Back to Search
Start Over
The Pacific Biosciences de novo assembled genome dataset from a parthenogenetic New Zealand wild population of the longhorned tick, Haemaphysalis longicornis Neumann, 1901
- Source :
- Data in Brief, Vol 27, Iss, Pp-(2019)
- Publication Year :
- 2019
- Publisher :
- Elsevier, 2019.
-
Abstract
- The longhorned tick, Haemaphysalis longicornis, feeds upon a wide range of bird and mammalian hosts. Mammalian hosts include cattle, deer, sheep, goats, humans, and horses. This tick is known to transmit a number of pathogens causing tick-borne diseases, and was the vector of a recent serious outbreak of oriental theileriosis in New Zealand. A New Zealand-USA consortium was established to sequence, assemble, and annotate the genome of this tick, using ticks obtained from New Zealand's North Island. In New Zealand, the tick is considered exclusively parthenogenetic and this trait was deemed useful for genome assembly. Very high molecular weight genomic DNA was sequenced on the Illumina HiSeq4000 and the long-read Pac Bio Sequel platforms. Twenty-eight SMRT cells produced a total of 21.3 million reads which were assembled with Canu on a reserved supercomputer node with access to 12 TB of RAM, running continuously for over 24 days. The final assembly dataset consisted of 34,211 contigs with an average contig length of 215,205 bp. The quality of the annotated genome was assessed by BUSCO analysis, an approach that provides quantitative measures for the quality of an assembled genome. Over 95% of the BUSCO gene set was found in the assembled genome. Only 48 of the 1066 BUSCO genes were missing and only 9 were present in a fragmented condition. The raw sequencing reads and the assembled contigs/scaffolds are archived at the National Center for Biotechnology Information. Keywords: Tick genome, Pac Bio de novo assembly, Genome annotation, Cattle tick
- Subjects :
- 2. Zero hunger
0303 health sciences
education.field_of_study
Multidisciplinary
Contig
Population
Sequence assembly
Genome project
Biology
Tick
biology.organism_classification
lcsh:Computer applications to medicine. Medical informatics
Genome
03 medical and health sciences
0302 clinical medicine
Evolutionary biology
lcsh:R858-859.7
Haemaphysalis longicornis
education
lcsh:Science (General)
Gene
030217 neurology & neurosurgery
030304 developmental biology
lcsh:Q1-390
Subjects
Details
- Language :
- English
- ISSN :
- 23523409
- Volume :
- 27
- Database :
- OpenAIRE
- Journal :
- Data in Brief
- Accession number :
- edsair.doi.dedup.....6ec22914813a6b436a726ae295651243