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首页> 外文期刊>Proceedings of the National Academy of Sciences of the United States of America >Effects of long DNA folding and small RNA stem-loop in thermophoresis
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Effects of long DNA folding and small RNA stem-loop in thermophoresis

机译：长DNA折叠和小RNA茎环在热泳中的作用

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摘要

In thermophoresis, with the fluid at rest, suspensions move along a gradient of temperature. In an aqueous solution, a PEG polymer suspension is depleted from the hot region and builds a concentration gradient. In this gradient, ONA polymers of different sizes can be separated. In this work the effect of the polymer structure for genomic DNA and small RNA is studied. For genome-size DNA, individual single T4 DNA is visualized and tracked in a PEG solution under a temperature gradient built by infrared laser focusing. We find that T4 DNA follows steps of depletion, ring-like localization, and accumulation patterns as the PEG volume fraction is increased. Furthermore, a coil-globule transition for DNA is observed for a large enough PEG volume fraction. This drastically affects the localization position of T4 DNA. In a similar experiment, with small RNA such as ribozymes we find that the stem-loop folding of such polymers has important consequences. The RNA polymers having a long and rigid stem accumulate, whereas a polymer with stem length less than 4 base pairs shows depletion. Such measurements emphasize the crucial contribution of the double-stranded parts of RNA for thermal separation and selection under a temperature gradient. Because huge temperature gradients are present around hydrothermal vents in the deep ocean seafloor, this process might be relevant, at the origin of life, in an RNA world hypothesis. Ribozymes could be selected from a pool of random sequences depending on the length of their stems.
机译：在热泳中，在流体静止的情况下，悬浮液会沿温度梯度移动。在水溶液中，PEG聚合物悬浮液从热区中耗尽，并建立浓度梯度。在该梯度中，可以分离不同尺寸的ONA聚合物。在这项工作中，研究了聚合物结构对基因组DNA和小RNA的影响。对于基因组大小的DNA，可以在通过红外激光聚焦建立的温度梯度下的PEG溶液中观察和跟踪单个的单个T4 DNA。我们发现，随着PEG体积分数的增加，T4 DNA遵循耗尽，环状定位和积累模式的步骤。此外，对于足够大的PEG体积分数，可以观察到DNA的盘状小球过渡。这极大地影响了T4 DNA的定位位置。在类似的实验中，使用诸如核酶的小RNA，我们发现此类聚合物的茎环折叠具有重要意义。具有长而刚性的茎的RNA聚合物会积累，而茎长度小于4个碱基对的聚合物则显示耗尽。这样的测量强调了RNA双链部分对于温度梯度下的热分离和选择的关键作用。由于深海海底热液喷口周围存在巨大的温度梯度，因此这一过程在生命起源时可能与RNA世界假说有关。核酶可以根据茎的长度从随机序列库中选择。

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  • 作者

    Yusuke T. Maeda; Tsvi Tlusty; Albert Libchaber;

  • 作者单位

    Center for Studies in Physics and Biology, The Rockefeller University, New York, NY 10065,The Hakubi Center for Advanced Research, Kyoto University, Yoshida-Ushinomiya-cho, Kyoto 606-8302, Japan,Japan Science and Technology Agency, PRESTO, Kawaguchi, Saitama 332-0012, Japan;

    Department of Complex Systems, Weizmann Institute of Science, Rehovot 76100, Israel,Institute for Advanced Study, Princeton, NJ 08540;

    Center for Studies in Physics and Biology, The Rockefeller University, New York, NY 10065,Institute for Advanced Study, Princeton, NJ 08540;

  • 收录信息 美国《科学引文索引》(SCI);美国《生物学医学文摘》(MEDLINE);美国《化学文摘》(CA);
  • 原文格式 PDF
  • 正文语种 eng
  • 中图分类
  • 关键词

    molecular transport; DNA condensation; oligonucleotides sorting;

    机译：分子运输DNA缩合;寡核苷酸分选;

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