Modelling the microbiome / edited by Karthik Raman, Gayathri Sambamoorthy

Format:

Book

Contributor:

Raman, Karthik, editor.

Sambamoorthy, Gayathri, editor.

Series:

Methods in molecular biology ; v. 3006.

Springer protocols (Series)

Methods in molecular biology, 1940-6029 ; 3006

Springer protocols

Language:

English

Subjects (All):

Microbiomes--Research--Methodology.

Microbiomes.

Physical Description:

1 online resource : illustrations (some color)

Place of Publication:

New York, NY : Humana Press, [2026]

Summary:

"This volume discusses the latest techniques used to study the rapidly evolving field of microbiome research, with a focus on key methodologies needed to study microbes and their interactions in various communities. The chapters in this book present an end-to-end overview of approaches, from basic foundational concepts in metagenomic data analysis workflows, to important wet lab protocols highlighting the need for controls and data quality issues. The chapters also cover core bioinformatics and data processing approaches, community interactions and insights, predictive modelling tools leveraging metabolic networks, and a variety of modelling paradigms. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.​​Comprehensive and cutting-edge, Modelling the Microbiome is a valuable resource for students, researchers, and practitioners across disciplines such as microbiology, bioinformatics, and systems biology, and provides them with key tools and practical insights to enhance their microbiome studies"-- Springer Nature Link

Contents:

Unlocking the metagenome : pipeline for microbiome data analysis / Aarthi Ravikrishnan

Targeted metagenomics using next-generation sequencing methods / B. S. Yugandhar Reddy, S. Sripradha, and Achyut Kumar

Exploring the ocean’s microbial world : techniques and protocols for microbiome research / Vijaya Raghavan Rangamaran, T. J. Sushmitha, Karthikeyan Kathan Tamilmani, Hinduja Murugesan, and Dharani Gopal

Shotgun metagenomic analysis of microbial community dynamics in wastewater treatment through constructed wetlands / Georgios Miliotis and Anna Tumeo

Dilution-to-stimulation : a method for selecting polymer-transforming microbial consortia / Diego Javier Jiménez, Laura Díaz-García, Lila Aldakheel, and Alexandre Soares Rosado

Computational microbial and viral ecology analysis / James C. Kosmopoulos and Karthik Anantharaman

Identifying differential network properties and driver microbes in microbial association networks using CompNet and NetShift / Kuntal Kumar Bhusan, Tungadri Bose, and Anirban Dutta

Estimating effective pairwise interactions to predict the structures of microbial communities (EPICS) / Gayathri Sambamoorthy, Aamir Faisal Ansari, and Narendra M. Dixit

Evaluating metabolic support in pairwise microbial communities using MetQuest / Pratyay Sengupta, Sandhya Vasudevan, and Karthik Raman

Constraint-based metabolic modeling approach for microbial communities / Satyajit Beura, Sayan Saha Roy, Amit Kumar Das, and Amit Ghosh

Constraint-based modeling of microbial communities for metabolite production / Maziya Ibrahim and Karthik Raman

Personalized constraint-based modeling of microbial communities from metagenomic data / Jordi Roma Pi and Almut Heinken

Predicting interspecies metabolic dependencies in microbial communities by integrating flux coupling analysis with SteadyCom / Steve Zhang, Hugh C. McCullough, and Hyun-Seob Song

Describing and designing microbial community metabolic models in silico : a comprehensive protocol utilizing FLYCOP / Ana del Ramo, David San León Granado, and Juan Nogales

Dynamic simulation of growth and cross-feeding in microbiomes with μbialSim / Ali Nawaz, Jessye L. Schaefer, and Florian Centler

LambdaPy and LambdaR : thermodynamics-based biogeochemical reaction modeling packages for integrating high-resolution mass spectrometry data / Manokaran Veeramani, Sanjog Kharel, Hugh C. McCullough, Xingyuan Chen, Jianqiu Zheng, James C. Stegen, Timothy D. Scheibe, and Hyun-Seob Song

Notes:

Includes bibliographical references and index

Online resource; title from PDF title page (Springer Nature Link, viewed June 2, 2026)

Other Format:

Print version: Modelling the microbiome

ISBN:

9781071650806

1071650807

OCLC:

1579848551

Publisher Number:

CIPO000353336

Access Restriction:

Restricted for use by site license