Characterization of hAT DNA transposon superfamily in the genome of Neotropical fish Apareiodon sp.

IF 2.3 3区 生物学 Q3 BIOCHEMISTRY & MOLECULAR BIOLOGY
Fernanda Souza de Oliveira, Matheus Azambuja, Michelle Orane Schemberger, Viviane Demetrio Nascimento, Jordana Inácio Nascimento Oliveira, Ivan Rodrigo Wolf, Viviane Nogaroto, Cesar Martins, Marcelo Ricardo Vicari
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引用次数: 0

Abstract

DNA transposons are diverse in fish genomes and have been described to generate genomic evolutionary novelties. hAT transposable element data are scarce in Teleostei genomes, making it challenging to conduct comparative genomic studies to understand their neutrality or function. This study aimed to perform a genomic and molecular characterization of hAT copies to assess the diversity of these elements and associate changes in these sequences to genomic and karyotypic novelties in Apareiodon sp. The data revealed that hAT TEs are highly abundant in the Apareiodon sp. genome, with few possibly autonomous copies. Highly conserved sequences with likely functional transposases were observed in nine hAT elements. A great diversity of hAT subgroups was observed, especially from Ac, Charlie, Blackjack, Tip100, hAT6, and hAT5, and a similar wave of hAT genomic invasion was identified in the genome for these six groups of hAT sequences. The data also revealed a distinct number of microsatellites within degenerated hAT copies. hAT sites were demonstrated to be dispersed in the Apareiodon sp. chromosomes and not involved in W chromosome-specific region differentiation. In conclusion, the genomic analysis revealed a great diversity of hAT elements, possible autonomous copies, and differentiation of degenerated transposable elements into tandem sequences.

新热带鱼Apareiodon sp.基因组中hAT DNA转座子超家族的特征分析
DNA 转座子在鱼类基因组中种类繁多,并被描述为产生基因组进化的新元素。在远洋鱼类基因组中,hAT 转座子元素的数据很少,因此进行比较基因组研究以了解其中性或功能具有挑战性。本研究旨在对 hAT 的拷贝进行基因组和分子鉴定,以评估这些元件的多样性,并将这些序列的变化与 Apareiodon sp.的基因组和核型新特征联系起来。在 9 个 hAT 元素中观察到了可能具有功能性转座酶的高度保守序列。观察到 hAT 亚群的多样性,尤其是来自 Ac、Charlie、Blackjack、Tip100、hAT6 和 hAT5 的 hAT 亚群,并在这六组 hAT 序列的基因组中发现了类似的 hAT 基因组入侵浪潮。数据还显示,在退化的 hAT 拷贝中存在大量微卫星。hAT 位点分散在 Apareiodon sp.总之,基因组分析揭示了 hAT 元件的巨大多样性、可能的自主拷贝以及退化转座元件串联序列的分化。
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来源期刊
Molecular Genetics and Genomics
Molecular Genetics and Genomics 生物-生化与分子生物学
CiteScore
5.10
自引率
3.20%
发文量
134
审稿时长
1 months
期刊介绍: Molecular Genetics and Genomics (MGG) publishes peer-reviewed articles covering all areas of genetics and genomics. Any approach to the study of genes and genomes is considered, be it experimental, theoretical or synthetic. MGG publishes research on all organisms that is of broad interest to those working in the fields of genetics, genomics, biology, medicine and biotechnology. The journal investigates a broad range of topics, including these from recent issues: mechanisms for extending longevity in a variety of organisms; screening of yeast metal homeostasis genes involved in mitochondrial functions; molecular mapping of cultivar-specific avirulence genes in the rice blast fungus and more.
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