Thousands of RNA-cached copies of whole chromosomes are present in the ciliate Oxytricha during development.
Thousands of RNA-cached copies of whole chromosomes are present in the ciliate Oxytricha during development.
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DOI：
10.1261/rna.058511.116
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发表时间：
2017-08
期刊：
影响因子：
--
通讯作者：
Landweber LF
中科院分区：
文献类型：
--
作者：
Lindblad KA;Bracht JR;Williams AE;Landweber LF
纤毛虫Oxytricha trifallax维持两个基因组：仅在有性接合期间活跃的种系基因组和通过广泛的序列减少和重排从种系衍生的转录活跃的体细胞基因组。以前，我们发现长的非编码（lnc）RNA“模板”-端粒，RNA缓存的成熟染色体的副本-提供的信息程序的重排过程。在这里，我们使用了一种改良的RNA-seq方法来进行第一次全基因组范围内的内源性端粒到端粒RNA转录本的搜索。我们发现，在发育过程中，尖毛藻产生长的非编码RNA拷贝超过10,000其16,000体细胞染色体，与尖毛藻传输其体细胞基因组的RNA缓存拷贝到有性后代的模型一致。体细胞染色体的一级序列和表达谱影响个体模板RNA的时间分布和丰度。这表明尖毛藻在发育过程中可能经历多轮DNA重排。这些观察结果暗示了一组复杂的数千个长RNA分子在布线和维护一个高度复杂的体细胞基因组结构。
The ciliate Oxytricha trifallax maintains two genomes: a germline genome that is active only during sexual conjugation and a transcriptionally active, somatic genome that derives from the germline via extensive sequence reduction and rearrangement. Previously, we found that long noncoding (lnc) RNA “templates”—telomere-containing, RNA-cached copies of mature chromosomes—provide the information to program the rearrangement process. Here we used a modified RNA-seq approach to conduct the first genome-wide search for endogenous, telomere-to-telomere RNA transcripts. We find that during development, Oxytricha produces long noncoding RNA copies for over 10,000 of its 16,000 somatic chromosomes, consistent with a model in which Oxytricha transmits an RNA-cached copy of its somatic genome to the sexual progeny. Both the primary sequence and expression profile of a somatic chromosome influence the temporal distribution and abundance of individual template RNAs. This suggests that Oxytricha may undergo multiple rounds of DNA rearrangement during development. These observations implicate a complex set of thousands of long RNA molecules in the wiring and maintenance of a highly elaborate somatic genome architecture.
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