Annotation of plant genomes is still a challenging task due to the abundance of repetitive sequences, especially long terminal repeat (LTR) retrotransposons. LTR_FINDER is a widely used program for the identification of LTR retrotransposons but its application on large genomes is hindered by its single-threaded processes. Here we report an accessory program that allows parallel operation of LTR_FINDER, resulting in up to 8500X faster identification of LTR elements. It takes only 72 min to process the 14.5 Gb bread wheat (Triticum aestivum) genome in comparison to 1.16 years required by the original sequential version. LTR_FINDER_parallel is freely available at https://github.com/oushujun/LTR_FINDER_parallel.

中文翻译：

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LTR_FINDER_parallel：LTR_FINDER的并行化可快速识别长末端重复逆转座子

由于大量重复序列，特别是长末端重复（LTR）逆转座子，植物基因组的注释仍然是一项艰巨的任务。LTR_FINDER是用于鉴定LTR逆转座子的一种广泛使用的程序，但其单线程过程阻碍了其在大型基因组中的应用。在这里，我们报告了一个附件程序，该程序允许LTR_FINDER并行运行，从而使LTR元素的识别速度提高了8500倍。与原始序列版本所需的1.16年相比，处理14.5 Gb面包小麦（Triticum aestivum）基因组只需72分钟。LTR_FINDER_parallel可从https://github.com/oushujun/LTR_FINDER_parallel免费获得。