Identification of Alternative Polyadenylation in Cyanidioschyzon merolae Through Long-Read Sequencing of mRNA.
Identification of Alternative Polyadenylation in Cyanidioschyzon merolae Through Long-Read Sequencing of mRNA.
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通过长阅读的mRNA测序，鉴定蓝藻中的替代聚腺苷酸化。
DOI：
10.3389/fgene.2021.818697
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发表时间：
2021
影响因子：
3.7
通讯作者：
Rader SD
中科院分区：
文献类型：
--
作者：
Schärfen L;Zigackova D;Reimer KA;Stark MR;Slat VA;Francoeur NJ;Wells ML;Zhou L;Blackshear PJ;Neugebauer KM;Rader SD
选择性多聚腺苷酸化（阿帕）广泛存在于后生动物中，并已被证明对mRNA稳定性和蛋白质表达具有重要影响。然而，除了少数经过充分研究的生物体之外，它的存在和后果还没有得到很好的研究。因此，我们转向了深分支的红蜘蛛，Cyanidioschyzon merolae，研究生物体中的多聚腺苷酸化生物学，这种生物体与人类和酵母高度分化。C. merolae是一种生活在火山温泉中的嗜酸热菌。它有一个高度简化的基因组（16.5 Mbp），除了27个内含子和大部分剪接机制外，它已经失去了所有内含子和剪接机制，这表明它一直面临着简化其RNA加工途径的巨大压力。我们使用长读段测序来评估C. merolae mRNA，包括剪接状态和多聚腺苷酸化切割位点（PAS）的使用。C中的拼接效率似乎较低。merolae与酵母，苍蝇和哺乳动物细胞相比。高比例的成绩单（63%）至少有两个不同的PAS的，34%的出现利用三个或更多的网站。在超过90%的情况下，在丰富培养基或限制氮中生长的细胞中使用明显的多聚腺苷酸化信号UAAA。我们的文件阿帕第一次在这个非模式生物突出了其保护和可能的生物学重要性，这一调控步骤的基因表达。
Alternative polyadenylation (APA) is widespread among metazoans and has been shown to have important impacts on mRNA stability and protein expression. Beyond a handful of well-studied organisms, however, its existence and consequences have not been well investigated. We therefore turned to the deep-branching red alga, Cyanidioschyzon merolae, to study the biology of polyadenylation in an organism highly diverged from humans and yeast. C. merolae is an acidothermophilic alga that lives in volcanic hot springs. It has a highly reduced genome (16.5 Mbp) and has lost all but 27 of its introns and much of its splicing machinery, suggesting that it has been under substantial pressure to simplify its RNA processing pathways. We used long-read sequencing to assess the key features of C. merolae mRNAs, including splicing status and polyadenylation cleavage site (PAS) usage. Splicing appears to be less efficient in C. merolae compared with yeast, flies, and mammalian cells. A high proportion of transcripts (63%) have at least two distinct PAS’s, and 34% appear to utilize three or more sites. The apparent polyadenylation signal UAAA is used in more than 90% of cases, in cells grown in both rich media or limiting nitrogen. Our documentation of APA for the first time in this non-model organism highlights its conservation and likely biological importance of this regulatory step in gene expression.
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影响因子：
5.3
作者：
Agafonov, Dmitry E.;Deckert, Jochen;Luehrmann, Reinhard
通讯作者：
Luehrmann, Reinhard
影响因子：
64.8
作者：
Matsuzaki, M;Misumi, O;Kuroiwa, T
通讯作者：
Kuroiwa, T
影响因子：
7
作者：
Liu X;Hoque M;Larochelle M;Lemay JF;Yurko N;Manley JL;Bachand F;Tian B
通讯作者：
Tian B
影响因子：
3.4
作者：
Li XQ;Du D
通讯作者：
Du D
影响因子：
7.2
作者：
Mayr, Christine
通讯作者：
Mayr, Christine