Genome assembly and transcriptome resource for river buffalo, Bubalus bubalis (2n = 50).

Abstract

Water buffalo is a globally important species for agriculture and local economies. A de novo assembled, well-annotated reference sequence for the water buffalo is an important prerequisite for studying the biology of this species, and is necessary to manage genetic diversity and to use modern breeding and genomic selection techniques. However, no such genome assembly has been previously reported. There are 2 species of domestic water buffalo, the river (2 n = 50) and the swamp (2 n = 48) buffalo. Here we describe a draft quality reference sequence for the river buffalo created from Illumina GA and Roche 454 short read sequences using the MaSuRCA assembler. The assembled sequence is 2.83 Gb, consisting of 366 983 scaffolds with a scaffold N50 of 1.41 Mb and contig N50 of 21 398 bp. Annotation of the genome was supported by transcriptome data from 30 tissues and identified 21 711 predicted protein coding genes. Searches for complete mammalian BUSCO gene groups found 98.6% of curated single copy orthologs present among predicted genes, which suggests a high level of completeness of the genome. The annotated sequence is available from NCBI at accession GCA_000471725.1.

DOI: 10.1093/gigascience/gix088

Cite this paper

@article{Minozzi2017GenomeAA, title={Genome assembly and transcriptome resource for river buffalo, Bubalus bubalis (2n = 50).}, author={Giulietta Minozzi and Daniela Iamartino and Kim D. Pruitt and Tad S. Sonstegard and Timothy L Smith and Wai Yee Low and Tommaso Biagini and L. Bomba and Stefano Capomaccio and Bianca M. Castiglioni and Angelo Coletta and Federica Corrado and Fabrizio Ferr{\`e} and Leopoldo Iannuzzi and Cynthia Taylor Lawley and Nicol{\`o} Pietro Paolo Macciotta and Matthew Charles McClure and Giordano Mancini and Donato Matassino and Raffaele Mazza and Marco Milanesi and Bianca Moioli and Nicola Morandi and Luigi Ramunno and Vincenzo Peretti and Fabio Pilla and Paola Ramelli and Steven G. Schroeder and Francesco Strozzi and Françoise Thibaud-Nissen and Luigi Zicarelli and Paolo Ajmone-Marsan and Alessio Valentini and Giovanni Chillemi and Aleksey V. Zimin}, journal={GigaScience}, year={2017}, volume={6 10}, pages={1-6} }