Towards the detection of copy number variation from single sperm sequencing in cattle

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dc.contributor.authorYang, Liu
dc.contributor.authorGao, Yahui
dc.contributor.authorOswalt, Adam
dc.contributor.authorFang, Lingzhao
dc.contributor.authorBoschiero, Clarissa
dc.contributor.authorNeupane, Mahesh
dc.contributor.authorSattler, Charles G.
dc.contributor.authorLi, Cong-jun
dc.contributor.authorSeroussi, Eyal
dc.contributor.authorXu, Lingyang
dc.contributor.authorYang, Lv
dc.contributor.authorLi, Li
dc.contributor.authorZhang, Hongping
dc.contributor.authorRosen, Benjamin D.
dc.contributor.authorVan Tassell, Curtis P.
dc.contributor.authorZhou, Yang
dc.contributor.authorMa, Li
dc.contributor.authorLiu, George E.
dc.date.accessioned2022-07-25T14:06:50Z
dc.date.available2022-07-25T14:06:50Z
dc.date.issued2022-03-17
dc.description.abstractCopy number variation (CNV) has been routinely studied using bulk-cell sequencing. However, CNV is not well studied on the single-cell level except for humans and a few model organisms. We sequenced 143 single sperms of two Holstein bulls, from which we predicted CNV events using 14 single sperms with deep sequencing. We then compared the CNV results derived from single sperms with the bulk-cell sequencing of one bull’s family trio of diploid genomes. As a known CNV hotspot, segmental duplications were also predicted using the bovine ARS-UCD1.2 genome. Although the trio CNVs validated only some single sperm CNVs, they still showed a distal chromosomal distribution pattern and significant associations with segmental duplications and satellite repeats. Our preliminary results pointed out future research directions and highlighted the importance of uniform whole genome amplification, deep sequence coverage, and dedicated software pipelines for CNV detection using single cell sequencing data.en_US
dc.description.urihttps://doi.org/10.1186/s12864-022-08441-8
dc.identifierhttps://doi.org/10.13016/q1na-ajip
dc.identifier.citationYang, L., Gao, Y., Oswalt, A. et al. Towards the detection of copy number variation from single sperm sequencing in cattle. BMC Genomics 23, 215 (2022).en_US
dc.identifier.urihttp://hdl.handle.net/1903/29070
dc.language.isoen_USen_US
dc.publisherSpringer Natureen_US
dc.relation.isAvailableAtCollege of Agriculture & Natural Resourcesen_us
dc.relation.isAvailableAtAnimal & Avian Sciencesen_us
dc.relation.isAvailableAtDigital Repository at the University of Marylanden_us
dc.relation.isAvailableAtUniversity of Maryland (College Park, MD)en_us
dc.subjectCattleen_US
dc.subjectSingle sperm sequencingen_US
dc.subjectCopy number variationen_US
dc.titleTowards the detection of copy number variation from single sperm sequencing in cattleen_US
dc.typeArticleen_US

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