Protocol for telomere-to-telomere assembly of Borrelia genomes using a hybrid method.

Atia B Amin, Ana Victoria Ibarra-Meneses, Mathieu Blanchette, Christopher Fernandez-Prada, David Langlais

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Article in STAR protocols, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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5 · Who and what money

Authors and funding

5 authors.

Atia B AminDepartment of Human Genetics, Faculty of Medicine and Health Sciences, Victor Phillip Dahdaleh Institute of Genomic Medicine, McGill University, Montréal, QC H3A 0G1, Canada. Electronic address: atia.amin@mail.mcgill.ca.

Ana Victoria Ibarra-MenesesDépartement de Pathologie et Microbiologie, Faculté de Médecine Vétérinaire, Université de Montréal, Saint-Hyacinthe, Québec J2S 2M2, Canada.

Mathieu BlanchetteSchool of Computer Science, McGill University, Montreal, QC H3A 2A7, Canada.

Christopher Fernandez-PradaDépartement de Pathologie et Microbiologie, Faculté de Médecine Vétérinaire, Université de Montréal, Saint-Hyacinthe, Québec J2S 2M2, Canada.

David LanglaisDepartment of Human Genetics, Faculty of Medicine and Health Sciences, Victor Phillip Dahdaleh Institute of Genomic Medicine, McGill University, Montréal, QC H3A 0G1, Canada; Department of Microbiology and Immunology, McGill University, Montreal, QC H3A 2B4, Canada. Electronic address: david.langlais@mcgill.ca.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Borrelia has a linear chromosome and linear plasmids capped by hairpin telomeres that short-read sequencing cannot resolve. Here, we present a protocol for telomere-to-telomere assembly of Borrelia genomes. We describe steps for spanning B. burgdorferi culture, DNA extraction, and sequencing through hybrid genome assembly to generate complete Borrelia genomes. The pipeline integrates Oxford Nanopore long reads and Illumina short reads to assemble hairpin telomeres, resolve paralogous linear and circular plasmids, and annotate and validate the assembled complete Borrelia genome. For complete details on the use and execution of this protocol, please refer to Amin et al.

Indexed as

BioinformaticsGenomicsMicrobiology

Identifiers

PMID42752086

DOI10.1016/j.xpro.2026.104841

PMCPMC13601366

What OpenQuestion holds

Textmetadata

Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.