5-Propargylamino-3'-azidomethyl-dCTP
5-Aminopropargyl 3’-azidomethyl dCTP is a key building block for preparing fluorescent conjugates that are used in the next generation sequencing (NGS). NGS uses a similar chain termination method to the earlier Sanger sequencing, but NGS is carried out by fluorescence-labeled nucleotide analogs acting as reversible terminators of the amplification reaction. NGS relies on the blockade of DNA polymerization that is reversible while the Sanger sequencing uses the irreversible blockade of DNA polymerization by ddNTPs. Another different feature of NGS is that the clonal amplification in vitro to multiply the number of molecules to be sequenced is conducted by means of bridge PCR. In this platform, the fragments are joined to primers immobilized on a solid surface, performing an amplification in situ, generating clusters of DNA with identical molecules. In each cycle, the four nucleotides of reversible termination are simultaneously added and incorporated by the polymerase they complement. These nucleotides are chemically blocked—by substituting the 3′-OH group for a 3′-o-azidomethyl group—to prevent the polymerase from incorporating more than one nucleotide in each cycle. Upon incorporation of a nucleotide, a fluorescence signal is measured in different channels for different bases. Concerning the next cycle, the nucleotides that have not been incorporated are washed and the chemical blockade of the 3′ end is removed with TCEP. Once the fluorescence signal is collected, a new cycle begins, repeating this dynamic until the sequencing of each fragment is finished. In summary, the NGS sequencing reaction is carried out in three steps: addition of nucleotides, imaging, and regeneration of 3′-OH by fluorophore cleavage.
References
View all 5 references: Citation Explorer
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Authors: Watt, Danielle L and Buckland, Robert J and Lujan, Scott A and Kunkel, Thomas A and Chabes, Andrei
Journal: Nucleic acids research (2016): 1669-80
Authors: Watt, Danielle L and Buckland, Robert J and Lujan, Scott A and Kunkel, Thomas A and Chabes, Andrei
Journal: Nucleic acids research (2016): 1669-80
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Authors: Li, Shufen and Wang, Zhongju and Zhou, Lin and Luo, Fu and Zhao, Cunyou
Journal: Genome (2015): 357-63
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Journal: Cold Spring Harbor protocols (2015): 649-61
Authors: Belton, Jon-Matthew and Dekker, Job
Journal: Cold Spring Harbor protocols (2015): 649-61
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Authors: Ahn, Yul-Kyun and Tripathi, Swati and Kim, Jeong-Ho and Cho, Young-Il and Lee, Hye-Eun and Kim, Do-Sun and Woo, Jong-Gyu and Cho, Myeong-Cheoul
Journal: Gene (2014): 494-9
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Authors: Wynne, Samantha A and Pinheiro, Vitor B and Holliger, Philipp and Leslie, Andrew G W
Journal: PloS one (2013): e70892
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