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June 15, 2026Frontiers in GeneticsOpen Access

Detection and evaluation of copy number variation using both linked-read and short-read sequencing in New Zealand dairy cattle

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Authors

YWYu WangLivestock Improvement CorporationTNTony NugrohoLivestock Improvement CorporationTJThomas JohnsonLivestock Improvement Corporation

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Overview

Randomized trial evaluates copy number variation in New Zealand dairy cattle, suggesting a valuable resource for breeding programs.

Key Points

  • This research aims to identify and validate copy number variations (CNVs) in New Zealand dairy cattle using innovative sequencing methods.
  • Identified structural variation (SV) regions in 37 dairy cattle using linked-read sequencing data.
  • Validated 62,438 autosomal SV regions with the LongRanger pipeline following 10x Genomics recommendations.
  • Estimated copy number states in a population of 2306 animals using Illumina short-read sequencing.
  • 7218 CNV regions showed high transmission levels (>0.9), indicating strong inheritance evidence.
  • 7136 CNV regions overlapped with public datasets, while 82 regions were newly reported variants.
  • Higher transmission levels were associated with larger structural variations.

Cite This Study

Wang et al. (2026) studied this question.

synapsesocial.com/papers/6a2f95b4a1cfeec4908279fbhttps://doi.org/10.3389/fgene.2026.1856199
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Also Consider

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  4. 4121 Copy number variation: From mapping to variance components in Holsteins2024
  5. 5Genome-wide copy number variation regions in indigenous (Bos indicus) cattle breeds of Tamil Nadu, India2024 · 4 citations