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Thus, we tested the performance of several assembly strategies on the genome of this genetically impoverished species. The string graph–based assembly strategy seemed a better choice compared to the conventional de Bruijn graph approach due to the high levels of homozygosity, which is often a hallmark of endemic or endangered species. A consensus reference genome was assembled from sequences of 5 individuals from the southern subspecies (S. p. woodi). In addition, we obtained an additional sequence from 1 sample of the northern subspecies (S. p. paradoxus). The resulting genome assemblies were compared to each other and annotated for genes, with an emphasis on venom genes, repeats, variable microsatellite loci, and other genomic variants. Phylogenetic positioning and selection signatures were inferred based on 4,416 single-copy orthologs from 10 other mammals. We estimated that solenodons diverged from other extant mammals 73.6 million years ago. Patterns of single-nucleotide polymorphism variation allowed us to infer population demography, which supported a subspecies split within the Hispaniolan solenodon at least 300 thousand years ago.</jats:p>","journal":"GigaScience","year":2018,"id":588189,"datarank":0.8111015425688004,"base_score":2.9444389791664403,"endowment":2.9444389791664403,"self_citation_contribution":0.44166584687496613,"citation_network_contribution":0.36943569569383433,"self_endowment_contribution":0.44166584687496613,"citer_contribution":0.36943569569383433,"corpus_percentile":null,"corpus_rank":null,"citation_count":18,"citer_count":14,"citers_with_citation_signal":11,"citers_with_endowment":11,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1127933,"name":"Sergei Kliver","orcid":"0000-0002-2965-3617","position":1,"is_corresponding":false},{"id":469635,"name":"Pavel Dobrynin","orcid":"0000-0001-6995-5620","position":2,"is_corresponding":false},{"id":21307,"name":"Aleksey Komissarov","orcid":"0000-0001-6981-7316","position":3,"is_corresponding":false},{"id":62281,"name":"Walter Wolfsberger","orcid":"0000-0003-0980-645X","position":4,"is_corresponding":false},{"id":1504672,"name":"Ksenia Krasheninnikova","orcid":null,"position":5,"is_corresponding":false},{"id":1504673,"name":"Yashira M Afanador-Hernández","orcid":null,"position":6,"is_corresponding":false},{"id":1504674,"name":"Adam L Brandt","orcid":null,"position":7,"is_corresponding":false},{"id":1504675,"name":"Liz A Paulino","orcid":null,"position":8,"is_corresponding":false},{"id":1504676,"name":"Rosanna Carreras","orcid":null,"position":9,"is_corresponding":false},{"id":1504677,"name":"Luis E Rodríguez","orcid":null,"position":10,"is_corresponding":false},{"id":1504678,"name":"Adrell Núñez","orcid":null,"position":11,"is_corresponding":false},{"id":1504679,"name":"Jessica R Brandt","orcid":null,"position":12,"is_corresponding":false},{"id":1504680,"name":"Filipe Silva","orcid":null,"position":13,"is_corresponding":false},{"id":1504681,"name":"J David Hernández-Martich","orcid":null,"position":14,"is_corresponding":false},{"id":1504682,"name":"Audrey J Majeske","orcid":null,"position":15,"is_corresponding":false},{"id":1029634,"name":"Agostinho Antunes","orcid":"0000-0002-1328-1732","position":16,"is_corresponding":false},{"id":1504683,"name":"Alfred L Roca","orcid":null,"position":17,"is_corresponding":false},{"id":1504684,"name":"Stephen J O'Brien","orcid":null,"position":18,"is_corresponding":false},{"id":1504685,"name":"Juan Carlos Martínez-Cruzado","orcid":null,"position":19,"is_corresponding":false},{"id":62182,"name":"Tarás K. 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Island isolation and reduced numbers have likely resulted in high homozygosity within the Hispaniolan solenodon (Solenodon paradoxus). Thus, we tested the performance of several assembly strategies on the genome of this genetically impoverished species. The string graph–based assembly strategy seemed a better choice compared to the conventional de Bruijn graph approach due to the high levels of homozygosity, which is often a hallmark of endemic or endangered species. A consensus reference genome was assembled from sequences of 5 individuals from the southern subspecies (S. p. woodi). In addition, we obtained an additional sequence from 1 sample of the northern subspecies (S. p. paradoxus). The resulting genome assemblies were compared to each other and annotated for genes, with an emphasis on venom genes, repeats, variable microsatellite loci, and other genomic variants. Phylogenetic positioning and selection signatures were inferred based on 4,416 single-copy orthologs from 10 other mammals. We estimated that solenodons diverged from other extant mammals 73.6 million years ago. 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