CANTATAdb 3.0：一个更新的植物长非编码 RNA 数据库。
CANTATAdb 3.0: An Updated Repository of Plant Long Non-Coding RNAs.
机构信息
Laboratory of RNA Biology, Institute of Human Biology and Evolution, Adam Mickiewicz University, ul. Uniwersytetu Poznańskiego 6, Poznan 61-614, Poland.
出版信息
Plant Cell Physiol. 2024 Oct 3;65(9):1486-1493. doi: 10.1093/pcp/pcae081.
CANTATAdb 3.0 is an updated database of plant long non-coding RNAs (lncRNAs), containing 571,688 lncRNAs identified across 108 species, including 100 Magnoliopsida (flowering plants), a significant expansion from the previous version. A notable feature is the inclusion of 112,980 lncRNAs that are expressed specifically in certain plant organs or embryos, indicating their potential role in development and organ-specific processes. In addition, CANTATAdb 3.0 includes 74,886 pairs of evolutionarily conserved lncRNAs found across 47 species and inferred from genome-genome alignments as well as conserved lncRNAs obtained using a similarity search approach in 5,479 species pairs, which would further aid in the selection of lncRNAs for functional studies. Interestingly, we find that conserved lncRNAs with tissue-specific expression patterns tend to occupy the same plant organ across different species, pointing toward conserved biological roles. The database now offers extended search capabilities and downloadable data in popular formats, further facilitating research on plant lncRNAs.
CANTA TA db 3.0 是一个经过更新的植物长非编码 RNA（lncRNA）数据库，包含了在 108 个物种中鉴定出的 571,688 个 lncRNA，其中包括 100 个木兰类植物（开花植物），比上一版本有了显著的扩展。一个显著的特点是包含了 112,980 个在特定植物器官或胚胎中特异性表达的 lncRNA，表明它们在发育和器官特异性过程中可能发挥作用。此外，CANTA TA db 3.0 还包括了在 47 个物种中发现的 74,886 对进化保守的 lncRNA，这些 lncRNA是通过基因组-基因组比对推断出来的，以及在 5,479 个物种对中使用相似性搜索方法获得的保守 lncRNA，这将进一步有助于选择 lncRNA 进行功能研究。有趣的是，我们发现具有组织特异性表达模式的保守 lncRNA 往往在不同物种中占据相同的植物器官，这表明它们具有保守的生物学功能。该数据库现在提供了扩展的搜索功能和流行格式的可下载数据，进一步促进了植物 lncRNA 的研究。
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