OMICS: Applications in Biomedical, Agricultural, and Environmental Sciences

695 Pages·2013·5.45 MB·English

by  Debmalya Barh

Biotechnology/Applied Life Sciences/Agricultural-Environmental Sciences
Barh
Zambare
OMICS
Azevedo
O
Applications in Biomedical, Agricultural,
and Environmental Sciences
M
With the advent of new technologies and acquired knowledge, the number of fields in
omics and their applications in diverse areas are rapidly increasing in the postgenomics
era. Such emerging fields—including pharmacogenomics, toxicogenomics, regulomics,
I
spliceomics, metagenomics, and environomics—present budding solutions to
combat global challenges in biomedicine, agriculture, and the environment. OMICS:
C
Applications in Biomedical, Agricultural, and Environmental Sciences provides
valuable insights into the applications of modern omics technologies to real-world
problems in the life sciences. Filling a gap in the literature, it offers a broad, multidisciplinary
view of current and emerging applications of omics in a single volume.
S
Written by highly experienced active researchers, each chapter describes a particular
area of omics and the associated technologies and applications. Topics covered
include:
• Proteomics, epigenomics, and pharmacogenomics
• Toxicogenomics and the assessment of environmental pollutants a A
• Applications of plant metabolomics nd pp
• Nutrigenomics and its therapeutic applications E li
c
• Microalgal omics and omics approaches in biofuel production n a
v
• Next-generation sequencing and omics technology for transgenic plant analysis ir tio
• Omics approaches in crop improvement on n
s
• Engineering dark-operative chlorophyll synthesis m
• Computational regulomics en in
• Omics techniques for the analysis of RNA splicing ta B
i
• New fields, including metagenomics, glycomics, and miRNA l o
S m
• Breast cancer biomarkers for early detection c e
• Environomics strategies for environmental sustainability ie d
n ic
c a
This timely book explores a wide range of omics application areas in the biomedical, es l,
agricultural, and environmental sciences. Throughout, it highlights working solutions A
g
as well as open problems and future challenges. Demonstrating the diversity of r
i
omics, it introduces readers to state-of-the-art developments and trends in omics- c
u
driven research. l
t
u
r
a
l
,
K15973
ISBN: 978-1-4665-6281-3
90000
9 781466 562813
K15973_COVER_final.indd 1 2/6/13 3:36 PM

OM ICS
Applications in Biomedical, Agricultural,
and Environmental Sciences

OM ICS
Applications in Biomedical, Agricultural,
and Environmental Sciences
Edited by
Debmalya Barh
Vasudeo Zambare
Vasco Azevedo
MATLAB® is a trademark of The MathWorks, Inc. and is used with permission. The MathWorks does not warrant the
accuracy of the text or exercises in this book. This book’s use or discussion of MATLAB® software or related products
does not constitute endorsement or sponsorship by The MathWorks of a particular pedagogical approach or particular
use of the MATLAB® software.
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Version Date: 20130123
International Standard Book Number-13: 978-1-4665-6283-7 (eBook - PDF)
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This book is dedicated to Ms. Mamata Barh (W/O Purnendu Bhusan Barh
and M/O Debmalya Barh), Vice President of Institute of Integrative
Omics and Applied Biotechnology (IIOAB), India.

Contents
Foreword .........................................................................................................................................xi
Preface ..........................................................................................................................................xiii
Editors ............................................................................................................................................xv
Contributors ...............................................................................................................................xvii
Part I The World of Omics and Applications in Biomedical Sciences
1. Proteomics: Techniques, Applications, and Challenges ................................................3
Elangovan Namasivayam
2. Epigenome: Genomic Response to Environmental Eccentricities ..............................43
Anjana Munshi, Srirama Krupanidhi, and Yog Raj Ahuja
3. Epigenomics: Basics and Applications .............................................................................73
Jaspreet Kaur and Jyotdeep Kaur
4. Pharmacogenomics for Individualized Therapy ...........................................................95
Eugenia Ch. Yiannakopoulou
5. Pharmacogenomic Knowledge to Support Personalized Medicine:
The Current State................................................................................................................121
Casey Lynnette Overby and Houda Hachad
6. Toxicogenomics: Techniques, Applications, and Challenges ....................................137
Indra Arulselvi Padikasan and Nancy Daniel
7. The World of Noncoding RNAs ......................................................................................183
Winnie Thomas, Qurratulain Hasan, Konagurtu Vaidyanath, and Yog Raj Ahuja
8. Spliceomics: The OMICS of RNA Splicing ..................................................................201
A. R. Rao, Tanmaya Kumar Sahu, and Nishtha Singh
9. Computational Regulomics: Information Theoretic Approaches toward
Regulatory Network Inference ........................................................................................225
Vijender Chaitankar, Debmalya Barh, Vasco Azevedo, and Preetam Ghosh
10. Glycomics: Techniques, Applications, and Challenges ..............................................245
Veeraperumal Suresh, Chinnathambi Anbazhagan, and Dakshanamurthy Balasubramanyam
11. Breast Cancer Biomarkers .................................................................................................275
Rajneesh K. Gaur
vii
viii Contents
12. Use of Protein Biomarkers for the Early Detection of Breast Cancer ......................299
Birendra Kumar, Purnmasi Ram Yadav, and Surender Singh
Part II T he World of Omics and Applications in Plant and
Agricultural Sciences
13. Genomics, Proteomics and Metabolomics: Tools for Crop Improvement
under Changing Climatic Scenarios ..............................................................................317
Hifzur Rahman, D. V. N. Sudheer Pamidimarri, Ramanathan Valarmathi, and
Raveendran Muthurajan
14. Application of Next-Generation Sequencing for Abiotic Stress Tolerance ............347
Tapan Kumar Mondal and Keita Sutoh
15. Next-Generation Sequencing and Assembly of Bacterial Genomes .......................367
Artur Silva, Rommel Ramos, Adriana Carneiro, Sintia Almeida,
Vinicius De Abreu, Anderson Santos, Siomar Soares, Anne Pinto, Luis Guimarães,
Eudes Barbosa, Paula Schneider, Vasudeo Zambare, Debmalya Barh,
Anderson Miyoshi, and Vasco Azevedo
16. Towards Engineering Dark-Operative Chlorophyll Synthesis Pathways in
Transgenic Plastids ............................................................................................................385
Muhammad Sarwar Khan
17. Utilization of Omics Technology to Analyze Transgenic Plants .............................399
Marisela Rivera-Domínguez and Martín-Ernesto Tiznado-Hernández
18. Microalgal Omics and Their Applications ....................................................................439
Shanmugam Hemaiswarya, Rathinam Raja, Ramanujam Ravikumar,
Annamalai Yogesh Kumar, and Isabel S. Carvalho
19. Plant Metabolomics: Techniques, Applications, Trends, and Challenges .............451
Shoaib Ahmad
20. Nutraceuticals: Applications in Biomedicine ...............................................................481
Vellingiri Vadivel
21. Genomic Resources of Agriculturally Important Animals, Insects, and Pests .....519
Sarika, Anu Sharma, Anil Rai, Mir Asif Iquebal, and Poonam Chilana
Part III T he World of Omics and Applications in
Environmental Sciences
22. Applications of Molecular Spectroscopy in Environmental and Agricultural
Omics ....................................................................................................................................551
Daniel Cozzolino