Rhipicephalus microplus

Overview

The Metastriata line of hard ticks consists of 13 genera and over 459 species, including many species of medical and veterinary importance across the genera Rhipicephalus, Hyalomma, Hemaphysalis, Amblyomma, and Dermacentor. Rhipicephalus (Boophilus) microplus, the southern cattle tick, is a livestock ectoparasite that is a vector for the pathogenic organisms causing bovine babesiosis and anaplasmosis. Annual economic losses attributable to R. microplus infestations have been recently estimated in Brazil alone to be approximately $2 billion.  

R. microplus was a serious cattle pest in the U. S. in the early 1900s, with estimated annual losses to the U. S. cattle industry of $3 billion in today's dollars. An aggressive control program led to the eradication of the tick from the U. S. However, ecological and climactic factors have emerged that threaten the eradication status of the U.S. with regards to R. microplus. This drove the initiation of a cattle tick genome sequencing project in 2005, focusing upon acquisition of ESTs and gene-rich regions of the genome, as the estimated genome size of 7.1 Gbp and the highly repetitive nature precluded whole genome sequencing at that time. Eventual maturation of long-read sequencing technologies enabled a hybrid Pac Bio-Illumina sequencing/assembly approach for the project. We generated long reads of very high molecular weight genomic DNA by PacBio protocols. A subset of these reads was error-corrected by an assembled set of Illumina-generated contigs sourced from genomic DNA purified by reassociation kinetics protocols selecting for the unique low-copy genome fraction.

This data was generated by an international effort led by Dr. Felix D. Guerrero (USDA-ARS Knipling-Bushland U. S. Livestock Insects Research Laboratory, Kerrville, TX, USA) with fellow project consortium leaders Dr. Matthew I. Bellgard (Centre for Comparative Genomics, Murdoch University, Murdoch, Australia) and Dr. Robert J. Miller (USDA-ARS Cattle Fever Tick Research Laboratory, Edinburg, TX, USA) through funds provided by USDA-ARS.

 

Lead Contact: Dr. Felix D. Guerrero, Research Physiologist (Insects), USDA-ARS Knipling-Bushland U. S. Livestock Insects Research Laboratory, Veterinary Pest Genomics Center, Kerrville, TX, USA, Felix.Guerrero@ars.usda.gov.
 

Please cite the following publication(s) when using this dataset:

RA BARRERO, GUERRERO, FD, BLACK, M, MCCOOKE, J, CHAPMAN, B, SCHILKEY, F, PEREZ DE LEON, AA, MILLER, RJ, BRUNS, S, DOBRY, J, MIKHAYLENKO, G, STORMO, K, BELL, C, TAO, Q, BOGDEN, R, MOOLHUIJZEN, PM, HUNTER, A, BELLGARD, MI, Gene-enriched draft genome of the cattle tick Rhipicephalus microplus: assembly by the hybrid Pacific Biosciences/Illumina approach enabled analysis of the highly repetitive genome International Journal for Parasitology, 47:569-583 (2017).
 
JK McCOOKE, GUERRERO, FD, BARRERO, RA, BLACK, M, HUNTER, A, BELL, C, SCHILKEY, F, MILLER, RJ, BELLGARD, MI, The mitochondrial genome of a Texas outbreak strain of the cattle tick, Rhipicephalus (Boophilus) microplus, derived from whole genome sequencing Pacific Biosciences and Illumina reads, Gene, 571:135-141 (2015).
 
FD GUERRERO, MOOLHUIJZEN, P, PETERSON, DG, BIDWELL, S, CALER, E, BELLGARD, M, NENE, VM, DJIKENG, A, Reassociation kinetics-based approach for partial genome sequencing of the cattle tick, Rhipicephalus (Boophilus) microplus, BMC Genomics 11: 374 (2010).
 

Community contact:

Image Credit: Two Rhipicephalus microplus replete females by Jason Tidwell, license: CC-BY-SA 4.0
Feature Summary
The following features are currently present for this organism
Feature TypeCount
There are no feature counts to report. If you have loaded features for this organism then re-populate the organism_feature_count materialized view.
Organism Image
Contig N50
NA
Scaffold N50
60268
Number Of Genes
NA
Community Contact
Community Contact: 
Felix D. Guerrero|Felix.Guerrero@ars.usda.gov
Image Credit
Two Rhipicephalus microplus replete females by Jason Tidwell, license: <a href="https://creativecommons.org/licenses/by-sa/4.0/">CC-BY-SA 4.0</a>

Assembly Information

Analysis Name Rhipicephalus microplus genome assembly Rmi v2.0 (GCA_002176555.1)
Software SOAPdenovo v. MAY-2015; Ray v. MAY-2015; Cap3 v. JUNE-2015; PBJelly v. NOVEMBER-2015; CANU v. DECEMBER-2015 (NA)
Source SAMN04492774
Date performed 2017-06-07
Materials & Methods

Methods are available in: Barrero et al. 2017 Int J Parasitol 47(9):569-583. doi: 10.1016/j.ijpara.2017.03.007. If using this dataset, please cite this paper, as well as:

JK McCOOKE, GUERRERO, FD, BARRERO, RA, BLACK, M, HUNTER, A, BELL, C, SCHILKEY, F, MILLER, RJ, BELLGARD, MI, The mitochondrial genome of a Texas outbreak strain of the cattle tick, Rhipicephalus (Boophilus) microplus, derived from whole genome sequencing Pacific Biosciences and Illumina reads, Gene, 571:135-141 (2015).
 
FD GUERRERO, MOOLHUIJZEN, P, PETERSON, DG, BIDWELL, S, CALER, E, BELLGARD, M, NENE, VM, DJIKENG, A, Reassociation kinetics-based approach for partial genome sequencing of the cattle tick, Rhipicephalus (Boophilus) microplus, BMC Genomics 11: 374 (2010).

Statistics

Assembly Metrics
Contig N50 NA
Scaffold N50 60268
GC Content 42.99