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Towards the detection of copy number variation from single sperm sequencing in cattle
Year:
2022
Source of publication :
BMC Genomics
Authors :
Seroussi, Eyal
;
.
Volume :
23
Co-Authors:
  • Liu Yang, 
  • Yahui Gao, 
  • Adam Oswalt, 
  • Lingzhao Fang, 
  • Clarissa Boschiero, 
  • Mahesh Neupane, 
  • Charles G. Sattler, 
  • Cong-jun Li, 
  • Eyal Seroussi, 
  • Lingyang Xu, 
  • Lv Yang, 
  • Li Li, 
  • Hongping Zhang, 
  • Benjamin D. Rosen, 
  • Curtis P. Van Tassell, 
  • Yang Zhou, 
  • Li Ma  
  • George E. Liu 
Facilitators :
From page:
1
To page:
9
(
Total pages:
9
)
Abstract:

Background
Copy 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.


Results
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.


Conclusion
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.

Note:
Related Files :
cattle
copy number variation
Single sperm sequencing
Show More
Related Content
More details
DOI :
10.1186/s12864-022-08441-8
Article number:
215
Affiliations:
Database:
Scopus
Publication Type:
article
;
.
Language:
English
Editors' remarks:
ID:
58281
Last updated date:
04/04/2022 11:31
Creation date:
27/03/2022 16:46
You may also be interested in
Scientific Publication
Towards the detection of copy number variation from single sperm sequencing in cattle
23
  • Liu Yang, 
  • Yahui Gao, 
  • Adam Oswalt, 
  • Lingzhao Fang, 
  • Clarissa Boschiero, 
  • Mahesh Neupane, 
  • Charles G. Sattler, 
  • Cong-jun Li, 
  • Eyal Seroussi, 
  • Lingyang Xu, 
  • Lv Yang, 
  • Li Li, 
  • Hongping Zhang, 
  • Benjamin D. Rosen, 
  • Curtis P. Van Tassell, 
  • Yang Zhou, 
  • Li Ma  
  • George E. Liu 
Towards the detection of copy number variation from single sperm sequencing in cattle

Background
Copy 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.


Results
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.


Conclusion
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.

Scientific Publication
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