Pan-genomics: Applications, Challenges, and Future Prospects

Pan-genomics: Applications, Challenges, and Future Prospects

1st Edition - March 6, 2020

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  • Editors: Debmalya Barh, Siomar Soares, Sandeep Tiwari, Vasco Azevedo
  • eBook ISBN: 9780128170779
  • Paperback ISBN: 9780128170762

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Description

Pan-genomics: Applications, Challenges, and Future Prospects covers current approaches, challenges and future prospects of pan-genomics. The book discusses bioinformatics tools and their applications and focuses on bacterial comparative genomics in order to leverage the development of precise drugs and treatments for specific organisms. The book is divided into three sections: the first, an "overview of pan-genomics and common approaches,” brings the main concepts and current approaches on pan-genomics research; the second, “case studies in pan-genomics,” thoroughly discusses twelve case, and the last, “current approaches and future prospects in pan-multiomics”, encompasses the developments on omics studies to be applied on bacteria related studies. This book is a valuable source for bioinformaticians, genomics researchers and several members of biomedical field interested in understanding further bacterial organisms and their relationship to human health.

Key Features

  • Covers the entire spectrum of pangenomics, highlighting the use of specific approaches, case studies and future perspectives
  • Discusses current bioinformatics tools and strategies for exploiting pangenomics data
  • Presents twelve case studies with different organisms in order to provide the audience with real examples of pangenomics applicability

Readership

Bioinformaticians, genomics scientists, microbiologists, graduate students in diverse related fields

Table of Contents

  • 1. Overview, applications, and future perspectives of Pan-genomics
    Siomar de Castro Soares
    2. Bioinformatics approaches applied in Pan-genomics and their challenges
    Rommel Thiago Juca Ramos Sr.
    3. Evolutionary pan-genomics and applications
    Basant K. Tiwary
    4. Insights into old and new enemies: Pan-genomics of Corynebacterium diphtheriae and Corynebacterium ulcerans
    Andreas Burkovski
    5. Pan-genomics of Veterinary pathogens: Corynebacterium psedotuberculosis
    Vasco Ariston de Carvalho Azevedo
    6. Pan-genomics of Plant pathogens and its applications
    Rabia Amir
    7. Pan-genomics food pathogens and its applications
    Ulisses de Padua Pereira II
    8. Pan-genomics of aquatic animal pathogens and its applications
    Nguyen Thanh Luan and Pham Thi Hai Ha
    9. Pan-genomics of model bacteria and their outcomes
    Amjad Ali
    10. Pan-genomics of multi drug-resistant human pathogenic bacteria and their resistome
    Mauricio Corredor Sr.
    11. Pan-genomics of Virus and its applications
    Luiz Alcantara
    12. Pan-genomics of Fungi and its applications
    Aristóteles Góes-Neto
    13. Pan-genomics of Algae and applications
    Jaspreet Kaur
    14. Pan-genomics of Plants and its applications
    Rabia Amir
    15. Pan-cancer analysis and applications
    Dipali Dhawan
    16. Reverse vaccinology and drug target identification through Pan-genomics
    Amjad Ali
    17. Pan-metagenomics and its applications
    Ranjith Kumavath Sr.
    18. Pan-transcriptomics and its applications
    Attya Bhatti
    19. Pan-proteomics and its applications
    Wanderson Marques
    20. Pan-metabolomics and its applications
    Li Bao and Xiaofeng Liu
    21. Pan-interactomics and its applications
    Dinesh Kumar Yadav

Product details

  • No. of pages: 474
  • Language: English
  • Copyright: © Academic Press 2020
  • Published: March 6, 2020
  • Imprint: Academic Press
  • eBook ISBN: 9780128170779
  • Paperback ISBN: 9780128170762

About the Editors

Debmalya Barh

Debmalya Barh
Debmalya Barh, PhD, holds Master’s and PhD’s degree on Biotechnology and Post-Doc on Bioinformatics. He is honorary Principal Scientist at Centre for Genomics and Applied Gene Technology, Institute of Integrative Omics and Applied Biotechnology, a global platform of multidisciplinary research and advocacy. He has experience with both academic and industrial research and has more than 12 years on bioinformatics and personalized diagnostic/medicine industry experience, with focus on translating academic research into high value commercial products. He has published more than 150 articles in reputed international journals and has edited 15 cutting-edge biotechnology related reference books. He has also co-authored 30+ book chapters. Due to his significant contribution in the field, he has been recognized by Who's Who in the World and Limca Book of Records.

Affiliations and Expertise

Principal Scientist, Centre for Genomics and Applied Gene Technology, Institute of Integrative Omics and Applied Biotechnology, Nonakuri, Purba Medinipur, West Bengal, India

Siomar Soares

Dr Soares holds a degree in Biomedicine, with special training in Bioinformatics, Master's Degree and PhD in Genetics by Federal University of Minas Gerais – UFMG, the latter with one year of study at the Center for Biotechnology (CeBiTec), Universität Bielefeld. He holds a Post-doctorate in Bioinformatics by UFMG. He was Senior Researcher Bioinformatics at the Central Official Laboratory of the Brazilian Ministry of Fisheries and Aquaculture (2014-2015). He is currently Professor at Federal University of the Triângulo Mineiro (UFTM) since 2015, Secretary of the Southeastern regional of the Brazilian Society of Genetics (2017-current), Substitute Coordinator of the undergraduate course in Biomedicine at UFTM (2017-current) and Substitute Research and Technology Development Coordinator of UFTM (2017-current). His research interests are molecular genetics, genomic sequencing and comparative genomics of microorganisms, focusing on pan-genomics, genomic plasticity in the identification of islands of pathogenicity and virulence factors, phylogenomics, molecular epidemiology, reverse vaccination and software development.

Affiliations and Expertise

Professor, Department of Immunology, Microbiology and Parasitology, Institute of Biological Sciences and Natural Sciences, Federal University of Triangulo Mineiro (UFTM), Brazil

Sandeep Tiwari

Dr. Tiwari obtained his BSc from Deen Dayal Upadhyaya Gorakhpur University, MSc in Bioinformatics from Devi Ahilya University, and PhD in Bioinformatics from Department of Genetics, Ecology and Evolution, Federal University of Minas Gerais, Brazil. He is Guest Associate Editorial Board of Frontier in Genetics and frequently serves as an external reviewer for PeerJ and Frontiers. His main areas of expertise are molecular genetics, genomic sequencing and comparative genomics of microorganisms, with a focus on pan-genomics, genomic plasticity in the identification of pathogenicity islands and virulence factors for drug discovery, phylogenomic, molecular epidemiology, reverse vaccinology, and immunoinformatic.

Affiliations and Expertise

Post-doctoral Research Fellow, Department of Genetics, Ecology and Evolution, Federal University of Minas Gerais

Vasco Azevedo

Vasco Azevedo is a full professor, CNPq researcher 1A, member of the Brazilian Academy of Sciences, Commander of the Order of Scientific Merit of the MCTI, of the Genetics advisory committee and the public policy working group on Biotechnology and Genetic resources of COBRG / CNPq, coordinator of the Associated International Laboratory Bact-infl from INRA and UFMG, and vice-president of the Brazilian Association of Bioinformatics and Computational Biology (AB3C). He holds a degree in Veterinary Medicine from the School of Veterinary Medicine of the Federal University of Bahia (1986), a master's degree (1989), and a doctorate (1993) in Genetics of Microorganisms from the Institut National Agronomique Paris Grignon. Post-doctorate from the Department of Microbiology, School of Medicine, University of Pennsylvania (the USA, 1994). Professor at the Institute of Biomedical Sciences of the University of São Paulo (2004) and Ph.D. in Bioinformatics at UFMG (2017). He has experience in Genetics and Bioinformatics, emphasizing Molecular and Microorganism Genetics, acting mainly on the following topics: Genomics; transcriptomics; proteomics, metabolomics; Functional analysis of genes; Virulence and pathogenicity study, Molecular Biotechnology and Biosafety. He works on vaccine development, diagnostics, and the development of next-generation probiotics.

Affiliations and Expertise

Professor, Institute of Biological Sciences, Federal University of Minas Gerais (UFMG), Brazil

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