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. Funded by USDA-ARS Knipling-Bushland US Livestock Insects Research Laboratory CRIS project 3094-32000-036-00
Data from: The Pacific Biosciences de novo assembled genome dataset from a parthenogenetic New Zealand wild population of the longhorned tick, Haemaphysalis longicornis Neumann, 1901
L o a d i n g
Organization
United States Department of Agriculture - view all
Update frequencyunknown
Last updatedover 1 year ago
Format
OverviewNP104Pac Bio de novo assemblycattle tickgenome annotationtick genome
Additional Information
KeyValue
Dataset AssuranceUNKNOWN
Dcat Modified2022-09-28
Dcat Publisher NameAgricultural Research Service
Guid7adf0a3c-5965-478a-834b-d39edb320dc8
Harvest Object Id4b849885-4114-4f7e-8fcf-add8b1c4a36f
Harvest Source Id2c0b1e04-ba48-4488-9de5-0dab41f9913f
Harvest Source TitleUSDA Open Data Catalog
Language
Sensitivity ClassUNKNOWN
Trust FrameworkUNKNOWN