Why Euglenozoans -- Isolation and Cultivation of Diplonemids -- Preparation of Diplonemid Samples for Microscopy -- Protocol for the Molecular Identification of Autotrophic Euglenids in Environmental Samples -- Culture and Genetic Modification of the Monoxenous Trypanosomatids Crithidia fasciculata and Crithidia bombi -- Poly(A) Profiling for Euglenozoans Using Oxford Nanopore Direct RNA Sequencing, Illustrated by the Example of Euglena gracilis -- Euglenid Extrachromosomal DNA: Assembly and Annotation -- Nuclear Genome Assembly and Annotation of Kinetoplastids -- Assembly and Annotation of Kinetoplastid and Diplonemid Mitochondrial Genomes -- Cleavage Under Targets and Release Using Nuclease (CUT&RUN) for Trypanosoma brucei Parasites -- Mapping Open Chromatin in Trypanosoma brucei Using ATAC-Seq -- Transcriptomic Analysis of Trypanosomatids -- Small RNA Profiling in Trypanosomes -- Desorption Electrospray Ionization–Mass Spectrometry Imaging (DESI-MSI) of Metabolites in Heart Samples Infected with Trypanosoma cruzi -- Microbiome Profiling in Chagas Disease: Sample Collection, Sequencing, and Analysis -- Metabolomics Analysis of Trypanosomes Using Ion Mobility-Enhanced Mass Spectrometry -- Exploring Protein Interactomes Using TurboID-Directed Proximity Labeling and Mass Spectrometry -- Mapping Trypanosoma Protein Interactome by Proximity-Dependent Biotinylation -- From Genome to Function: Metabolism-Wide Models of Lifecycle Stages of Parasites -- Enhanced Detection of Homology Using Artificial Intelligence in Euglenids.

This detailed collection covers methods recently developed for experiments on organisms from each of the major euglenozoan groups, including diplonemids, euglenids, and kinetoplastids. Volume 1 presents a historical review of the research into euglenozoans, followed by sections of techniques involving isolation and culturing of different species of euglenozoans, as well as a variety of -omics research methods. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips for troubleshooting and avoiding known pitfalls. Authoritative and practical, Euglenozoa: Methods and Protocols, Volume 1 serves as an ideal guide for researchers working with these fascinating organisms and investigating the aspects of their extreme biology. Chapter 14 is available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.

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