更正:烟粉虱物种复合体内转座因子的表征

IF 4.7 2区 生物学 Q1 GENETICS & HEREDITY Mobile DNA Pub Date : 2022-02-02 DOI:10.21203/rs.3.rs-1312818/v1
Juan Paolo A. Sicat, Paul Visendi, Steven O. Sewe, S. Bouvaine, S. Seal
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引用次数: 0

摘要

背景白蝇是一种农业害虫,已在全球范围内造成负面影响,并导致严重的经济损失。烟粉虱(Bemisia tabaci whitefly)物种复合体具有广泛的作物宿主范围和作为300多种植物病毒载体的能力,是最具破坏性的。该物种复合体的白蝇基因组提供了有价值的基因组数据;然而,物种复合体中的转座元件(TE)仍未被探索。本研究首次对烟粉虱物种复合体中的TE含量进行了准确的探索。结果本研究确定三种粉虱(MEAM1、MEDQ和SSA-ECA)的基因组中平均40.61%由TE组成。鉴定的大多数TE是DNA转座子(平均22.85%),而SINE(平均0.14%)的代表性最低。这项研究还将三个粉蝶基因组的TE含量与其他三个半翅目基因组进行了比较,发现DNA转座子和LINE的存在存在存在显著差异。共有63个TE超家族被鉴定存在于三个粉蝶物种中(39个DNA转座子、6个LTR、16个LINE和2个SINE),其中11个TE超家庭被鉴定不存在于其他三个半翅目基因组中(9个DNA转座子和2个LINE)。这项研究首次对不同烟粉虱物种中发现的TE进行了表征,并创建了一个标准化的注释工作流程,可用于分析未来的粉虱基因组。结论本研究首次对烟粉虱群落中的TE景观进行了表征。三个粉虱基因组中这些元素的特征表明,TE占据了粉虱基因组的重要部分,其中大多数是DNA转座子。这项研究还确定了值得注意的TE超家族,并为未来在物种复合体中进行TE研究提供了框架。
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Correction: Characterization of transposable elements within the Bemisia tabaci species complex
Background Whiteflies are agricultural pests that have caused worldwide negative impacts that have led to severe financial losses. The Bemisia tabaci whitefly species complex is the most damaging in terms of their broad crop host range and its ability to serve as vector for over 300 plant viruses. Whitefly genomes of the species complex provide valuable genomic data; however, transposable elements (TEs) within the species complex remain unexplored. This study provides the first accurate exploration of TE content within the B. tabaci species complex.Results This study identified an average of 40.61% of the genomes of three whitefly species (MEAM1, MEDQ, and SSA-ECA) consists of TEs. Majority of the TEs identified were DNA transposons (22.85% average) while SINEs (0.14% average) were the least represented. This study also compared the TE content the three whitefly genomes with three other hemipteran genomes and found a significant difference in the presence of DNA transposons and LINEs. A total of 63 TE superfamilies were identified to be present across the three whitefly species (39 DNA transposons, six LTR, 16 LINE, and two SINE) of which 11 TE superfamilies were identified to not be present in the three other hemipteran genomes (nine DNA transposon, and two LINE). This study is the first to characterize TEs found within different B. tabaci species and has created a standardized annotation workflow that could be used to analyze future whitefly genomes.Conclusion This study is the first to characterize the landscape of TEs within the B. tabaci species complex. The characterization of these elements within the three whitefly genomes shows that TEs occupy a significant portion of the whitefly genome, majority of which are DNA transposons. This study also identified TE superfamilies of note and provides a framework for future TE studies within the species complex.
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来源期刊
Mobile DNA
Mobile DNA GENETICS & HEREDITY-
CiteScore
8.20
自引率
6.10%
发文量
26
审稿时长
11 weeks
期刊介绍: Mobile DNA is an online, peer-reviewed, open access journal that publishes articles providing novel insights into DNA rearrangements in all organisms, ranging from transposition and other types of recombination mechanisms to patterns and processes of mobile element and host genome evolution. In addition, the journal will consider articles on the utility of mobile genetic elements in biotechnological methods and protocols.
期刊最新文献
Analysis of pericentromere composition and structure elucidated the history of the Hieracium alpinum L. genome, revealing waves of transposable elements insertions. International congress on transposable elements (ICTE 2024) in Saint Malo: breaking down transposon waves and their impact. Accelerating de novo SINE annotation in plant and animal genomes. Association of hyperactivated transposon expression with exacerbated immune activation in systemic lupus erythematosus. Widespread HCD-tRNA derived SINEs in bivalves rely on multiple LINE partners and accumulate in genic regions.
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