Departamento de Genética, Facultad de Ciencias, Universidad de Granada, 18071 Granada, Spain.
Department of Entomology, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA.
Genes (Basel). 2021 Jun 30;12(7):1017. doi: 10.3390/genes12071017.
We sequenced the sporophyte transcriptome of Killarney fern ( (Willd.) G. Kunkel). In addition to being a rare endangered Macaronesian-European endemism, this species has a huge genome (10.52 Gb) as well as particular biological features and extreme ecological requirements. These characteristics, together with the systematic position of ferns among vascular plants, make it of high interest for evolutionary, conservation and functional genomics studies. The transcriptome was constructed de novo and contained 36,430 transcripts, of which 17,706 had valid BLAST hits. A total of 19,539 transcripts showed at least one of the 7362 GO terms assigned to the transcriptome, whereas 6547 transcripts showed at least one of the 1359 KEGG assigned terms. A prospective analysis of functional annotation results provided relevant insights on genes involved in important functions such as growth and development as well as physiological adaptations. In this context, a catalogue of genes involved in the genetic control of plant development, during the vegetative to reproductive transition, in stress response as well as genes coding for transcription factors is given. Altogether, this study provides a first step towards understanding the gene expression of a significant fern species and the in silico functional and comparative analyses reported here provide important data and insights for further comparative evolutionary studies in ferns and land plants in general.
我们对基拉尼蕨（（Willd.）G. Kunkel）的孢子体转录组进行了测序。该物种不仅是一种罕见的、处于濒危状态的马卡罗内西亚-欧洲特有种，而且还具有巨大的基因组（10.52Gb），以及特殊的生物学特征和极端的生态需求。这些特征，加上蕨类植物在维管植物中的系统位置，使它成为进化、保护和功能基因组学研究的热点。该转录组是从头构建的，包含 36430 个转录本，其中 17706 个具有有效的 BLAST 命中。共有 19539 个转录本显示出至少一个分配给转录组的 7362 个 GO 术语之一，而 6547 个转录本显示出至少一个分配给 1359 个 KEGG 术语之一。对功能注释结果的前瞻性分析提供了有关参与重要功能的基因的相关见解，如生长和发育以及生理适应。在这种情况下，提供了一个涉及植物发育的遗传控制、从营养生长到生殖生长的过渡、胁迫反应以及编码转录因子的基因的基因目录。总的来说，这项研究为理解一个重要的蕨类物种的基因表达迈出了第一步，这里报告的计算机功能和比较分析为蕨类植物和一般陆地植物的进一步比较进化研究提供了重要的数据和见解。
