Please use this identifier to cite or link to this item:
https://hdl.handle.net/2440/125385
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Type: | Journal article |
Title: | Chromosome-level assembly of the water buffalo genome surpasses human and goat genomes in sequence contiguity |
Author: | Low, W.Y. Tearle, R. Bickhart, D. Rosen, B. Kingan, S. Swale, T. Thibaud-Nissen, F. Murphy, T. Young, R. lefevre, L. Hume, D. Collins, A. Ajmone-Marsan, P. Smith, T. Williams, J. |
Citation: | Nature Communications, 2019; 10(1):1-11 |
Publisher: | Nature Research |
Issue Date: | 2019 |
ISSN: | 2041-1723 2041-1723 |
Statement of Responsibility: | Wai Yee Low, Rick Tearle, Derek M. Bickhart, Benjamin D. Rosen ... Wai Low ... John Williams ... et al. |
Abstract: | Rapid innovation in sequencing technologies and improvement in assembly algorithms have enabled the creation of highly contiguous mammalian genomes. Here we report a chromosome-level assembly of the water buffalo (Bubalus bubalis) genome using single-molecule sequencing and chromatin conformation capture data. PacBio Sequel reads, with a mean length of 11.5 kb, helped to resolve repetitive elements and generate sequence contiguity. All five B. bubalis sub-metacentric chromosomes were correctly scaffolded with centromeres spanned. Although the index animal was partly inbred, 58% of the genome was haplotype-phased by FALCON-Unzip. This new reference genome improves the contig N50 of the previous short-read based buffalo assembly more than a thousand-fold and contains only 383 gaps. It surpasses the human and goat references in sequence contiguity and facilitates the annotation of hard to assemble gene clusters such as the major histocompatibility complex (MHC). |
Keywords: | Comparative genomics; genome; sequencing; zoology |
Description: | Published: 16 January 2019 |
Rights: | © The Author(s) 2019. Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
DOI: | 10.1038/s41467-018-08260-0 |
Published version: | http://dx.doi.org/10.1038/s41467-018-08260-0 |
Appears in Collections: | Animal and Veterinary Sciences publications Aurora harvest 4 |
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hdl_125385.pdf | Published version | 2.36 MB | Adobe PDF | View/Open |
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