Abstract Phakopsora pachyrhizi, which causes Asian soybean rust (ASR), secretes effector proteins to manipulate host immunity and promote disease. To date, only a small number of effectors have been identified from transcriptome studies. To obtain a more comprehensive understanding of P. pachyrhizi candidate secreted effector proteins (CSEPs), we sequenced the transcriptome using two next-generation sequencing technologies. Short-read Illumina RNA-Seq data was used for reducing base-calling errors for long-read PacBio Iso-Seq. After initial de novo assemblies for RNA-seq and error correction of transcripts for Iso-Seq followed by filtering, we obtained 8,528, 27,647, 26,895, and 17,141 non-plant, non-soybean transcripts at 3, 7, 10, and 14 days after inoculation, respectively. We identified a repertoire of CSEPs of which a majority was expressed during the later stages of infection, and many that could be bioinformatically associated with haustoria. This approach for identifying CSEPs improves our current understanding of the P. pachyrhizi effectorome, and these CSEPs are expected to be a valuable resource for future studies of P. pachyrhizi-soybean interactions.

中文翻译：

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Phakopsora pachyrhizi 的从头转录组揭示感染期间推定的效应库

摘要 Phakopsora pachyrhizi 会导致亚洲大豆锈病（ASR），它分泌效应蛋白来操纵宿主免疫并促进疾病。迄今为止，仅从转录组研究中鉴定了少数效应物。为了更全面地了解 P. pachyrhizi 候选分泌效应蛋白 (CSEP)，我们使用两种下一代测序技术对转录组进行了测序。短读长 Illumina RNA-Seq 数据用于减少长读长 PacBio Iso-Seq 的碱基调用错误。在对 RNA-seq 进行初始从头组装和对 Iso-Seq 转录本进行错误校正后进行过滤，我们在 3、7、10 和 14 天获得了 8,528、27,647、26,895 和 17,141 个非植物、非大豆转录本分别接种后。我们确定了一组 CSEP，其中大部分在感染的后期阶段表达，并且许多可能与吸器在生物信息学上相关。这种识别 CSEP 的方法提高了我们目前对 P. pachyrhizi 效应组的理解，并且这些 CSEP 有望成为未来 P. pachyrhizi-大豆相互作用研究的宝贵资源。