Data from: Raw Pacific Biosciences and Illumina sequencing reads and assembled genome data for cattle ticks Rhipicephalus microplus and Rhipicephalus annulatus | Ag Data Commons

The Ag Data Commons is migrating

The Ag Data Commons is migrating to a new institutional portal on Figshare. The current system is available for search and download only. The new platform is open for submission with assistance from Ag Data Commons curators. Please contact NAL-ADC-Curator@usda.gov, if you need to publish or update your datasets.

Data from: Raw Pacific Biosciences and Illumina sequencing reads and assembled genome data for cattle ticks Rhipicephalus microplus and Rhipicephalus annulatus

This study produced reference quality genomes of two cattle ticks Rhipicephalus microplus and Rhipicephalus annulatus, which can be used to identify drug targets with acaricidal activity and refine anti-tick vaccine approaches.

Raw pacific biosciences and illumina sequencing reads and assembled genome data for the cattle ticks Rhipicephalus microplus and Rhipicephalus annulatushtml
Files referenced in the article may be found in the related content section...
Explore Data

Field	Value
Tags	Rhipicephalus microplus Rhipicephalus annulatus PacBio genome sequencing Large genome assembly cattle tick Canu assembler NP104
Modified	2022-09-30
Release Date	2021-03-18
Identifier	25ceb83d-ef01-47a0-98d4-83999e8a82d6
Spatial / Geographical Coverage Area	POINT (-98.344652 26.398596)
Publisher	NCBI
Spatial / Geographical Coverage Location	USDA-ARS Cattle Fever Tick Research Laboratory, United States Department of Agriculture, 22675 N. Moorefield Rd, Edinburg, TX 78541, USA
Temporal Coverage	January 1, 2001 to December 31, 2018
License	Creative Commons CCZero
Contact Name	Bendele, Kylie
Contact Email	Kylie.Bendele@usda.gov
Public Access Level	Public
Program Code	005:040 - Department of Agriculture - National Research
Bureau Code	005:18 - Agricultural Research Service

Extended Metadata:

Field	Value
Authors	Guerrero, Felix D. (ORCID) Ghaffari, Noushin (ORCID) Bendele, Kylie G. (ORCID) Metz, Richard P. (ORCID) Dickens, C. Michael (ORCID) Blood, Phillip D. (ORCID) Tidwell, Jason (ORCID) Miller, Robert J. (ORCID) Pérez de León, Adalberto A. (ORCID) Teel, Pete D. (ORCID) Johnson, Charles D. (ORCID)
Peer Reviewed	No
Intended Use	These are high quality genomes of important cattle parasites that vector bovine pathogens. Researchers studying arachnids and tick genomics, comparative genomics, and arachnids evolution will find the assembled genome valuable. The datasets can be used to study genes involved in the development of pesticide resistance in these economically important tick species. Genes present in these genomes can provide foundational data for research to identify drug targets for chemical entities with acaricidal activity and also refine anti-tick vaccine approaches.
Equipment or Software Used	Pacific Biosciences Sequel Illumina HiSeq2000 Canu v 1.7 BUSCO v3.0.2 ArrowGrid BamTools v2.5.1 Purge_Haplotigs v1.0.4 NUCmer v3.9+ & MUMmer 3.2.3 Dovetail Genomics Hi-C Dovtail Genomics HiRise
Funding Sources	Agricultural Research Service 3094-32000-036-00D Agricultural Research Service Cooperative Agreement No. 58-3094-6-017 National Science Foundation ACI-1548562 National Science Foundation ACI-1445606
Primary Article	Guerrero, F. D., Ghaffari, N., Bendele, K. G., Metz, R. P., Dickens, C. M., Blood, P. D., Tidwell, J., Miller, R. J., de León, A. A. P., Teel, P. D., & Johnson, C. D. (2021). Raw pacific biosciences and illumina sequencing reads and assembled genome data for the cattle ticks Rhipicephalus microplus and Rhipicephalus annulatus. Data in Brief, 35, 106852. https://doi.org/10.1016/j.dib.2021.106852 AgID: 10113/7267162
Method Citation	Guerrero, F. D., Ghaffari, N., Bendele, K. G., Metz, R. P., Dickens, C. M., Blood, P. D., Tidwell, J., Miller, R. J., de León, A. A. P., Teel, P. D., & Johnson, C. D. (2021). Raw pacific biosciences and illumina sequencing reads and assembled genome data for the cattle ticks Rhipicephalus microplus and Rhipicephalus annulatus. Data in Brief, 35, 106852. https://doi.org/10.1016/j.dib.2021.106852 AgID: 10113/7267162
Dataset DOI (digital object identifier)	10.1016/j.dib.2021.106852
Related Content	BioProject PRJNA552342 Rhipicephalus microplus BioProject PRJNA593711Rhipicephalus annulatus BioSample SAMN15650923 Rhipicephalus annulatus Klein grass engorged adult female intestines BioSample SAMN15650921 Rhipicephalus annulatus Klein grass 2hr fed females BioSample SAMN15650920 Rhipicephalus annulatus Klein grass 3hr frustrated females BioSample SAMN12497614 Rhipicephalus annulatus Klein grass eggs BioSample SAMN06075429 Rhipicephalus microplus Deutsch strain eggs BioSample SAMN15650924 Rhipicephalus annulatus Klein grass unfed adult females BioSample SAMN15650925 Rhipicephalus annulatus Klein grass 10 day old unfed larvae BioSample SAMN15650926 Rhipicephalus annulatus Klein grass Haller’s organs BioSample SAMN15650922 Rhipicephalus annulatus Klein grass engorged adult ovaries BioSample SAMN15650948 Rhipicephalus microplus Deutsch 10-day-old unfed larvae BioSample SAMN15650949 Rhipicephalus microplus Deutsch Haller’s organ BioSample SAMN15650947 Rhipicephalus microplus Deutsch engorged female intestines BioSample SAMN15650946 Rhipicephalus microplus Deutsch engorged female ovaries BioSample SAMN15650945 Rhipicephalus microplus Deutsch 3hr frustrated females BioSample SAMN15650944 Rhipicephalus microplus Deutsch 2hr fed females BioSample SAMN15650943 Rhipicephalus microplus Deutsch unfed females SRA SRR12508559 Rhipicephalus annulatus Klein grass Illumina HiSeq unfed adult females SRA SRR12508560 Rhipicephalus annulatus Klein grass Illumina HiSeq engorged adult female intestines SRA SRR12508557 Rhipicephalus annulatus Klein grass Illumina HiSeq Haller’s organ SRA SRR10009121 Rhipicephalus annulatus PacBio Sequel reads SRA SRR12508561 Rhipicephalus annulatus Klein grass Illumina HiSeq engorged adult ovaries SRA SRR12508558 Rhipicephalus annulatus Klein grass Illumina HiSeq 10 day old unfed larvae SRA SRR13614649 Rhipicephalus microplus Deutsch Illumina HiSeq unfed females SRA SRR12508563 Rhipicephalus annulatus Klein grass Illumina HiSeq frustrated adult females SRA SRR13614648 Rhipicephalus microplus Deutsch Illumina HiSeq 2hr fed females SRA SRR13614647 Rhipicephalus microplus Deutsch Illumina HiSeq frustrated adult females SRA SRR13614646 Rhipicephalus microplus Deutsch Illumina HiSeq Engorged Adult Ovary SRA SRR13614645 Rhipicephalus microplus Deutsch Illumina HiSeq Engorged Adult Intestine SRA SRR13614644 Rhipicephalus microplus Deutsch Illumina HiSeq10-day-old unfed larvae SRA SRR13614643 Rhipicephalus microplus Deutsch Illumina HiSeq Haller’s organ SRA SRR10034978 Rhipicephalus microplus Illumina Dovetail Hi-C reads SRA SRR9875273 Rhipicephalus microplus PacBio Sequel reads SRA SRR12508562 Rhipicephalus annulatus Klein grass Illumina HiSeq 2hr fed adult females Whole Genome Shotgun (WGS) WOVY00000000 Rhipicephalus annulatus Whole Genome Shotgun (WGS) WOVZ00000000 Rhipicephalus microplus
Preferred Dataset Citation	Guerrero, F. D., Ghaffari, N., Bendele, K. G., Metz, R. P., Dickens, C. M., Blood, P. D., Tidwell, J., Miller, R. J., de León, A. A. P., Teel, P. D., & Johnson, C. D. (2021). Raw pacific biosciences and illumina sequencing reads and assembled genome data for the cattle ticks Rhipicephalus microplus and Rhipicephalus annulatus. Data in Brief (Vol. 35, p. 106852). Elsevier BV. https://doi.org/10.1016/j.dib.2021.106852

Field	Value
ARIS Log Number	376653
ISO Topic(s)	farming
State or Territory	Texas
National Agricultural Library Thesaurus Term	ticks Rhipicephalus microplus Rhipicephalus annulatus acaricidal properties vaccines genome assembly cattle pathogens genes pesticide resistance pest control tick control
Ag Data Commons Keywords	Genomics & Genetics Genome Genomics & Genetics Agroecosystems & Environment Parasites and Vectors Agroecosystems & Environment
Program	Veterinary Pest Genomics Center Knipling-Bushland U.S. Livestock Insects Research Laboratory Tick and Biting Fly Research Unit

Suggested Citations:

(original article) Guerrero, F. D., Ghaffari, N., Bendele, K. G., Metz, R. P., Dickens, C. M., Blood, P. D., Tidwell, J., Miller, R. J., de León, A. A. P., Teel, P. D., & Johnson, C. D. (2021). Raw pacific biosciences and illumina sequencing reads and assembled genome data for the cattle ticks Rhipicephalus microplus and Rhipicephalus annulatus. Data in Brief, 35, 106852. https://doi.org/10.1016/j.dib.2021.106852

(dataset) Guerrero, F. D., Ghaffari, N., Bendele, K. G., Metz, R. P., Dickens, C. M., Blood, P. D., Tidwell, J., Miller, R. J., de León, A. A. P., Teel, P. D., & Johnson, C. D (2021). Raw pacific biosciences and illumina sequencing reads and assembled genome data for the cattle ticks Rhipicephalus microplus and Rhipicephalus annulatus. Data in Brief (Vol. 35, p 106852). Elsevier BV. https://doi.org/10.1016/j.dib.2021.106852