We are looking for some protocols to genomic DNA extraction of H. pylori with the quality required to be sequenced in MiSeq system of Illumina. Does anyone have suggestions?
I hope these papers are helpful:
Sci Rep. 2018 Mar 23;8(1):5143. doi: 10.1038/s41598-018-23296-4.
Methodology challenges in studying human gut microbiota - effects of collection, storage, DNA extraction and next generation sequencing technologies.
Panek M1, Čipčić Paljetak H1, Barešić A2, Perić M3, Matijašić M1, Lojkić I4, Vranešić Bender D5, Krznarić Ž6, Verbanac D1.
Massively parallel sequencing of forensic STRs and SNPs using the Illumina® ForenSeq™ DNA Signature Prep Kit on the MiSeq FGx™ Forensic Genomics System.
Guo F, Yu J, Zhang L, Li J.
Forensic Sci Int Genet. 2017 Nov;31:135-148. doi: 10.1016/j.fsigen.2017.09.003. Epub 2017 Sep 8.
For preparing bacterial genomic DNA for Illumina sequencing, my research group uses the DNeasy Blood and Tissue Kit (Qiagen) followed by further clean-up of the DNA with the High Pure PCR Template Preparation Kit (Roche).
Thanks, Christian and Ronan, we´re going to try some kits of that you recommended.
I agree with Ronan, the DNeasy Blood and Tissue Kit (Qiagen) is a great kit for preparing bacterial genomic DNA for Illumina sequencing. To increase throughput, you can use a Qiavac vacuum manifold to pool several tubes containing the same sample together.
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