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牛蜱的原始太平洋生物科学公司和Illumina测序读数以及组装的基因组数据。 (你提供的原文最后“and.”表述不完整,可能影响理解。)

Raw pacific biosciences and illumina sequencing reads and assembled genome data for the cattle ticks and .

作者信息

Guerrero Felix D, Ghaffari Noushin, Bendele Kylie G, Metz Richard P, Dickens C Michael, Blood Philip D, Tidwell Jason, Miller Robert J, de León Adalberto A Pérez, Teel Pete D, Johnson Charles D

机构信息

USDA-ARS Knipling-Bushland US Livestock Insect Research Laboratory and Veterinary Pest Genomics Center, 2700 Fredericksburg Road, Kerrville, TX 78028, USA.

Department of Computer Science, Roy G. Perry College of Engineering, Prairie View A&M University, Prairie View, TX 77446, USA.

出版信息

Data Brief. 2021 Feb 6;35:106852. doi: 10.1016/j.dib.2021.106852. eCollection 2021 Apr.

DOI:10.1016/j.dib.2021.106852
PMID:33644273
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7893435/
Abstract

Ticks from the genus have enormous global economic impact as ectoparasites of cattle. and are known to harbor infectious pathogens such as , and . Having reference quality genomes of these ticks would advance research to identify druggable targets for chemical entities with acaricidal activity and refine anti-tick vaccine approaches. We sequenced and assembled the genomes of and , using Pacific Biosciences and HiSeq 4000 technologies on very high molecular weight genomic DNA. We used 22 and 29 SMRT cells on the Pacific Biosciences Sequel for and , respectively, and 3 lanes of the Illumina HiSeq 4000 platform for each tick. The PacBio sequence yields for and were 21.0 and 27.9 million subreads, respectively, which were assembled with Canu v. 1.7. The final Canu assemblies consisted of 92,167 and 57,796 contigs with an average contig length of 39,249 and 69,055 bp for and , respectively. Annotated genome quality was assessed by BUSCO analysis to provide quantitative measures for each assembled genome. Over 82% and 92% of the 1066 member BUSCO gene set was found in the assembled genomes of and , respectively. For , only 189 of the 1066 BUSCO genes were missing and only 140 were present in a fragmented condition. For , only 75 of the BUSCO genes were missing and only 109 were present in a fragmented condition. The raw sequencing reads and the assembled contigs/scaffolds are archived at the National Center for Biotechnology Information.

摘要

该属蜱作为牛的体外寄生虫,对全球经济有着巨大影响。已知 和 携带诸如 、 和 等传染性病原体。拥有这些蜱的参考质量基因组将推动研究,以确定具有杀螨活性的化学实体的可成药靶点,并完善抗蜱疫苗方法。我们使用太平洋生物科学公司(Pacific Biosciences)和HiSeq 4000技术,对非常高分子量的基因组DNA进行测序和组装,获得了 和 的基因组。我们分别在太平洋生物科学公司的Sequel上使用22个和29个SMRT细胞对 和 进行测序,每个蜱在Illumina HiSeq 4000平台上使用3条泳道。 和 的PacBio序列产量分别为2100万和2790万个子读数,使用Canu v. 1.7进行组装。最终的Canu组装分别由92167个和57796个重叠群组成, 和 的重叠群平均长度分别为39249 bp和69055 bp。通过BUSCO分析评估注释基因组质量,为每个组装基因组提供定量指标。在 和 的组装基因组中,分别发现了1066个成员BUSCO基因集中超过82%和92%的基因。对于 ,1066个BUSCO基因中只有189个缺失,只有140个处于片段化状态。对于 ,只有75个BUSCO基因缺失,只有109个处于片段化状态。原始测序读数和组装的重叠群/支架存档于美国国立生物技术信息中心。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9b3a/7893435/b0bd17b620fe/gr1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9b3a/7893435/b0bd17b620fe/gr1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/9b3a/7893435/b0bd17b620fe/gr1.jpg

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本文引用的文献

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BMC Bioinformatics. 2018 Nov 29;19(1):460. doi: 10.1186/s12859-018-2485-7.
2
Canu: scalable and accurate long-read assembly via adaptive -mer weighting and repeat separation.Canu:通过自适应k-mer加权和重复序列分离实现可扩展且准确的长读长序列拼接
Genome Res. 2017 May;27(5):722-736. doi: 10.1101/gr.215087.116. Epub 2017 Mar 15.
3
Chromosome-scale shotgun assembly using an in vitro method for long-range linkage.
14种抗蜱疫苗靶点在牛蜱中具有不同程度的保守性。
Parasit Vectors. 2025 Apr 15;18(1):140. doi: 10.1186/s13071-025-06683-5.
4
Genomic assessment of targets implicated in Rhipicephalus microplus acaricide resistance.微小牛蜱杀螨剂抗性相关靶标的基因组评估。
PLoS One. 2024 Dec 5;19(12):e0312074. doi: 10.1371/journal.pone.0312074. eCollection 2024.
5
Endogenous Viral Elements in Ixodid Tick Genomes.硬蜱基因组中的内源性病毒元件。
Viruses. 2023 Oct 31;15(11):2201. doi: 10.3390/v15112201.
6
More than Three Decades of Bm86: What We Know and Where to Go.Bm86的三十多年:我们所知与前行方向
Pathogens. 2023 Aug 22;12(9):1071. doi: 10.3390/pathogens12091071.
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4
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs.BUSCO:利用单拷贝同源基因评估基因组组装和注释的完整性。
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5
Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data.非杂交、基于长读长 SMRT 测序数据的完成微生物基因组组装。
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