Microbiota are a promising and fascinating subject in biology because they integrate the microbial communities in humans, animals, plants, and the environment. In humans, microbiota are associated with the gut, skin, and genital, oral, and respiratory organs. The plant microbial community is referred to as "holobiont," and it is influential in the maintenance and health of plants, which themselves play a role in animal health and the environment.

The contents of Microbiome-Host Interactions cover all areas as well as new research trends in the fields of plant, animal, human, and environmental microbiome interactions. The book covers microbiota in polar soil environments, in health and disease, in Caenorhabditis elegans, and in agroecosystems, as well as in rice root and actinorhizal root nodules, speleothems, and marine shallow-water hydrothermal vents.

Moreover, this book provides comprehensive accounts of advanced next-generation DNA sequencing, metagenomic techniques, high-throughput 16S rRNA sequencing, and understanding nucleic acid sequence data from fungal, algal, viral, bacterial, cyanobacterial, actinobacterial, and archaeal communities using QIIME software (Quantitative Insights into Microbial Ecology).


  • Summarizes recent insight in microbiota and host interactions in distinct habitats, including Antarctic, hydrothermal vents, speleothems, oral, skin, gut, feces, reproductive tract, soil, root, root nodules, forests, and mangroves
  • Illustrates the high-throughput amplicon sequencing, computational techniques involved in the microbiota analysis, downstream analysis and visualization, and multivariate analysis commonly used for microbiome analysis
  • Describes probiotics and prebiotics in the composition of the gut microbiota, skin microbiome impact in dermatologic disease prevention, and microbial communities in the reproductive tract of humans and animals
  • Presents information in a reachable way for students, teachers, researchers, microbiologists, computational biologists, and other professionals who are interested in strengthening or enlarging their knowledge about microbiome analysis with next-generation DNA sequencing in the different branches of the sciences

chapter 1|9 pages

An Insight of Microbiome Science

ByT. Savitha, A. Sankaranarayanan, Ashraf Y. Z. Khalifa

part Section I|45 pages

Omics and Computational Techniques Used for Microbiome Analysis

chapter 2|8 pages


Overview, Challenges, and Applications
BySushant Parab, Federico Bussolino

chapter 3|15 pages

Computational Techniques Used for Microbial Diversity Analysis

ByDattatray S. Mongad, Nikeeta S. Chavan, Yogesh S. Shouche

chapter 4|10 pages

Downstream Analysis and Visualization-Knowledge Discovery – Alpha and Beta Diversity

ByMurali Sankar Perumal, Shreedevasena Sakthibalan

part Section II|149 pages

Human Microbiome

chapter 6|10 pages

Structure and Functional Role of Microbiome Associated with Specific Organs of Healthy Individuals

ByShanmugaraj Gowrishankar, Arumugam Kamaladevi, Shunmugiah Karutha Pandian

chapter 7|22 pages

Structure and Function of Healthy Human Microbiome

Role in Health and Disease
BySunil Banskar, Shrikant Bhute

chapter 8|10 pages

Human Microbiome's Role in Disease

BySahabram Dewala, Yogesh S. Shouche

chapter 9|12 pages

Role of Human Gut Microbiome in Health and Disease

ByNazar Reehana, Mohamed Yousuff Mohamed Imran, Nooruddin Thajuddin, D. Dhanasekaran

chapter 10|16 pages

The Role of Probiotics and Prebiotics in the Composition of the Gut Microbiota and Their Influence on Inflammatory Bowel Disease, Obesity, and Diabetes

ByRafael Resende Maldonado, Ana Lúcia Alves Caram, Daniela Soares de Oliveira, Eliana Setsuko Kamimura, Mônica Roberta Mazalli, Elizama Aguiar-Oliveira

chapter 11|28 pages

Skin Microbiome, Its Impact on Dermatological Diseases, and Intervention of Probiotics

ByMitesh Dwivedi, Firdosh Shah, Prashant S. Giri

chapter 13|12 pages

Microbiome in Women Reproductive Health

ByC. Anchana Devi, T. Ramani Devi, Pavithra Amritkumar

chapter 14|15 pages

Crosstalk between Bacteria and Host Immune System with Special Emphasis on Foodborne Pathogens

ByA.A.P. Milton, G. Bhuvana Priya, M. Angappan, S. Ghatak, Vivek Joshi

part Section III|40 pages

Animal Microbiome

chapter 15|12 pages

Reproductive Tract Microbiome in Animals

Physiological versus Pathological Condition
ByR. Vikram, Vivek Joshi, A. A. P. Milton, M. H. Khan, K. P. Biam

chapter 16|8 pages

Community Structures of Fecal Actinobacteria in Animal Gastrointestinal System

BySelvanathan Latha, D. Dhanasekaran

chapter 17|8 pages

Microbiota Functions in Caenorhabditis elegans

ByArun Kumar, Somarani Dash, Mojibur R Khan

chapter 18|10 pages

Impact of Microbial Communities on the Female Reproductive Tract of Bovine

ByM. Srinivasan, J. Helan Chandra, M.S. Murugan, C. Manikkaraja, D. Dhanasekaran, G. Archunan

part Section IV|73 pages

Plant Microbiome

chapter 20|15 pages

Mangrove Ecosystem and Microbiome

BySnehal O. Kulkarni, Yogesh S. Shouche

chapter 21|19 pages

Role of the Mycobiome in Agroecosystems

ByAhmed Abdul Haleem Khan

chapter 22|11 pages

Root Nodule Microbiome from Actinorhizal Casuarina Plant

ByNarayanasamy Marappa, D. Dhanasekaran, Thajuddin Nooruddin

chapter 23|13 pages

Growth Promotion Utility of the Plant Microbiome

ByS. Kalaiselvi, A. Panneerselvam

part Section V|85 pages

Environmental Microbiome

chapter 24|9 pages

Microbiome of Speleothems – Secondary Mineral Deposits

ByD. Mudgil

chapter 25|15 pages

Microbiome of Marine Shallow-Water Hydrothermal Vents

ByRaju Rajasabapathy, Chellandi Mohandass, Ana Colaço, Rathinam Arthur James

chapter 26|17 pages

Diversity and Bioprospecting Potentials of Antarctic (Polar) Microbes

ByB. Abirami, K. Manigundan, M. Radhakrishnan, V. Gopikrishnan, P.V. Bhaskar, T. Shanmugasundaram, Syed G. Dastager

chapter 27|29 pages

Alterations in Microbial Community Structure and Function in Response to Azo Dyes

BySandhya Nanjani, Haresh Kumar Keharia

chapter 28|9 pages

Soil Microbiome

ByGovindan Nadar Rajivgandhi, RTV Vimala, Govindan Ramachandran, Natesan Manoharan, Wen Jun-Li