A high-resolution, nucleosome position map of C. elegans reveals a lack of universal sequence-dictated positioning
A high-resolution, nucleosome position map of C. elegans reveals a lack of universal sequence-dictated positioning
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DOI：
10.1101/gr.076463.108
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发表时间：
2008-07-01
期刊：
影响因子：
7
通讯作者：
Johnson, Steven M.
中科院分区：
文献类型：
--
作者：
Valouev, Anton;Ichikawa, Jeffrey;Johnson, Steven M.
使用大规模并行技术的测序寡核苷酸连接和检测（SOLiD;应用生物系统公司），我们已经评估了体内的位置超过4400万推定的核小体核心的多细胞遗传模式生物秀丽隐杆线虫。这些分析提供了一个多细胞动物的染色质结构在极高的密度和分辨率的全局视图。虽然我们在我们的混合阶段动物种群中观察到一定程度的整个基因组的可重复定位，但我们注意到蠕虫的主要染色质特征是绝大多数个体基因座上允许的核小体位置的多样性。虽然核小体的绝对定位可以显著变化，但核小体的相对定位（在可能至少部分地通过空间约束维持的重复阵列结构中）似乎是染色质结构的重要性质。核小体读段的高密度使得能够实质性地扩展描述沿着核小体核心和接头的跨度沿着使用单个寡核苷酸序列的先前分析。我们通过UCSC基因组浏览器发布了这一数据集，作为C.线虫基因组
Using the massively parallel technique of sequencing by oligonucleotide ligation and detection (SOLiD; Applied Biosystems), we have assessed the in vivo positions of more than 44 million putative nucleosome cores in the multicellular genetic model organism Caenorhabditis elegans. These analyses provide a global view of the chromatin architecture of a multicellular animal at extremely high density and resolution. While we observe some degree of reproducible positioning throughout the genome in our mixed stage population of animals, we note that the major chromatin feature in the worm is a diversity of allowed nucleosome positions at the vast majority of individual loci. While absolute positioning of nucleosomes can vary substantially, relative positioning of nucleosomes ( in a repeated array structure likely to be maintained at least in part by steric constraints) appears to be a significant property of chromatin structure. The high density of nucleosomal reads enabled a substantial extension of previous analysis describing the usage of individual oligonucleotide sequences along the span of the nucleosome core and linker. We release this data set, via the UCSC Genome Browser, as a resource for the high-resolution analysis of chromatin conformation and DNA accessibility at individual loci within the C. elegans genome.