Single-cell absolute contact probability detection reveals chromosomes are organized by multiple low-frequency yet specific interactions.
Single-cell absolute contact probability detection reveals chromosomes are organized by multiple low-frequency yet specific interactions.
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DOI：
10.1038/s41467-017-01962-x
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发表时间：
2017-11-24
影响因子：
16.6
通讯作者：
Nollmann M
中科院分区：
文献类型：
--
作者：
Cattoni DI;Cardozo Gizzi AM;Georgieva M;Di Stefano M;Valeri A;Chamousset D;Houbron C;Déjardin S;Fiche JB;González I;Chang JM;Sexton T;Marti-Renom MA;Bantignies F;Cavalli G;Nollmann M
在千兆碱基对的尺度上，真核基因组被划分为相互作用的模块或拓扑相关的结构域(TADS)，它们相互关联形成核隔间。在这里，我们结合高含量的超分辨率显微镜和最先进的DNA标记方法来揭示果蝇基因组多尺度组织中的可变性。我们发现TADS内部和TAD边界之间的关联频率低于~10%，与TAD大小、表观遗传状态或细胞类型无关。关键的是，尽管这种巨大的异质性，我们能够在单细胞水平上可视化纳米尺寸的表观遗传域。此外，TADS内和TADS之间的绝对接触频率在很大程度上由基因组距离、高阶染色体构型和表观遗传学同一性决定。我们认为TADS和区段是由多个、小频率但特定的相互作用组织的，这些相互作用受表观遗传学和转录状态的调节。真核基因组被划分为存在于千兆碱基尺度上的自我相互作用的模块或拓扑相关结构域(TADS)。在这里，卡托尼等人。结合超分辨率显微镜和DNA标记方法来量化TADS内相互作用的绝对频率。
At the kilo- to megabase pair scales, eukaryotic genomes are partitioned into self-interacting modules or topologically associated domains (TADs) that associate to form nuclear compartments. Here, we combine high-content super-resolution microscopies with state-of-the-art DNA-labeling methods to reveal the variability in the multiscale organization of the Drosophila genome. We find that association frequencies within TADs and between TAD borders are below ~10%, independently of TAD size, epigenetic state, or cell type. Critically, despite this large heterogeneity, we are able to visualize nanometer-sized epigenetic domains at the single-cell level. In addition, absolute contact frequencies within and between TADs are to a large extent defined by genomic distance, higher-order chromosome architecture, and epigenetic identity. We propose that TADs and compartments are organized by multiple, small-frequency, yet specific interactions that are regulated by epigenetics and transcriptional state. Eukaryotic genomes are partitioned into self-interacting modules or topologically associated domains (TADs) that exist at the kilo-megabase scale. Here Cattoni et al. combine super-resolution microscopy with DNA-labeling methods to quantify absolute frequencies of interactions within TADs.
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影响因子：
12.3
作者：
Chuang CH;Belmont AS
通讯作者：
Belmont AS
影响因子：
14.9
作者：
Contrino S;Smith RN;Butano D;Carr A;Hu F;Lyne R;Rutherford K;Kalderimis A;Sullivan J;Carbon S;Kephart ET;Lloyd P;Stinson EO;Washington NL;Perry MD;Ruzanov P;Zha Z;Lewis SE;Stein LD;Micklem G
通讯作者：
Micklem G
影响因子：
14.9
作者：
Cubeñas-Potts C;Rowley MJ;Lyu X;Li G;Lei EP;Corces VG
通讯作者：
Corces VG
DOI：
10.1038/nrg3454
发表时间：
2013-06
期刊：
Nature reviews. Genetics
影响因子：
--
作者：
通讯作者：
--
影响因子：
3.5
作者：
Dekker J;Heard E
通讯作者：
Heard E