Global patterns of tissue-specific alternative polyadenylation in Drosophila.
Global patterns of tissue-specific alternative polyadenylation in Drosophila.
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DOI：
10.1016/j.celrep.2012.01.001
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发表时间：
2012-03-29
期刊：
影响因子：
8.8
通讯作者：
Lai EC
中科院分区：
文献类型：
--
作者：
Smibert P;Miura P;Westholm JO;Shenker S;May G;Duff MO;Zhang D;Eads BD;Carlson J;Brown JB;Eisman RC;Andrews J;Kaufman T;Cherbas P;Celniker SE;Graveley BR;Lai EC
我们分析了选择性切割和多聚腺苷化（APA）在果蝇中的使用和后果，通过在各种解剖组织中使用bb1010亿reads的链mRNA-seq。除了证明大多数果蝇转录本受APA影响外，我们还观察到睾丸中3 '非翻译区（UTR）缩短和中枢神经系统（CNS）延长的广泛趋势；后者包括数百个未加注释的扩展，最大可达18 kb。广泛的北方分析证实了全长神经扩展转录本的积累，原位杂交表明它们对中枢神经系统的空间限制。编码RNA结合蛋白（rbp）和转录因子的基因优先受到3 ' UTR延伸的影响。基序分析表明，miRNA和RBP位点在神经延伸中富集，其末端富集了促进裂解和聚腺苷化的典型顺式元件。总之，我们揭示了果蝇中广泛的组织特异性模式和神经系统中前所未有的3 ' UTR长度的转录本。
We analyzed the usage and consequences of alternative cleavage and polyadenylation (APA) in Drosophila melanogaster by using >1 billion reads of stranded mRNA-seq across a variety of dissected tissues. Beyond demonstrating that a majority of fly transcripts are subject to APA, we observed broad trends for 3′ untranslated region (UTR) shortening in the testis and lengthening in the central nervous system (CNS); the latter included hundreds of unannotated extensions ranging up to 18 kb. Extensive northern analyses validated the accumulation of full-length neural extended transcripts, and in situ hybridization indicated their spatial restriction to the CNS. Genes encoding RNA binding proteins (RBPs) and transcription factors were preferentially subject to 3′ UTR extensions. Motif analysis indicated enrichment of miRNA and RBP sites in the neural extensions, and their termini were enriched in canonical cis elements that promote cleavage and polyadenylation. Altogether, we reveal broad tissue-specific patterns of APA in Drosophila and transcripts with unprecedented 3′ UTR length in the nervous system.
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影响因子：
14.9
作者：
Mercer TR;Wilhelm D;Dinger ME;Soldà G;Korbie DJ;Glazov EA;Truong V;Schwenke M;Simons C;Matthaei KI;Saint R;Koopman P;Mattick JS
通讯作者：
Mattick JS
影响因子：
--
作者：
Langmead, Ben
通讯作者：
Langmead, Ben
影响因子：
64.5
作者：
Hafner M;Landthaler M;Burger L;Khorshid M;Hausser J;Berninger P;Rothballer A;Ascano M Jr;Jungkamp AC;Munschauer M;Ulrich A;Wardle GS;Dewell S;Zavolan M;Tuschl T
通讯作者：
Tuschl T
影响因子：
5.3
作者：
MACDONALD, CC;WILUSZ, J;SHENK, T
通讯作者：
SHENK, T
影响因子：
10.5
作者：
Lai, EC;Tam, B;Rubin, GM
通讯作者：
Rubin, GM