Modified genomic DNA extraction method for Heterosigma akashiwo v1 (protocols.io.himb4c6)

protocols.io ◽  
2017 ◽  
Author(s):  
Monica Accerbi ◽  
Vinay Nagarajan ◽  
Kathryn Coyne ◽  
Pamela J
Keyword(s):  
Dna Extraction ◽  
Genomic Dna ◽  
Extraction Method ◽  
Heterosigma Akashiwo ◽  
Genomic Dna Extraction ◽  
Dna Extraction Method

scholarly journals A simple and efficient total genomic DNA extraction method for individual zooplankton

SpringerPlus ◽  
2016 ◽  
Vol 5 (1) ◽  
Author(s):  
Hanafiah Fazhan ◽  
Khor Waiho ◽  
Md. Sheriff Shahreza
Keyword(s):  
Dna Extraction ◽  
Genomic Dna ◽  
Extraction Method ◽  
Genomic Dna Extraction ◽  
Dna Extraction Method

scholarly journals A low-cost pipeline for soil microbiome profiling

2020 ◽  
Author(s):  
Anita Bollmann-Giolai ◽  
Michael Giolai ◽  
Darren Heavens ◽  
Iain Macaulay ◽  
Jacob Malone ◽  
...  
Keyword(s):  
Dna Extraction ◽  
Genomic Dna ◽  
Extraction Method ◽  
Low Cost ◽  
Sequence Variants ◽  
Genomic Dna Extraction ◽  
Library Construction ◽  
Dna Extraction Method ◽  
Amplicon Library ◽  
Commercial Kits

AbstractBackgroundCommon bottlenecks in environmental microbiome studies are the consumable and personnel costs necessary for genomic DNA extraction and sequencing library construction. This is harder for challenging environmental samples such as soil, which is rich in PCR inhibitors. To address this, we have established a low-cost genomic DNA extraction method for inhibitor rich samples alongside an Illumina-compatible 16S and ITS rRNA gene amplicon library preparation workflow that uses common laboratory equipment. We evaluated the performance of our genomic DNA extraction method against two leading commercial soil genomic DNA kits (MoBio PowerSoil® and MP Biomedicals™ FastDNA™ SPIN) and a recently published non-commercial extraction method by Zou et al. (2017). Our benchmarking experiment used four different soil types (coniferous, broad leafed, and mixed forest plus a standardised cereal crop compost mix) assessing the quality and quantity of the extracted genomic DNA by analysing sequence variants of 16S V4 and ITS rRNA amplicons.ResultsWe found that our genomic DNA extraction method compares well to both commercially available genomic DNA extraction kits in DNA quality and quantity. The MoBio PowerSoil® kit, which relies on silica column-based DNA extraction with extensive washing delivered the cleanest genomic DNA e.g. best A260:A280 and A260:A230 absorbance ratios. The MP Biomedicals™ FastDNA™ SPIN kit, which uses a large amount of binding material, yielded the most genomic DNA. Our method fits between the two commercial kits, producing both good yields and clean genomic DNA with fragment sizes of approximately 10 kb. Comparative analysis of detected amplicon sequence variants shows that our method correlates well with the two commercial kits.ConclusionHere we present a low-cost genomic DNA extraction method for inhibitor rich sample types such as soil that can be coupled to an Illumina-compatible simple two step amplicon library construction workflow for 16S V4 and ITS marker genes. Our method delivers high quality genomic DNA at a fraction of the cost of commercial kits and enables cost-effective, large scale amplicon sequencing projects. Notably our extracted gDNA molecules are long enough to be suitable for downstream techniques such as full gene sequencing or even metagenomics shotgun approaches using long reads (PacBio or Nanopore), 10x Genomics linked reads, Dovetail genomics etc.

A rapid genomic DNA extraction method and its combination with helicase dependent amplification for the detection of genetically modified maize

2016 ◽  
Vol 8 (1) ◽  
pp. 136-141 ◽  
Author(s):  
Eric Gonzalez Garcia ◽  
Andreas H. Farnleitner ◽  
Robert L. Mach ◽  
Rudolf Krska ◽  
Kurt Brunner
Keyword(s):  
Dna Extraction ◽  
Genomic Dna ◽  
Extraction Method ◽  
Genetically Modified Organisms ◽  
Genetically Modified ◽  
Solvent Free ◽  
Genetically Modified Maize ◽  
Genomic Dna Extraction ◽  
Dna Extraction Method

A simple, solvent-free extraction method for DNA facilitates the analysis for genetically modified organisms.

scholarly journals Protocol: a versatile, inexpensive, high-throughput plant genomic DNA extraction method suitable for genotyping-by-sequencing

Plant Methods ◽  
2018 ◽  
Vol 14 (1) ◽  
Author(s):  
Craig B. Anderson ◽  
Benjamin K. Franzmayr ◽  
Soon Won Hong ◽  
Anna C. Larking ◽  
Tracey C. van Stijn ◽  
...  
Keyword(s):  
Dna Extraction ◽  
High Throughput ◽  
Genomic Dna ◽  
Extraction Method ◽  
Genotyping By Sequencing ◽  
Genomic Dna Extraction ◽  
Dna Extraction Method

scholarly journals A Simple and Rapid Leaf Genomic DNA Extraction Method for Pearl Millet (Pennisetum glaucum L. R. Br)

2014 ◽  
Vol 2 (2) ◽  
pp. 75 ◽  
Author(s):  
Ogechi Nweke ◽  
Charles Osuji ◽  
Inuwa H. Mairo ◽  
Paul C. Onyenekwe
Keyword(s):  
Dna Extraction ◽  
Pearl Millet ◽  
Genomic Dna ◽  
Extraction Method ◽  
Pennisetum Glaucum ◽  
Genomic Dna Extraction ◽  
Dna Extraction Method

Sensitivity detection of Abacavir in human through SNP detection of HLA-B*5701 allele

2016 ◽  
Vol 5 (08) ◽  
pp. 4754
Author(s):  
Tanushree Mitra* ◽  
Shivshankar Kumdale ◽  
Sameer Chowdhary ◽  
Amol D. Raut
Keyword(s):  
Blood Sample ◽  
Dna Extraction ◽  
Genomic Dna ◽  
Extraction Method ◽  
Snp Detection ◽  
Dna Extraction Method ◽  
Sensitivity Detection

The main objective of this study was to make sure whether randomly taken 12 samples were sensitive to abacavir. The genomic DNA from 12 blood sample were extracted by phenol chloroform DNA extraction method, extracted genomic DNA were amplified and sequenced, thereafter SNPs were detected. Every sample had shown the presence of normal base at SNP position. This study indicated, those randomly taken 12 patients were sensitive to abacavir, so they can consume abacavir if they get infected with HIV.

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