Whole-genome sequence and assembly of the Javan gibbon (Hylobates moloch)

Author:

Escalona Merly1ORCID,VanCampen Jake2,Maurer Nicholas W1,Haukness Marina13,Okhovat Mariam2,Harris Robert S4,Watwood Allison4,Hartley Gabrielle A56,O’Neill Rachel J56,Medvedev Paul78910ORCID,Makova Kateryna D478,Vollmers Christopher1,Carbone Lucia2111213,Green Richard E1ORCID

Affiliation:

1. Department of Biomolecular Engineering, University of California–Santa Cruz , Santa Cruz, CA 95064 , USA

2. Department of Medicine, Knight Cardiovascular Institute, Oregon Health and Science University , Portland, OR 97239 , USA

3. University of California Santa Cruz Genomics Institute , Santa Cruz, CA 95064 , USA

4. Department of Biology, Pennsylvania State University , University Park, PA , USA

5. Department of Molecular and Cell Biology, University of Connecticut , Storrs, CT 06296 , USA

6. Institute for Systems Genomics, University of Connecticut , Storrs, CT 06296 , USA

7. Center for Medical Genomics, Pennsylvania State University , University Park, PA , USA

8. Center for Computational Biology and Bioinformatics, Pennsylvania State University , University Park, PA , USA

9. Department of Computer Science and Engineering, Pennsylvania State University , University Park, PA , USA

10. Department of Biochemistry and Molecular Biology, Pennsylvania State University , University Park, PA , USA

11. Department of Molecular and Medical Genetics, Oregon Health and Science University , Portland, OR 97239 , USA

12. Division of Genetics, Oregon National Primate Research Center , Beaverton, OR 97006 , USA

13. Department of Informatics and Clinical Epidemiology, Oregon Health and Science University , Portland, OR 97239 , USA

Abstract

Abstract The Javan gibbon, Hylobates moloch, is an endangered gibbon species restricted to the forest remnants of western and central Java, Indonesia, and one of the rarest of the Hylobatidae family. Hylobatids consist of 4 genera (Holoock, Hylobates, Symphalangus, and Nomascus) that are characterized by different numbers of chromosomes, ranging from 38 to 52. The underlying cause of this karyotype plasticity is not entirely understood, at least in part, due to the limited availability of genomic data. Here we present the first scaffold-level assembly for H. moloch using a combination of whole-genome Illumina short reads, 10X Chromium linked reads, PacBio, and Oxford Nanopore long reads and proximity-ligation data. This Hylobates genome represents a valuable new resource for comparative genomics studies in primates.

Funder

National Human Genome Research Institute

National Science Foundation

National Institute of General Medical Sciences

Publisher

Oxford University Press (OUP)

Subject

Genetics (clinical),Genetics,Molecular Biology,Biotechnology

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