早就想开通科学网的博客，一直没有行动，总想着自己也不是什么院士长江，更没有做出过什么了不起的科学成果，有什么必要开通博客呢，尤其是还要到科学网来班门弄斧呢？然而，作为一个普通得不能再普通的教育和科技工作者，总还是有发出自己的声音的愿望的，或为分享，或为独白，或三言两语，或长篇大论，与其酒酣耳热却知音难觅，倒不如在博客上码些文字，哪怕看客寥寥，终究也可以自娱自乐。
于是正好趁着自己的2024年第一篇通讯论文在线，开通了科学网的博客。
https://doi.org/10.1016/j.ijbiomac.2024.135067
International Journal of Biological Macromolecules 278 (2024) 135067
A global survey of bicarbonate stress-induced pre-mRNA alternative splicing in soybean via integrative analysis of Iso-seq and RNA-seq
, , , , , , , ,
1
Received 5 July 2024, Revised 23 August 2024, Accepted 23 August 2024, Available online 26 August
2024, Version of Record 29 August 2024.
A
Abstract：Alternative splicing (AS) plays important roles in modulating environmental stress
responses in plants. However, little is known about the functions of bicarbonate-induced AS in
cultivated soybean (Glycine max L. Merr.). In this study, we combined PacBio isoform sequencing
(Iso-seq) and Illumina RNA sequencing (RNA-seq) to elucidate the bicarbonate-induced AS events in
soybean root and leaf tissues. Compared to RNA-seq, Iso-seq identified more novel genes and
transcripts, as well as more AS events, indicating that Iso-seq is more efficient in AS detection.
Combining these two technologies, we found that intron retention (IR) is the most frequent AS event
type. We identified a total of 913 and 1974 bicarbonate stress-responsive differentially alternative
spliced genes (DAGs) in soybean leaves and roots respectively, from our RNA-seq results.
Additionally, we determined a transcription factor (GmNTL9) and a splicing factor (GmRSZ22), and
validated their roles in bicarbonate stress response by AS. Overall, our study opens an avenue for
evaluating plant AS regulatory networks, and the obtained global landscape of alternative splicing
provides valuable insights into the AS-mediated bicarbonate-responsive mechanisms in plant
species.
全文链接：https://authors.elsevier.com/a/1jgfOWFfgx6ri
实验室今年的第四篇，也是我自己作为通讯的第一篇一区TOP论文。
这篇论文是讲通过二代和三代转录组测序技术来鉴定碳酸氢盐胁迫下的基因可变剪接，主要比较了两种测序技术在可变剪接鉴定方面的特点，同时，也筛选并实验鉴定了一些可变剪接基因。这是从转录调控的角度来研究植物的盐碱胁迫应答。这篇论文与我去年发表的论文（Quantitative Phosphoproteomic Analysis Provides Insights into the Sodium Bicarbonate Responsiveness of Glycine max, Biomolecules. 2023 Oct 13;13(10):1520. doi: 10.3390/biom13101520.)算是姊妹篇，那篇论文是通过对碳酸氢盐胁迫下磷酸化蛋白的鉴定，即从翻译后修饰的水平上研究植物的盐碱胁迫应答机制。
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链接地址：https://wap.sciencenet.cn/blog-3614645-1448889.html?mobile=1
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