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Accurate assembly of the olive baboon (Papio anubis) genome using long-read and Hi-C data.

  • Author(s): Batra, Sanjit Singh
  • Levy-Sakin, Michal
  • Robinson, Jacqueline
  • Guillory, Joseph
  • Durinck, Steffen
  • Vilgalys, Tauras P
  • Kwok, Pui-Yan
  • Cox, Laura A
  • Seshagiri, Somasekar
  • Song, Yun S
  • Wall, Jeffrey D
  • et al.
Abstract

Background

Baboons are a widely used nonhuman primate model for biomedical, evolutionary, and basic genetics research. Despite this importance, the genomic resources for baboons are limited. In particular, the current baboon reference genome Panu_3.0 is a highly fragmented, reference-guided (i.e., not fully de novo) assembly, and its poor quality inhibits our ability to conduct downstream genomic analyses.

Findings

Here we present a de novo genome assembly of the olive baboon (Papio anubis) that uses data from several recently developed single-molecule technologies. Our assembly, Panubis1.0, has an N50 contig size of ∼1.46 Mb (as opposed to 139 kb for Panu_3.0) and has single scaffolds that span each of the 20 autosomes and the X chromosome.

Conclusions

We highlight multiple lines of evidence (including Bionano Genomics data, pedigree linkage information, and linkage disequilibrium data) suggesting that there are several large assembly errors in Panu_3.0, which have been corrected in Panubis1.0.

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