Fully resolved assembly of Cryptosporidium parvum.

TitleFully resolved assembly of Cryptosporidium parvum.
Publication TypeJournal Article
Year of Publication2022
AuthorsMenon, VK, Okhuysen, PC, Chappell, CL, Mahmoud, M, Mahmoud, M, Meng, Q, Doddapaneni, H, Vee, V, Han, Y, Salvi, S, Bhamidipati, S, Kottapalli, K, Weissenberger, G, Shen, H, Ross, MC, Hoffman, KL, Cregeen, SJavornik, Muzny, DM, Metcalf, GA, Gibbs, RA, Petrosino, JF, Sedlazeck, FJ
JournalGigascience
Volume11
Date Published2022 Feb 15
ISSN2047-217X
Abstract

BACKGROUND: Cryptosporidium parvum is an apicomplexan parasite commonly found across many host species with a global infection prevalence in human populations of 7.6%. Understanding its diversity and genomic makeup can help in fighting established infections and prohibiting further transmission. The basis of every genomic study is a high-quality reference genome that has continuity and completeness, thus enabling comprehensive comparative studies.

FINDINGS: Here, we provide a highly accurate and complete reference genome of Cryptosporidium parvum. The assembly is based on Oxford Nanopore reads and was improved using Illumina reads for error correction. We also outline how to evaluate and choose from different assembly methods based on 2 main approaches that can be applied to other Cryptosporidium species. The assembly encompasses 8 chromosomes and includes 13 telomeres that were resolved. Overall, the assembly shows a high completion rate with 98.4% single-copy BUSCO genes.

CONCLUSIONS: This high-quality reference genome of a zoonotic IIaA17G2R1 C. parvum subtype isolate provides the basis for subsequent comparative genomic studies across the Cryptosporidium clade. This will enable improved understanding of diversity, functional, and association studies.

DOI10.1093/gigascience/giac010
Alternate JournalGigascience
PubMed ID35166336
PubMed Central IDPMC8848321
Grant ListU19 AI144297 / AI / NIAID NIH HHS / United States
1U19AI144297 / / National Institute of Allergy and Infectious Diseases /