Proximity-dependent protein biotinylation : methods and protocols / edited by Petra Van Damme.

Format:

Book

Contributor:

Van Damme, Petra, editor.

Series:

Methods in molecular biology (Clifton, N.J.) ; 2953.

Methods in molecular biology, 1940-6029 ; 2953

Language:

English

Subjects (All):

Protein-protein interactions--Laboratory manuals.

Protein-protein interactions.

Biotin--Laboratory manuals.

Biotin.

Genre:

Laboratory manuals

Physical Description:

1 online resource (xi, 326 pages) : illustrations (some color).

Place of Publication:

New York, NY : Humana Press, [2025]

Summary:

This volume explores the cutting-edge of proximity-dependent protein biotinylation approaches, focusing on innovative biotin ligase (BioID) and peroxidase-based methods, like APEX. Spanning a diverse array of biological systems, including bacteria, zebrafish, plants, and mammals, this collection showcases methods that aid in the identification of protein interactions, localization, membrane topology, trafficking, and secretion dynamics. Additionally, the book features applications at the host/microbe interface and for the use of tissue-specific biotinylation for studying interorgan communication, as well as in silico validation methods. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, detailed lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and expert tips for troubleshooting and avoiding known pitfalls. Authoritative and practical, Proximity-Dependent Protein Biotinylation: Methods and Protocols serves as an essential guide for researchers advancing the study of proxeome biology.

Contents:

Cross-species proximity-dependent protein biotinylation: A standardized approach for mapping proxeomes / Petra Van Damme

BioID in bacteria: Selection of a suitable biotin ligase for proxeome mapping / Laure Simoens, Veronique Jonckheere, and Petra Van Damme

Uncovering transient protein interactions in the Yersinia enterocolitica type III secretion system using MiniTurbo-mediated proximity labeling / Katherine Lapis Pintor, Andreas Diepold, Georgia Angelidou, and Timo Glatter

Exploring bacterial surface proteome dynamics during infection using proximity labeling / Oceane Dubois and Abdelrahim Zoued

Identification of in vivo protein networks using miniTurbo proximity labeling in bacteria / Coralie Tesseur, Ophélie Remy, Géraldine Laloux, and Yoann Santin

Unraveling N-terminal proteoform interactomes via multiplexed recombineering in Salmonella / Valdes Snauwaert, Veronique Jonckheere, and Petra Van Damme

Probing pairwise protein–protein interactions with the bacterial POLAR assay / Coralie Tesseur and Géraldine Laloux

Detection and quantification of biotinylated proteins for TurboID-based proximity labeling mass spectrometry in Arabidopsis / Sumudu S. Karunadasa, TaraBryn S. Grismer, Wenxuan Zhai, Andres V. Reyes, and Shou-Ling Xu

Detection and quantification of biotinylated sites for TurboID-based proximity labeling mass spectrometry in Arabidopsis / Sumudu S. Karunadasa, TaraBryn S. Grismer, Andres V. Reyes, Wenxuan Zhai, and Shou-Ling Xu

Coupling affinity purification with proximity labeling in Arabidopsis: The APEAL approach / Chen Liu and Panagiotis N. Moschou

Characterization of the protein interactome of membrane-bound transcription factors using TurboID-based proximity labeling in planta / Jonas De Backer, Lindsy De Veirman, and Inge De Clercq

Identification of cytosol-facing organelle membrane-proximal proteins via proximity-dependent biotinylation / Xinyue Bao, Xiaoyan Zhang, Huifang Jia, and Xiaohong Zhu

BioID2-based proximity labeling in adult zebrafish / Mira I. Pronobis

On-demand proximity labeling using light-activated BioID / Carolyn Marie Orduno Davis and Sanjeevi Sivasankar

Tissue-specific biotinylation for interorgan communication / Yifan Wang and Ilia A. Droujinine

Spatiotemporally resolved profiling of protein movement by TransitID / Hongyang Guo, Chengxue Zhang, and Wei Qin

An integrated high-throughput proteocistromic framework for mapping the interactome and targetome of human transcription factors / Dicle Malaymar Pinar, Andrea Cerullo, Zixian Wang, Zenglai Tan, and Markku Varjosalo

Step-by-step application of proximity-dependent biotinylation tools for identification of astrocyte and neuron subproteomes in vivo across the whole brain / Joselyn S. Soto and Baljit S. Khakh

Antibody-mediated Protein A–APEX2 labeling (AMAPEX) for proximity proteome exploration / Jiaqi Zhou, Xinran Li, Qing Wen, and Haiyun Gan

A ready-to-use data analysis pipeline for BioID experiments using data-dependent or data-independent acquisition mass spectrometry / Sara Dufour, Teresa Mendes Maia, Laura Van Moortel, Louis Delhaye, Sven Eyckerman, and Simon Devos.

Notes:

Includes bibliographical references and index.

Online resource; title from PDF title page (Springer Nature Link, viewed March 6, 2026).

Other Format:

Print version: Proximity-dependent protein biotinylation

ISBN:

9781071646946

107164694X

OCLC:

1528105072

Publisher Number:

CIPO000268180

Access Restriction:

Restricted for use by site license