{"doi":"10.1038/s41598-024-63783-5","title":"Comparative genomics of Giardia duodenalis sub-assemblage AI beaver (Be-2) and human (WB-C6) strains show remarkable homozygosity, sequence similarity, and conservation of VSP genes","abstract":"Giardia duodenalis, a major cause of waterborne infection, infects a wide range of mammalian hosts and is subdivided into eight genetically well-defined assemblages named A through H. However, fragmented genomes and a lack of comparative analysis within and between the assemblages render unclear the molecular mechanisms controlling host specificity and differential disease outcomes. To address this, we generated a near-complete de novo genome of AI assemblage using the Oxford Nanopore platform by sequencing the Be-2 genome. We generated 148,144 long-reads with quality scores of > 7. The final genome assembly consists of only nine contigs with an N50 of 3,045,186 bp. This assembly agrees closely with the assembly of another strain in the AI assemblage (WB-C6). However, a critical difference is that a region previously placed in the five-prime region of Chr5 belongs to Chr4 of Be-2. We find a high degree of conservation in the ploidy, homozygosity, and the presence of cysteine-rich variant-specific surface proteins (VSPs) within the AI assemblage. Our assembly provides a nearly complete genome of a member of the AI assemblage of G. duodenalis, aiding population genomic studies capable of elucidating Giardia transmission, host range, and pathogenicity.","journal":"Scientific Reports","year":2024,"id":442613,"datarank":0.32958368660043297,"base_score":2.1972245773362196,"endowment":2.1972245773362196,"self_citation_contribution":0.32958368660043297,"citation_network_contribution":0.0,"self_endowment_contribution":0.32958368660043297,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":8,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.8992,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2024-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1256372,"name":"Matthew S. Tucker","orcid":"0000-0002-1722-7805","position":1,"is_corresponding":false},{"id":963077,"name":"Matthew J. Valente","orcid":"0000-0001-9130-2255","position":2,"is_corresponding":false},{"id":1256373,"name":"Subodh Srivastava","orcid":"0000-0003-0845-0199","position":3,"is_corresponding":false},{"id":1256839,"name":"Nadya Chehab","orcid":null,"position":4,"is_corresponding":false},{"id":1256840,"name":"Alison Li","orcid":null,"position":5,"is_corresponding":false},{"id":460898,"name":"Jahangheer Shaik","orcid":"0000-0001-5509-6570","position":6,"is_corresponding":false},{"id":677341,"name":"Juan David Ramírez","orcid":"0000-0002-1344-9312","position":7,"is_corresponding":false},{"id":1127066,"name":"Benjamin M. Rosenthal","orcid":"0000-0002-0224-3773","position":8,"is_corresponding":false},{"id":289403,"name":"Asis Khan","orcid":"0000-0002-9862-2507","position":9,"is_corresponding":false},{"id":356928,"name":"Rodrigo P. Baptista","orcid":"0000-0002-1806-8260","position":0,"is_corresponding":true}],"reference_count":74,"raw_metadata":{"citation_network_status":"fetched"},"created_at":"2026-07-19T02:01:20.107161Z","pmid":"38866814","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}