ArticleBMC genomics2010
Reassociation kinetics-based approach for partial genome sequencing of the cattle tick, Rhipicephalus (Boophilus) microplus.
Article in BMC genomics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
13 citing papers in PubMed, 35 citations in OpenAlex.
- Rhipicephalus (Boophilus) microplus aquaporin as an effective vaccine antigen to protect against cattle tick infestations.Parasites & vectors · 2014Trial
- Harnessing 50 years of tick population genetics: Choosing the right molecular tool for contemporary research.The Journal of animal ecology · 2025Review
- Host Immune Responses to Salivary Components - A Critical Facet of Tick-Host Interactions.Frontiers in cellular and infection microbiology · 2022Review
- Raw pacific biosciences and illumina sequencing reads and assembled genome data for the cattle ticksData in brief · 2021Article
- The Pacific BiosciencesData in brief · 2019Article
- Genome Sequence of Coxiella-Like Endosymbiont Strain CLE-RmD, a Bacterial Agent in the Cattle Tick (Rhipicephalus microplus) Deutsch Strain.Genome announcements · 2018Article
- A Roadmap for Tick-Borne Flavivirus Research in the "Omics" Era.Frontiers in cellular and infection microbiology · 2017Review
- Tick Genome Assembled: New Opportunities for Research on Tick-Host-Pathogen Interactions.Frontiers in cellular and infection microbiology · 2016Article
- Acetylcholinesterase 1 in populations of organophosphate-resistant North American strains of the cattle tick, Rhipicephalus microplus (Acari: Ixodidae).Parasitology research · 2015Article
- Why so many unknown genes? Partitioning orphans from a representative transcriptome of the lone star tick Amblyomma americanum.BMC genomics · 2013Article
- diArk 2.0 provides detailed analyses of the ever increasing eukaryotic genome sequencing data.BMC research notes · 2011Article
- The complexity of Rhipicephalus (Boophilus) microplus genome characterised through detailed analysis of two BAC clones.BMC research notes · 2011Article
- The Global Invertebrate Genomics Alliance (GIGA): developing community resources to study diverse invertebrate genomes.The Journal of heredityArticle
Corrections and comments
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Authors and funding
8 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe size and repetitive nature of the Rhipicephalus microplus genome makes obtaining a full genome sequence fiscally and technically problematic. To selectively obtain gene-enriched regions of this tick's genome, Cot filtration was performed, and Cot-filtered DNA was sequenced via 454 FLX pyrosequencing.
resultsThe sequenced Cot-filtered genomic DNA was assembled with an EST-based gene index of 14,586 unique entries where each EST served as a potential "seed" for scaffold formation. The new sequence assembly extended the lengths of 3,913 of the 14,586 gene index entries. Over half of the extensions corresponded to extensions of over 30 amino acids. To survey the repetitive elements in the tick genome, the complete sequences of five BAC clones were determined. Both Class I and II transposable elements were found. Comparison of the BAC and Cot filtration data indicates that Cot filtration was highly successful in filtering repetitive DNA out of the genomic DNA used in 454 sequencing.
conclusionCot filtration is a very useful strategy to incorporate into genome sequencing projects on organisms with large genome sizes and which contain high percentages of repetitive, difficult to assemble, genomic DNA. Combining the Cot selection approach with 454 sequencing and assembly with a pre-existing EST database as seeds resulted in extensions of 27% of the members of the EST database.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.