Tambones Izabella L, Haudry Annabelle, Simão Maryanna C, Carareto Claudia M A
1Department of Biology, Institute of Biosciences, Humanities and Exact Sciences (IBILCE), UNESP - São Paulo State University, Campus São José do Rio Preto, São Paulo, SP 15054-000 Brazil.
2Laboratoire de Biométrie et Biologie Evolutive, Université de Lyon, Université Lyon 1, CNRS, UMR 5558, F-69622 Villeurbanne, France.
Mob DNA. 2019 Nov 4;10:43. doi: 10.1186/s13100-019-0184-1. eCollection 2019.
The use of large-scale genomic analyses has resulted in an improvement of transposable element sampling and a significant increase in the number of reported HTT (horizontal transfer of transposable elements) events by expanding the sampling of transposable element sequences in general and of specific families of these elements in particular, which were previously poorly sampled. In this study, we investigated the occurrence of HTT events in a group of elements that, until recently, were uncommon among the HTT records in - the Jockey elements, members of the LINE (long interspersed nuclear element) order of non-LTR (long terminal repeat) retrotransposons. The sequences of 111 Jockey families deposited in Repbase that met the criteria of the analysis were used to identify Jockey sequences in 48 genomes of Drosophilidae (genus , subgenus : melanogaster, obscura and willistoni groups; subgenus : immigrans, melanica, repleta, robusta, virilis and grimshawi groups; subgenus : busckii group; genus/subgenus and genus ).
Phylogenetic analyses revealed 72 Jockey families in 41 genomes. Combined analyses revealed 15 potential HTT events between species belonging to different genera and species groups of Drosophilidae, providing evidence for the flow of genetic material favoured by the spatio-temporal sharing of these species present in the Palaeartic or Afrotropical region.
Our results provide phylogenetic, biogeographic and temporal evidence of horizontal transfers of the Jockey elements, increase the number of rare records of HTT in specific families of LINE elements, increase the number of known occurrences of these events, and enable a broad understanding of the evolutionary dynamics of these elements and the host species.
大规模基因组分析的应用通过扩大转座元件序列的采样，特别是以前采样不足的特定转座元件家族的采样，改进了转座元件的采样，并显著增加了报告的转座元件水平转移（HTT）事件的数量。在本研究中，我们调查了一组元件中HTT事件的发生情况，这些元件直到最近在HTT记录中都不常见——即Jockey元件，它是非LTR（长末端重复序列）逆转录转座子的LINE（长散在核元件）序列家族的成员。使用Repbase中存放的111个符合分析标准的Jockey家族的序列，来鉴定果蝇科48个基因组中的Jockey序列（属、亚属：黑腹果蝇组、暗果蝇组和威氏果蝇组；亚属：移殖果蝇组、黑果蝇组、复带果蝇组、粗壮果蝇组、粗壮果蝇组、粗壮果蝇组和格氏果蝇组；亚属：布氏果蝇组；属/亚属和属）。
系统发育分析在41个基因组中发现了72个Jockey家族。综合分析揭示了果蝇科不同属和物种组之间存在15个潜在的HTT事件，为古北区或热带非洲地区这些物种的时空共享所促进的遗传物质流动提供了证据。
我们的结果提供了Jockey元件水平转移的系统发育、生物地理和时间证据，增加了LINE元件特定家族中HTT罕见记录的数量，增加了这些事件的已知发生次数，并有助于广泛了解这些元件和宿主物种的进化动态。
