Comparative analysis of alternative polyadenylation in S. cerevisiae and S. pombe.
Comparative analysis of alternative polyadenylation in S. cerevisiae and S. pombe.
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DOI：
10.1101/gr.222331.117
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发表时间：
2017-10
期刊：
影响因子：
7
通讯作者：
Tian B
中科院分区：
文献类型：
--
作者：
Liu X;Hoque M;Larochelle M;Lemay JF;Yurko N;Manley JL;Bachand F;Tian B
选择性多聚腺苷酸化（阿帕）是一种广泛存在的机制，产生具有不同性质的mRNA亚型。在这里，我们系统地定位和比较了两种酵母中的裂解和多聚腺苷酸化位点（PAS）。酿酒酵母和酿酒酵母。粟酒虽然在每个物种中都有超过80%的mRNA基因显示阿帕，但S.粟酒裂殖酵母阿帕亚型间3′ UTR大小的差异大于S.啤酒。在两个物种中，基因的不同位置的PAS被不同的序列包围，并且通常与参与Nrd 1-Nab 3-Sen 1终止途径的基序相关。In S.粟酒裂殖酵母中，远端PAS周围的强基序导致长3 'UTR亚型的丰度高于短3' UTR亚型，这一特征在S.啤酒。聚合基因之间PAS位置的差异导致芽殖酵母和裂殖酵母之间截然不同的反义转录物景观。在这两个物种中，当细胞在营养丰富的培养基中生长时，短的3′ UTR亚型更有可能表达，尽管每个物种中不同的基因组受到影响。S.粟酒裂殖酵母与细胞增殖期间参与翻译的基因的表达上调相协调。利用S. Pcf 11或Pab 2缺陷的粟酒裂殖酵母菌株中，我们发现3′端加工因子表达的减少延长了3′ UTR，Pcf 11比Pab 2具有更强的作用。综上所述，我们的数据表明，阿帕机制在S。pombe和S. cerevisiae有很大的不同：S.粟酒裂殖酵母具有许多高等物种的阿帕特征，而S.粟酒裂殖酵母在阿帕调节中的作用与其哺乳动物同源物PABPN 1不同。
Alternative polyadenylation (APA) is a widespread mechanism that generates mRNA isoforms with distinct properties. Here we have systematically mapped and compared cleavage and polyadenylation sites (PASs) in two yeast species, S. cerevisiae and S. pombe. Although >80% of the mRNA genes in each species were found to display APA, S. pombe showed greater 3′ UTR size differences among APA isoforms than did S. cerevisiae. PASs in different locations of gene are surrounded with distinct sequences in both species and are often associated with motifs involved in the Nrd1-Nab3-Sen1 termination pathway. In S. pombe, strong motifs surrounding distal PASs lead to higher abundances of long 3′ UTR isoforms than short ones, a feature that is opposite in S. cerevisiae. Differences in PAS placement between convergent genes lead to starkly different antisense transcript landscapes between budding and fission yeasts. In both species, short 3′ UTR isoforms are more likely to be expressed when cells are growing in nutrient-rich media, although different gene groups are affected in each species. Significantly, 3′ UTR shortening in S. pombe coordinates with up-regulation of expression for genes involved in translation during cell proliferation. Using S. pombe strains deficient for Pcf11 or Pab2, we show that reduced expression of 3′-end processing factors lengthens 3′ UTR, with Pcf11 having a more potent effect than Pab2. Taken together, our data indicate that APA mechanisms in S. pombe and S. cerevisiae are largely different: S. pombe has many of the APA features of higher species, and Pab2 in S. pombe has a different role in APA regulation than its mammalian homolog, PABPN1.
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影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
影响因子：
16.2
作者：
Flavell, Steven W.;Kim, Tae-Kyung;Gray, Jesse M.;Harmin, David A.;Hemberg, Martin;Hong, Elizabeth J.;Markenscoff-Papadimitriou, Eirene;Bear, Daniel M.;Greenberg, Michael E.
通讯作者：
Greenberg, Michael E.
影响因子：
64.5
作者：
Geisberg JV;Moqtaderi Z;Fan X;Ozsolak F;Struhl K
通讯作者：
Struhl K
DOI：
10.1101/pdb.prot4155
发表时间：
2006-06-01
期刊：
CSH protocols
影响因子：
--
作者：
Amberg, David C;Burke, Daniel J;Strathern, Jeffrey N
通讯作者：
Strathern, Jeffrey N
影响因子：
10.5
作者：
Luo, WF;Johnson, AW;Bentley, DL
通讯作者：
Bentley, DL