HiC-Pro is an optimized and flexible pipeline for processing Hi-C data from raw reads to normalized contact maps. HiC-Pro maps reads, detects valid ligation products, performs quality controls and generates intra- and inter-chromosomal contact maps. It includes a fast implementation of the iterative correction method and is based on a memory-efficient data format for Hi-C contact maps. In addition, HiC-Pro can use phased genotype data to build allele-specific contact maps. We applied HiC-Pro to different Hi-C datasets, demonstrating its ability to easily process large data in a reasonable time. Source code and documentation are available at http://github.com/nservant/HiC-Pro.

Global Tea Breeding: Achievements, Challenges and Perspectives provides a global review on biodiversity and biotechnology issues in tea breeding and selection. The contributions are written by experts from China, India, Kenya, Sri Lanka, Vietnam, Turkey, Indonesia, Japan, Bangladesh, Korea, Nigeria, and etc., which countries amount to 90% of the world tea production. This book focuses on the germplasm, breeding and selection of tea cultivars for the production of black, green and Oolong teas from the tea plant, Camellia sinensis (L.) O. Kuntze. It can benefit the tea breeders in the global tea industry, as well as the breeders of other woody cash crops like coffee and other sub-tropical fruit trees. Liang Chen is a Professor and Associate Director at National Center for Tea Improvement, Tea Research Institute of the Chinese Academy of Agricultural Sciences (TRICAAS), Hangzhou, China. Zeno Apostolides is a Professor at the Department of Biochemistry, University of Pretoria, South Africa. Zong-Mao Chen is the Academician of the Chinese Academy of Engineering and a Professor at the Tea Research Institute of the Chinese Academy of Agricultural Sciences, Hangzhou, China.

This book describes the basic botanical features of kiwifruit and its wild relatives, reports on the steps that led to its genome sequencing, and discusses the results obtained with the assembly and annotation. The core chapters provide essential insights into the main gene families that characterize this species as a crop, including the genes controlling sugar and starch metabolism, pigment biosynthesis and degradation, the ascorbic-acid pathway, fruit softening and postharvest metabolism, allergens, and resistance to pests and diseases. The book offers a valuable reference guide for taxonomists, geneticists and horticulturists. Further, since information gained from the genome sequence is extraordinarily useful in assessing the breeding value of individuals based on whole-genome scans, it will especially benefit plant breeders. Accordingly, chapters are included that focus on gene introgression from wild relatives and genome-based breeding.

Tea is an important non-alcoholic beverage plant of the world. Cultivation of tea is also commercially very important as it earns huge revenue for the tea growing nations especially the developing countries such as India. Although conventional breeding is well-established and contributes significantly for varietal improvement of this plant and other Camellia species with ornamental value, yet, applications of biotechnology vis a vis genomics are essential to improve the productivity and quality of the tea. This book brings out various aspects of breeding, biotechnology and genomics of tea plants. It covers i) Origin and descriptions of health benefits as well as morphological classification as first chapter, ii) Breeding and cytogenetics that comprise with various conventional approaches of varietal improvement of tea along with their genetic resources, iii) Micro-propagation which deals with in-depth study of clonal propagation, iv) Somatic embryogenesis along with alternative techniques such as suspension culture, cry-preservation etc, v) Molecular breeding that deals with application of various DNA based markers such as discovery of QTL, linkage map etc, vi) Genetic transformation and associated factors, vii) Stress physiology complied various works done in tea along with its wild relatives on abiotic as well as biotic stress and viii) Functional genomics that describes the various works of molecular cloning and characterizations, differential gene expression, high-throughput sequencing, bioinformatics transcriptomics study that described the application of next generation sequencing to discover various genes that are related to various trait of tea, Non-coding RNA which describes the discovery of various non-coding RNA in tea and related genera. The book also discusses recent developments in biotechnology such as metabolomics, proteomics, genome sequence and popular clone varieties of tea crops that are developed across the world. In conclusion, the book collates the work on tea plantations so far, identified the problems, analyzes the gaps on breeding and biotechnological works of tea as well as its wild species and discusses the future scopes as conclusion. The book aims to cover all latest information till june, 2020 . It will be useful resource for post-graduate, doctoral as well post-doctoral students working on tea as well as other woody plants. This will also be useful for the scientists working in the areas of life sciences, genomics, biotechnology and molecular biology.

Tea is a unique crop and, incidentally, a very interesting and attractive one. The tea bush, its cultivation and harvesting do not fit into any typical cropping pattern. Moreover, its processing and marketing are specific to tea. Thus the Tea Industry stands apart and constitutes a self contained entity. This is reflected in the title given to this book, Tea: Cultivation to consumption, and its treatment of the subject. The book is logically planned - starting with the plant itself and finishing with the traditional'cuppa'. Every aspect of tea production is covered, inevitably some in greater detail than others. However, it gives an authentic and comprehensive picture of the tea industry. The text deals in detail with cultural practices and research, where desirable, on a regional basis. The technology of tea cultivation and processing has been developed within the industry, aided by applied research which was largely financed by the tea companies themselves. This contributed to a technically competent industry but tended to bypass the more academic and fundamental investigations which might bring future rewards. The sponsorship of research has now widened and the range and depth of tea research has increased accordingly. The editors and authors of this book have played their part in these recent developments which are well reported in the book.

Auxin is an important signaling compound in plants and vital for plant development and growth. The present book, Auxin and its Role in Plant Development, provides the reader with detailed and comprehensive insight into the functioning of the molecule on the whole and specifically in plant development. In the first part, the functioning, metabolism and signaling pathways of auxin in plants are explained, the second part depicts the specific role of auxin in plant development and the third part describes the interaction and functioning of the signaling compound upon stimuli of the environment. Each chapter is written by international experts in the respective field and designed for scientists and researchers in plant biology, plant development and cell biology to summarize the recent progress in understanding the role of auxin and suggest future perspectives for auxin research.