Cracking connecting unit for tetrahydrofuran ether derivatives and application of cracking connecting unit

A technology of tetrahydrofuran ether and linking units, which is applied in the fields of chemical synthesis and biochemistry, can solve problems such as insufficient mild cracking conditions, low cracking efficiency, and short read length, and achieve high-efficiency cracking effects

Active Publication Date: 2012-09-19
SHANGHAI JIAO TONG UNIV
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

However, these linking units have their own disadvantages and limitations (Bioorganic & Medicinal Chemistry 2012, 20, 571-582)
[0005] The cleavable junction unit has an important impact on the read length and efficiency of sequencing by synthesis. However, the existing junction unit has disadvantages such as ins

Method used

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  • Cracking connecting unit for tetrahydrofuran ether derivatives and application of cracking connecting unit
  • Cracking connecting unit for tetrahydrofuran ether derivatives and application of cracking connecting unit
  • Cracking connecting unit for tetrahydrofuran ether derivatives and application of cracking connecting unit

Examples

Experimental program
Comparison scheme
Effect test

Example Embodiment

[0063] Example 1. When n=0, the synthesis of connecting unit T-8

[0064] The schematic diagram of the synthetic route of connecting unit T-8 (5-hydroxymethyl-2-(2-aminoethoxy)-tetrahydrofuran) is as follows figure 1 As shown, the synthesis steps are as follows:

[0065] (1) Synthesis of T-1: D, L or DL-glutamic acid is reacted to obtain T-1 in the presence of sodium nitrite.

[0066] The specific steps are: adding 10 g (68 mmol) of D, L or DL-glutamic acid to a 500 mL single-mouth bottle, adding hydrochloric acid (14 mL of concentrated hydrochloric acid is dissolved in 28 mL of water), and the solid is dissolved. Stir in an ice bath for 30 minutes, and continue to add a solution of sodium nitrite (7 g, 100 mmol, dissolved in 30 mL of water) dropwise in an ice bath. Red-brown smoke is produced during the addition. After the addition is complete, continue to react for 3 hours in an ice bath, and then move to room temperature overnight. The water was evaporated under reduced pressur...

Example Embodiment

[0088] Example 2. When n=2, the synthesis of connecting unit T-8'

[0089] Schematic diagram of synthetic route figure 2 As shown, the synthesis steps are as follows:

[0090] (1) The synthesis of T-1 to T-4 is the same as that described in Example 1.

[0091] (2) Synthesis of T-6': T-4 reacts with bromotriethylene glycol to obtain T-6'.

[0092] The specific steps are: take 232 mg of T-4 (1 mmol), add 15 mL of dichloromethane to dissolve, add 426 mg of monobromotriethylene glycol (2 mmol), add 50 mg of Amberlyst A-15, and reflux for 2 hours at 50°C. The reaction was stopped, A-15 was removed by filtration, and washed with saturated sodium bicarbonate and saturated brine. The solvent was evaporated under reduced pressure to obtain 600 mg of light yellow oily liquid. Pack the column with silica gel and separate with petroleum ether: ethyl acetate = 5:1 to obtain 128 mg of pure light green T-6' with a yield of 30%. Cis: 1 H NMR(CDCl 3 , 400M): δ5.17 (1H, d, J=4.8Hz), 4.17~4.08(1H, ...

Example Embodiment

[0098] Example 3. When n=44, the synthesis of connecting unit T-8"

[0099] The schematic diagram of the synthetic route is as image 3 As shown, the synthesis steps are as follows:

[0100] (1) The synthesis of T-1 to T-4 is the same as that described in Example 1.

[0101] (2) Synthesis of T-6": T-4 is reacted with brominated polyethylene glycol 2000 to obtain T-6".

[0102] The specific steps are: take 1 mmol T-4, add 15 mL of dichloromethane to dissolve, add 2 mmol of monobromopolyethylene glycol 2000, add 50 mg of Amberlyst A-15, and reflux for 2 hours at 50°C. The reaction was stopped, A-15 was removed by filtration, and washed with saturated sodium bicarbonate and saturated brine. The solvent was evaporated under reduced pressure to obtain 600 mg of light yellow oily liquid. Pack the column with silica gel and separate with petroleum ether: ethyl acetate = 5:1 to obtain 213 mg of pure light green T-6". 1 H NMR(CDCl 3 , 400M): δ5.19 (1H, d, J=4.8Hz), 4.22~4.19(1H, m), 3.87~3....

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Abstract

The invention discloses a cracking connecting unit for tetrahydrofuran ether derivatives and application of the cracking connecting unit. The cracking connecting unit has the following structural formula, wherein n is any integer of 0 to 44. The cis-tetrahydrofuran ether derivatives, the trans-tetrahydrofuran ether derivatives or the cis- and trans-tetrahydrofuran ether derivatives can be used for sequencing, and have the same effect; the synthesizing raw materials for the compounds are simple and readily available, the synthesizing process is conventional chemical reaction, and massive synthesis is easy to realize; the compounds can be efficiently connected with nucleotide and fluorescein; and by researching the cracking performance of the compounds, the compounds can realize efficient cracking under mild conditions, and can be applied to DNA sequencing.

Description

technical field [0001] The invention relates to the fields of chemical synthesis and biochemistry, in particular to a tetrahydrofuran ether derivative cleavable linking unit that can be used for DNA synthesis sequencing and its use. Background technique [0002] DNA sequencing technology is one of the important means in modern biological research. After the completion of the Human Genome Project, DNA sequencing technology has developed rapidly. DNA sequencing (DNA sequencing) refers to the analysis of the base sequence of a specific DNA fragment, that is, the arrangement of adenine (A), thymine (T), cytosine (C) and guanine (G). The development of accurate, high-throughput, and low-cost DNA sequencing methods is of great significance to biological and medical sciences. [0003] Sequencing By Synthesis (SBS) is one of the next-generation DNA sequencing technologies. The synthetic sequencing method immobilizes a large number of template DNA fragments to be tested, hybridize...

Claims

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Application Information

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IPC IPC(8): C07D307/20C08G65/48C12Q1/68
CPCY02P20/55
Inventor 沈玉梅庄园郭勋祥伍新燕邵志峰龚兵黎庆
Owner SHANGHAI JIAO TONG UNIV
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