Мы демонстрируем сборки и применения молекулярного масштаба устройство питается от топоизомеразы белка. Конструкция био-молекулярных датчиков, какие метки два основных типа разрывов ДНК в срезах тканей путем присоединения двух различных флуорофоров в их конец.
Naturally occurring bio-molecular machines work in every living cell and display a variety of designs 1-6. Yet the development of artificial molecular machines centers on devices capable of directional motion, i.e. molecular motors, and on their scaled-down mechanical parts (wheels, axels, pendants etc) 7-9. This imitates the macro-machines, even though the physical properties essential for these devices, such as inertia and momentum conservation, are not usable in the nanoworld environments 10. Alternative designs, which do not follow the mechanical macromachines schemes and use mechanisms developed in the evolution of biological molecules, can take advantage of the specific conditions of the nanoworld. Besides, adapting actual biological molecules for the purposes of nano-design reduces potential dangers the nanotechnology products may pose. Here we demonstrate the assembly and application of one such bio-enabled construct, a semi-artificial molecular device which combines a naturally-occurring molecular machine with artificial components. From the enzymology point of view, our construct is a designer fluorescent enzyme-substrate complex put together to perform a specific useful function. This assembly is by definition a molecular machine, as it contains one 12. Yet, its integration with the engineered part – fluorescent dual hairpin – re-directs it to a new task of labeling DNA damage12.
Our construct assembles out of a 32-mer DNA and an enzyme vaccinia topoisomerase I (VACC TOPO). The machine then uses its own material to fabricate two fluorescently labeled detector units (Figure 1). One of the units (green fluorescence) carries VACC TOPO covalently attached to its 3’end and another unit (red fluorescence) is a free hairpin with a terminal 3’OH. The units are short-lived and quickly reassemble back into the original construct, which subsequently recleaves. In the absence of DNA breaks these two units continuously separate and religate in a cyclic manner. In tissue sections with DNA damage, the topoisomerase-carrying detector unit selectively attaches to blunt-ended DNA breaks with 5’OH (DNase II-type breaks)11,12, fluorescently labeling them. The second, enzyme-free hairpin formed after oligonucleotide cleavage, will ligate to a 5’PO4 blunt-ended break (DNase I-type breaks)11,12, if T4 DNA ligase is present in the solution 13,14 . When T4 DNA ligase is added to a tissue section or a solution containing DNA with 5’PO4 blunt-ended breaks, the ligase reacts with 5’PO4 DNA ends, forming semi-stable enzyme-DNA complexes. The blunt ended hairpins will interact with these complexes releasing ligase and covalently linking hairpins to DNA, thus labeling 5’PO4 blunt-ended DNA breaks.
This development exemplifies a new practical approach to the design of molecular machines and provides a useful sensor for detection of apoptosis and DNA damage in fixed cells and tissues.
В этом видео показано, как собрать и использовать двойной маркировки повреждений ДНК датчика. Датчик молекулярная машина управляется био-молекулярных двигателей, вирус-закодированного белка VACC ТОПО связаны с искусственным компонентов. Представлен пример развития био-включен подход,…
The authors have nothing to disclose.
Это исследование было поддержано грантом R01NS062842 из Национального института неврологических расстройств и инсульта, Национальные институты здравоохранения (ВСД) и грантами R21 NS064403 из Национального института неврологических расстройств и инсульта, Национальные институты здравоохранения через ARRA (ВСД) и R21 EB006301 Национального Института биомедицинской визуализации и биоинженерии, Национальные институты здравоохранения (ВСД).
5′-AAG GGA CCT GCF GCA GGT CCC TTA ACG CAT RAT GCG TT- 3′; F – FITC-dT; R – Tetramethylrhodamine-dT. Other red-shifted fluorophores such as BODIPY TR, rhodamine or TAMRA can be used instead of tetramethylrhodamine as R.
Alternatively you can use Oligonucleotide 2 – a double-hairpin single labeled with fluorescein (for detection of a single type of DNA breaks (DNase II-type only). The single-fluorophore-carrying probe is considerably less expensive and is convenient whenever a single type of DNA break is to be labeled: 5′-AAG GGA CCT GCF GCA GGT CCC TTA ACG CAT ATG CGT T-3′; F – FITC-dT