NGS Technique for Palindromic Sequencing of DNA Through Effective PST-PCR

Authors

  • Prapti Saraswat Undergraduate, Department of Biotechnology and Bioinformatics, Dr. DY Patil Biotechnology and Bioinformatics Institute, Pune, INDIA.

DOI:

https://doi.org/10.55544/jrasb.3.1.49

Keywords:

Palindrome DNA Sequence, Next Generation Sequencing (NGS), PST- PCR

Abstract

DNA Sequencing technologies have been in use since 1970 and has diversified to much more effective transformations till the date. Initially due to certain drawbacks like cost, time period and requirement of toxic and radioactive elements for the compilation of the process, it remained unintroduced to research setting for complex data in earlier times. One of a technique named as the Sanger technique had more practical approach for sequencing the desired data of the fragments. But the need of DNA sequencing surged after the commencement of the Human Genome Project (HGP) which was a 13 year long collaboration to sequence human genome for understanding its applicable uses.1

At the current stage, the progress moved towards Next Generation Sequencing (NGS) to   sequence the fragments of DNA for a better acknowledgement but somehow this did not reported for a fair outcome for palindromic DNA while sequencing. In this rugged sequencing platforms, Roche’s 454 with emulsion PCR technique amplified the templates through beads which later went through pyrosequencing with DNA Polymerase gave the desired output but had a major drawback of high cost.2 Therefore, this study deals with effective PST – PCR technique for studying palindromic DNA in NGS and how it can be considered to fit in all advantages for the above task.

Downloads

Download data is not yet available.

Metrics

Metrics Loading ...

References

Besser J, Carleton HA, Gerner-Smidt P, Lindsey RL, Trees E. Next-generation sequencing technologies and their application to the study and control of bacterial infections. Clin Microbiol Infect. 2018 Apr;24(4):335-341. doi: 10.1016/j.cmi.2017.10.013. Epub 2017 Oct 23. PMID: 29074157; PMCID: PMC5857210.

Huang YF, Chen SC, Chiang YS, Chen TH, Chiu KP. Palindromic sequence impedes sequencing-by-ligation mechanism. BMC Syst Biol. 2012;6 Suppl 2(Suppl 2):S10. doi: 10.1186/1752-0509-6-S2-S10. Epub 2012 Dec 12. PMID: 23281822; PMCID: PMC3521181.

Xiong AS, Yao QH, Peng RH, Duan H, Li X, Fan HQ, Cheng ZM, Li Y. PCR-based accurate synthesis of long DNA sequences. Nat Protoc. 2006;1(2):791-7. doi: 10.1038/nprot.2006.103. PMID: 17406309.

Kalendar R, Shustov AV, Schulman AH. Palindromic Sequence-Targeted (PST) PCR, Version 2: An Advanced Method for High-Throughput Targeted Gene Characterization and Transposon Display. Front Plant Sci. 2021 Jun 22;12:691940. doi: 10.3389/fpls.2021.691940. PMID: 34239528; PMCID: PMC8258406.

Volpicella M, Leoni C, Costanza A, Fanizza I, Placido A, Ceci LR. Genome walking by next generation sequencing approaches. Biology (Basel). 2012 Oct 1;1(3):495-507. doi: 10.3390/biology1030495. PMID: 24832505; PMCID: PMC4009806.

Goswami RS. PCR Techniques in Next-Generation Sequencing. Methods Mol Biol. 2016;1392:143-51. doi: 10.1007/978-1-4939-3360-0_13. PMID: 26843053.

Kalendar R, Shustov AV, Seppänen MM, Schulman AH, Stoddard FL. Palindromic sequence-targeted (PST) PCR: a rapid and efficient method for high-throughput gene characterization and genome walking. Sci Rep. 2019 Nov 27;9(1):17707. doi: 10.1038/s41598-019-54168-0. PMID: 31776407; PMCID: PMC6881309.

Downloads

Published

2024-03-27

How to Cite

Saraswat, P. (2024). NGS Technique for Palindromic Sequencing of DNA Through Effective PST-PCR. Journal for Research in Applied Sciences and Biotechnology, 3(1), 302–304. https://doi.org/10.55544/jrasb.3.1.49