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

Merly Escalona; Jake Vancampen; Nicholas W. Maurer; Marina Haukness; Mariam Okhovat; Robert S. Harris; Allison Watwood; Gabrielle A. Hartley; Rachel J. O'neill; Paul Medvedev; Kateryna D. Makova; Christopher Vollmers; Lucia Carbone; Richard E. Green

doi:10.1093/jhered/esac043

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

Merly Escalona, Jake Vancampen, Nicholas W. Maurer, Marina Haukness, Mariam Okhovat, Robert S. Harris, Allison Watwood, Gabrielle A. Hartley, Rachel J. O'neill, Paul Medvedev, Kateryna D. Makova, Christopher Vollmers, Lucia Carbone, Richard E. Green

Research output: Contribution to journal › Article › peer-review

2 Scopus citations

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.

Original language	English (US)
Pages (from-to)	35-43
Number of pages	9
Journal	Journal of Heredity
Volume	114
Issue number	1
DOIs	https://doi.org/10.1093/jhered/esac043
State	Published - Jan 1 2023

Keywords

Hi-C
genome assembly
gibbon
long reads
proximity ligation

ASJC Scopus subject areas

General Medicine

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10.1093/jhered/esac043

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title = "Whole-genome sequence and assembly of the Javan gibbon (Hylobates moloch)",

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.",

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doi = "10.1093/jhered/esac043",

language = "English (US)",

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AU - Escalona, Merly

AU - Vancampen, Jake

AU - Maurer, Nicholas W.

AU - Haukness, Marina

AU - Okhovat, Mariam

AU - Harris, Robert S.

AU - Watwood, Allison

AU - Hartley, Gabrielle A.

AU - O'neill, Rachel J.

AU - Medvedev, Paul

AU - Makova, Kateryna D.

AU - Vollmers, Christopher

AU - Carbone, Lucia

AU - Green, Richard E.

PY - 2023/1/1

Y1 - 2023/1/1

N2 - 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.

AB - 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.

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KW - genome assembly

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KW - long reads

KW - proximity ligation

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

Abstract

Keywords

ASJC Scopus subject areas

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