Genome assembly and transcriptome resource for river buffalo, Bubalus bubalis (2n = 50)
نویسندگان
چکیده
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.
منابع مشابه
A radiation hybrid map of river buffalo (Bubalus bubalis) chromosome 7 and comparative mapping to the cattle and human genomes.
A preliminary radiation hybrid (RH) map containing 50 loci on chromosome 7 of the domestic river buffalo Bubalus bubalis (BBU; 2n = 50) was constructed based on a comparative mapping approach. The RH map of BBU7 includes thirty-seven gene markers and thirteen microsatellites. All loci have been previously assigned to Bos taurus (BTA) chromosome BTA6, which is known for its association with seve...
متن کاملMitochondrial DNA Variability of Domestic River Buffalo (Bubalus bubalis) Populations: Genetic Evidence for Domestication of River Buffalo in Indian Subcontinent
River buffalo, Bubalus bubalis is a large bovine species frequently used livestock in southern Asia. It is believed that the river buffalo was domesticated from Bubalus arnee, the wild buffalo of mainland Asia, a few thousand years ago, probably during the period of Indus Valley civilization. However, the domestication history of the river buffalo has been the subject of debate for many decades...
متن کاملConstruction and preliminary characterization of a river buffalo bacterial artificial chromosome library.
River buffalo genome analyses have advanced significantly in the last decade, and the genome sequence of Bubalus bubalis will be available shortly. Nonetheless, large-insert DNA library resources such as bacterial artificial chromosomes (BAC) are still required for validation and accurate assembly of the genome sequence. We constructed a river buffalo BAC library containing 52,224 clones ...
متن کاملCytogenetic identification of Khuzestani water Buffalo
The domestic water buffalo (Bubalus bubalis) is an economically important livestock species in many Asian and Mediterranean countries. Two types of water buffalos are river and swamp buffaloes. Genetically, the swamp buffalo has 48 chromosomes (2n = 48) and the river buffalo has 50 chromosomes (2n = 50). Khuzestan province is one of the important centers of buffalo farming in ...
متن کاملCaudal Extradural Analgesia with Lidocaine, Xylazine, and a Combination of Lidocaine and Xylazine in the Iranian River Buffalo (Bubalus bubalis)
Objective- To compare the time of onset, duration of action and the extent of analgesia produced by a lidocaine/xylazine combination with that produced by lidocaine and xylazine alone after injection into the caudal extradural space of the Iranian river buffalo. Design- Observer-blind prospective descriptive trial, Latin square design. Animals- Eleven adult (aged over 2 years) female non-...
متن کامل