury (CI)

INTRODUCTION
 
Once a crop is harvested, it is almost impossible to improve its quality. Therefore, proper storage conditions—temperature and humidity—are needed to lengthen storage life and maintain quality once the crop has been cooled to the optimum storage temperature. In modern times, the storage of perishables has become more sophisticated because of the demand for a wide range of fresh fruits and vegetables at all the times of the year and because of need to spread peaks of production over longer periods to maximize profit and reduce waste. But in our conditions, storage of fruits and vegetables is practiced to avoid the low prices during the glut season in anticipation that prices will increase during the lean period or off-season. Certain crops like potatoes and apples can be stored for long period whereas for the crops peach and plum, the storage period is very short. However, for both long-term as well as short-term storage, high level of technical know-how about the crop is necessary for successful storage. There are a few important factors, which need to be taken into account before storage of the produce.

Abstract
 
Rice fallows are those land which remain uncultivated during rabi after harvesting of kharif paddy. Several reason for not taking second crops such as early withdrawal of monsoon rains leading to soil moisture stress at planting time of rabi crops, water logging and excessive moisture in the months of November and December, lack of appropriate varieties of winter crops for late planting, and socio-economic problems like stray cattle, blue bulls etc. India accounts for 11.65 million ha (79%) of the total rice fallows of South Asia. The rice fallows offer good scope for area expansion of chickpea. The residual soil moisture left in the soil after rice harvest is often sufficient to grow chickpea in low to medium land soil. It is also beneficial for chickpea where short duration paddy grown which vacate fields in September-October. In long duration paddy, chickpea could be grown under Utera cultivation (relay cropping) in the states of Chhattisgarh, Jharkhand, Bihar, West Bengal, Orissa and Assam. Optimum plant population can only be ensuring in well levelled land, sufficient soil moisture and good seed under Paira (Utera) cropping. 

Increasing evidences over the past few decades indicate that significant changes in climate are occurring across various regions of the globe in the form of increased occurrence of extreme weather events. The significant cause to this sustained increase in climate variability, known as climate change has been a resultant of increased level of greenhouse gases (GHGs) in the atmosphere. The reason for this increase is mainly ascribed to enhanced human activities such as industrialization, uncontrolled burning of fossil fuels, increased use of refrigerants and changed land use patterns and practices. Most significantly, the concentrations of GHGs like CO₂ has already crossed the 400 ppm mark, while other potential contributors like methane and nitrous oxide also show significant rise. As a result of the heat absorbing capacity of these gases, there has been a considerable rise in global mean temperatures, more so in the recent decade and more. The increase in mean air temperatures of the globe was 0.76^ºC during the past 100 years. This rate of increase has been higher during the past two decades and the recent period recorded the warmest years in sequence, the latest being the 2017.

Soils are the basis of food production. Ninety five percent of our food is directly or indirectly produced on our soil. A healthy soil maintain a diverse community of organisms that helps in controlling pests (insects, weeds, and fungus) but also form beneficial symbiotic association with plant roots, recycle essential plant nutrients and improve soil structure. A healthy soil can also be a strategic ally in mitigating and adapting to climate change, as soil sequesters CO₂ and prevent to escape into the atmosphere. Beside this, it contributes to mitigate climate change by maintaining or increasing its carbon content. This can be said that the proportion of organic carbon is available more in the soil than combining both atmosphere and ground vegetation. Most of the soil organic carbon (SOC) stored in the first metre of the soil in the form of organic matter. However, organic matter degrades due to deforestation; deplete soil biodiversity, loss of nutrients as consumed by crop plants, soil compaction due to excessive use of agricultural machineries, soil erosion, water logging conditions, and urbanization, which release greenhouse gases like CO₂, CH₄, and N₂O into the atmosphere causing global warming and climate change. One third of all CO₂ emissions come from changes in land use (deforestation, shifting cultivation, and intensification of agriculture) whereas two-thirds of CH₄ and majority of N₂O emitted through agricultural practices (Kotschi and Müller-Sämann, 2004).

Stratified Sampling (Meaning and Concept)

The word ‘stratify’ comes from the Latin word, meaning ‘to make layers’, thus in stratified sampling the whole population is considered to be classified into some mutually exclusive layers or subgroups or classes also called strata. The strata do not overlap and they constitute the whole population.

Why the population is considered to be divided into different strata (or layers or subgroups or classes)?

INTRODUCTION

The modern cultivated strawberry (Fragaria × ananassa Duch.) is one of the most widely distributed soft fruits of the world due to its genotypic diversity, highly heterozygous nature and broad range of environmental adaptations. It is one of the most delicious and refreshing soft fruit. Its plant is cherished in gardens as well as in commercial fields for its beautiful red fruit that has tantalizing aroma. Being nutritionally rich, strawberry has now become an important table fruit of millions of people around the globe. Its fruit is different from other fruits as their seeds are produced on outside of the fruit. Strawberry is unique fruit crop, which gives quicker and very high return per unit area on the capital investment, as the crop is ready for harvesting within six months of planting.

The strawberry fruits are highly perishable in nature and need quick disposal after harvest thus it has remarkable scope for its cultivation near the towns, cities and processing units where the fruits can be utilized or processed immediately after harvest. Over the last few years, continuous progress has been made in strawberry cultivation due to the use of micropropagation technique for plant propagation, day neutral cultivar, protected cultivation for multiple crops in a year and low tunnels in open field, which are useful for exploiting the tremendous potential of this small fruit crop.

Abstract

Vegetable cultivation has been threatened due to limited availability of arable land and frequent vagaries of environment and incidence of soil borne pests and diseases. Development of stress tolerant or climate smart cultivars through conventional breeding methods or dependence upon agrochemicals for mitigation of pest and disease problems for vegetable crops have been practised since time immemorial. Salinity in coastal belts, high or low temperature injury, bacterial wilt in solanaceous vegetables, Fusarium wilt and nematode infestation in cucurbits are common of the many maladies which have caused tremendous loss in productivity and quality of vegetable crops throughout the globe. 

Q.1.    Define strip plot design ?

    Answer
    
    There is a variant of the split plot design in which both factors A and B will be applied to the larger strips by dividing the experimental field into as many rows as the number of levels of one factor A and into as many columns as the number of levels of second factor B. Then the two factors will be applied at random to the rows and columns. Such a layout is known as strip plot design.

Bioinformatics can be defined as “the collection, archiving, organization and interpretation of biological data” (Orengo et al., 2003). By extension, structural bioinformatics deals with the collection, archiving, organization and interpretation of 3-D structural data of bio macromolecules. Structural bioinformatics emerged with the first crystal structures of haemoglobin and myoglobin. These structures were analyzed and contributed significantly to our understanding of the principles of life at a molecular level. A repository of all publicly accessible protein crystal structures, the Protein Data Bank (PDB) was established by Walter Hamilton et al., at Brookhaven National Laboratory in 1971. Until the late 1980s, structural biologists often knew all the available structures of bio macromolecules and much of the analysis, such as structure comparison and hydrogen-bonding analysis was done manually without much computer intervention. As the number of available structures increased, so did the need for software tools for structure analysis. Structural bioinformatics encompasses a wide variety of applications, including structure visualization, validation, classification, structure-based function prediction, identification of targets for structural genomics projects and prediction of the structures of individual bio macromolecules and complexes as well the binding modes of small molecules inside proteins of pharmaceutical or biotechnological interestStructural and theoretical analyses of proteins are central to the understanding of complex molecular mechanisms and are fundamental to the drug discovery process.

Introduction

Zymomonas mobilis, a gram negative, anaerobic, micro aerotolerant, ethanologenic bacterium metabolizes glucose, fructose, and sucrose. One of the major factor that limits the usage of Z. mobilis is the narrow substrate range. Moreover, there are no obvious genes reported for using lactose, maltose or cellobiose. Our preliminary sequence analysis of the Zymomonas mobilis ZM4 genome indicated the presence of a putative beta-galactosidase (bga) gene. However, the mechanism of beta-galactosidase (Bga) function is still unknown. Hence, Bioinformatics analysis was made to predict the physicochemical, biochemical and biophysical properties, domains, secondary and tertiary structures of the putative beta-galactosidase. These studies suggested that the putative beta-galactosidase gene was poorly expressed from its native promoter in Z. mobilis. The absence of beta-galactoside transacetylase and permease genes in Z. mobilis led to its inability to metabolize lactose. Hence, function predictions of Bga are performed because of the fact that it has a homologous partner.

1. Introduction

Cassava (Manihot esculenta Crantz) is a tuberous root crops. It is known as “U mangra” in Manipuri. It is also known as mandioca or tapioca, yucca, mosioc. Cassava belongs to Euphorbiaceae family The cassava plant is of perennial woody shrub in nature. (CGIR 2011; FAO-2015, Zhu 2015). Like paddy and wheat as staple food crops, cassava is also staple food crops for many countries. It supports millions of population especially in South American and African countries. It is also known as food security crop because of its ability to withstand harsh environmental conditions when other food crops cannot sustain and destroy. It can grow in low fertility soil, marginal land with less agricultural maintenance. It resists to pest and diseases so cultivation is easy to carry out with less expenditure. Cassava is abundantly grown in Manipur mostly in hilly areas. To some extent, it is consumed as snacks item either by burnt in fire or charcoal or boiled form with little addition of salt. The fresh young leaves and roots after removing its cover is used as ingredients of “singju” a salad type traditional snack items of Manipur. Out of cassava sweet snack item locally called “manghra heingan” in Manipur is also prepared. For making this sweet item, cassava is boiled with sugarcane molasses until it is cooked and reach certain sugar consistency of molasses. This sweet item is similar with murabba available in Indian market.

1. Introduction

Rasogolla is a sweetened dairy product which is made from milk mainly from casein protein. Generally rasogolla is made by heating the raw milk around 80-850C ,then slowly cool the milk around 650C and acid coagulation of the milk is done. Then separate the channa (mainly casein) and whey, and drained the whey followed by the pressing of the channa to remove the excess water. Then channa is thoroughly kneaded and are rolled to balls and cooked in sugar syrup and get the rasogulla. Total value of 1000 billion for Indian dairy output in 2001, the output of traditional dairy products is estimated at over 400 billion. The share of the organized sector in the indigenous products is at present only 50 billion only (Patil, 2005).

2.1 Manufacturing Process of Sugar

There are a number of steps in producing raw sugar from cane

1. Sugarcane receiving and unloading (receive the cane at the factory and unload it from the transport vehicles)
2. Sugarcane preparation (cutting and shredding cane to prepare it for juice extraction)
3. Extraction of Sugarcane Juice (two technologies are in common use; milling or diffusion)
4. Juice clarification (remove suspended solids from

INTRODUCTION

The planning of new orchard is very important aspect of fruit glowing which needs special attention and care to make it more profitable venture. The climate and soil of particular area are the major chief natural factors in the orchard establishment. The proper combination of this governs the success of fruit growing
 
A. SUITABILTY OF CLIMATE FOR FRUIT PLANTS

Climate refers to an average condition of the atmosphere over a long period, whereas, the term weather refers to the current and temporary atmospheric conditions of an area. Climate is the principal factor for optimum vegetative and reproductive growth of plants. The success or failure of crop in a particular locality depends upon the prevailing climatic conditions. In our environment it is fundamental force which includes various components of climate like temperature, humidity, wind, light, rainfall, hail and frost. These factors should be taken care of for successful fruit production. All cultivated crops including fruit crops have certain natural threshold limits of the climatic parameters for their normal growth. The important climatic components which affect fruit crop production are given below:

1    Ideal surgical pack

2    Nerve blocks

3    Commonly used pre-anaesthetics and anaesthetics

1.    What is Surimi?
    
2.    Fisheries Resources for Surimi Production

    
3.    Historical Perspective of the Surimi Industry
    
4.    Present World Scenario of Surimi Industry

5.    Surimi Industry in India
    
6.    Processing Technology for Surimi from Light Muscle Fish 
    6.1     Types of fish used for surimi
    6.2     Heading, gutting, and deboning
    6.3     Mincing
    6.4     Washing and dewatering
    6.5     Stabilizing surimi with cryoprotectants
    6.6      Rapid freezing and packaging
    
7.    Surimi Processing from Dark Muscle Fish
    
8.    Quality Evaluation of Surimi
    
9.    Microbial Quality of Surimi
    
10.    Surimi based Products
    10.1     Fish cakes
    10.2     Fish balls
    10.3     Crab analogs (Crab leg meat analog)
    
11.    Scallop Analogs
    
12.    Moulded Products
    
13.    Important Considerations in Surimi and Surimi based Products
    13.1    Gelation
    
14.    Functional Properties of Surimi

15.    Cryoprotectants in Surimi
    15.1    Mechanism of action of cryoprotectants
    
16.    Future Development in Fish Protein Stabilization
    
References

Introduction

Sustainable agriculture is the production of food, fiber, or other plant or animal products using farming techniques (including agroforestry) that protect the environment, public health, human communities, and animal welfare. This form of agriculture enables us to produce healthy food without compromising future generations ability to do the same. Sustainable agriculture describes farming systems that are capable of maintaining their productivity and usefulness to society indefinitely. Such systems must be resource-conserving, socially supportive, commercially competitive and environmentally sound. It is a system of agriculture that will maintain its productivity over the long run. Sustainable farming could be organic farming, biodynamic, perma-culture, agro-ecological systems and low input. The goal of sustainable agriculture is to minimize adverse impacts to the immediate and off-farm environments while providing a sustained level of production and profit. Sustainable agriculture is influenced by environmental climate, soil types and the various crops and types of farm practices employed (Olorunfemi, 2013).