Nucleic Acid Extraction Kits

<h2>What are Spin-Column Bacterial and Fungal RNA Extraction Kits?</h2>
&nbsp;
Spin-column bacterial and fungal RNA extraction kits isolate total RNA from Gram-positive bacteria, Gram-negative bacteria, yeasts, filamentous fungi, algae, and protozoa using ultra-high-density BashingBead mechanical cell wall disruption in a chaotropic lysis buffer, followed by RNA binding to a Zymo-Spin silica-membrane column, on-column washing, and elution in 6-100 ul of RNase-free water - all using a standard microcentrifuge. The complete protocol takes under 15 minutes for a batch of 1-12 samples, requiring only a vortex with a microcentrifuge tube adapter, a microcentrifuge, and standard pipetting equipment. No specialized robotics, vacuum manifolds, or magnetic separation racks are needed. Choose a spin-column bacterial/fungal RNA kit for manual extraction of 1-24 samples per run, when existing automation infrastructure does not support magnetic bead formats, or when the fastest possible turnaround from culture to RT-qPCR data is required.
&nbsp;
<h2 dir="ltr">What you will find:</h2>
&nbsp;
<ul>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" aria-level="1">
Pinpoint&trade; Slide RNA Isolation System for targeted extraction of total RNA directly from localized tissue sections on microscope slides
</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" aria-level="1">
Quick-RNA&trade; Fungal/Bacterial MicroPrep Kit for highly concentrated, low-volume recovery of transcripts utilizing micro-elution spin-column matrices&nbsp;
</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" aria-level="1">
ZR Fungal/Bacterial RNA MiniPrep for precise cell-wall shattering of yeast and recalcitrant spores&nbsp;
</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" aria-level="1">
YeaStar&trade; RNA Kit efficiently permeabilizes tough yeast cell walls.&nbsp;
</li>
</ul>
&nbsp;
<h2>How to Choose a Spin-Column Bacterial/Fungal RNA Kit</h2>
&nbsp;
Miniprep vs. Microprep Format
The Zymo Quick-RNA Fungal/Bacterial Miniprep processes up to 2x10^8 bacteria or 2x10^7 fungi per column, eluting in 25-100 ul - the standard choice for typical 1-5 ml bacterial cultures. The Microprep handles smaller inputs (up to 1x10^7 bacteria) and elutes in as little as 6 ul, concentrating RNA for sensitive applications such as single-cell-equivalent samples or very low-input transcriptomics.
Bead Size for Target Organism
Pre-mixed 0.1 mm + 0.5 mm BashingBead tubes in Zymo kits handle bacteria (0.1 mm) and fungi (0.5 mm) without selecting bead size. For pure Gram-negative bacterial cultures that do not require bead beating, direct lysis in buffer is available as a faster protocol option that skips the bead-beating step entirely.
On-Column DNase I Treatment
Include DNase I for all RT-qPCR and RNA-seq applications. Bacterial gDNA is abundant and co-purifies efficiently under silica-membrane binding conditions; without DNase treatment, gDNA contamination produces false amplification in RT-qPCR assays targeting genes with no introns. DNase I Reaction Mix is included in Zymo Quick-RNA Fungal/Bacterial kits.
Elution Volume
Elute in 25-50 ul for standard RT-qPCR (2-5 ul per reaction provides 5-25 RNA equivalents per assay). For RNA-seq library preparation requiring &gt;=200 ng input, use 50-100 ul elution volume to recover more total RNA mass; then measure concentration by Qubit and adjust for library prep.
Storage of Extracted RNA
Store spin-column bacterial RNA at -80C in single-use aliquots; mRNA from bacteria is AU-rich and degrades rapidly through multiple freeze-thaw cycles. Use within 6 months for transcriptomic applications; RT-qPCR targets with high expression levels remain quantifiable for 12+ months at -80C.
&nbsp;
<h2>Specifications Context</h2>
&nbsp;
Target quality metrics for spin-column bacterial/fungal RNA: A260/A280 &gt;= 1.8, A260/A230 &gt;= 1.5, and RIN &gt;= 7 from log-phase cultures processed within 60 seconds of harvest. Zymo Research Quick-RNA Fungal/Bacterial kits use the same Zymo-Spin column technology found across the Quick-RNA product line and are validated for inhibitor-free RNA suitable for NGS, RT-PCR, microarray, and hybridization. The Quick-RNA Fungal/Bacterial Miniprep is one of the most widely used spin-column formats for bacterial and fungal RNA in academic molecular microbiology research, with validated protocols for S. cerevisiae, C. albicans, A. fumigatus, and standard Gram-positive and Gram-negative species.&nbsp;
<section class="mbp-contact-cta"></section>
&nbsp;
<a href="https://mbpinc.net/contact-us">Contact the MBP team</a> for kit selection guidance, bulk pricing, and Zymo Research protocol adaptation for non-standard organisms.

Spin-column

Bacterial/Fungal RNA/ Spin-column

MSDS - R1003

MSDS - R1007

Protocol - R1003

Protocol - R1007

R1003-Protocol

Pinpoint™ Slide RNA Isolation System I

Pinpoint Slide RNA Isolation System I (R1003) by Zymo Research — 50-prep RNA isolation from fresh/frozen tissue sections on glass slides. Recovers &ge;17 nt RNA (incl. microRNA), elutes in &ge;6 µL, A260/A280 &gt;1.8, up to 10 µg/prep. All components stored at room temperature.

Equipment

Purity

Sample Source

Size Range

Yield

Manufacturer

Shipping Condition

Storage Condition

Pinpoint™ Slide RNA Isolation System I (50 Preps.)

Pinpoint™ Slide RNA Isolation System II (50 Preps.)

RNA Digestion Buffer (1.2 ml)

RNA Extraction Buffer (12 ml)

RNA Extraction Buffer (3 ml)

RNA Wash Buffer (12 ml)

RNA Wash Buffer (24 ml)

RNA Wash Buffer (48 ml)

RNA Wash Buffer (6 ml)

<h2>What Are 96-Well Plate Genomic DNA Kits for Blood and Tissue?</h2>
&nbsp;
96-well plate genomic DNA kits for blood and tissue replace individual spin columns with silica-binding or glass-fiber plates that enable simultaneous purification of genomic, mitochondrial, or pathogen DNA from up to 96 samples per run. These systems are designed for whole blood, serum, plasma, lymphocytes, cultured cells, and selected tissue samples, providing efficient high-throughput DNA extraction for research and molecular testing workflows.&nbsp;Choose a 96-well plate genomic DNA kit when sample volumes justify batch processing on a plate-compatible centrifuge or vacuum manifold.
&nbsp;
<h2>What You Will Find</h2>
&nbsp;
<ul>
<li>Streamlined high-throughput processing using 96-well plate formats for simultaneous genomic DNA purification.</li>
<li>High-purity DNA extraction from blood and tissue samples using optimized purification chemistries.</li>
<li>Compatibility with both automated and manual workflows for scalable sample preparation in research and diagnostic laboratories.</li>
<li>Purified DNA suitable for sequencing, PCR, qPCR, genotyping, and other downstream molecular biology applications.</li>
</ul>
<h2>&nbsp;</h2>
<h2>How to Choose a 96-Well Plate Blood and Tissue Genomic DNA Kit</h2>
&nbsp;
Sample Input and Well Capacity
Most kits accept up to 200 &micro;L of whole blood, serum, plasma, or approximately 5 &times; 106 cultured cells per well. Exceeding recommended input volumes can reduce DNA binding efficiency and overall recovery.
Centrifuge Rotor vs. Vacuum Manifold Compatibility
96-well plate kits typically require either a centrifuge equipped with a compatible 96-well plate rotor and deep bucket carriers or a vacuum manifold system. If your laboratory lacks a plate-compatible centrifuge, confirm vacuum manifold compatibility before selecting a kit.
Yield and Elution Volume
A typical extraction yields approximately 6 &micro;g of genomic DNA from 200 &micro;L of whole blood, with elution volumes commonly around 200 &micro;L using TE buffer or nuclease-free water. Processing times generally range from 45 minutes to a few hours, depending on workflow design.
Throughput and Sample Type Considerations
These kits are optimized for high-throughput processing and can handle large sample batches efficiently. When processing multiple sample types within the same plate, additional pretreatment steps may be required for certain tissues or cell types.
&nbsp;
<h2>Specifications Context</h2>
&nbsp;
The key specifications for 96-well plate genomic DNA extraction kits include sample input volume, DNA yield, elution volume, and compatibility with centrifuge-based or vacuum-manifold workflows. Most kits in this category are designed for high-throughput purification of genomic DNA from blood, tissue, and cultured cell samples while maintaining consistent recovery across large sample batches.&nbsp;Products such as the Quick-DNA 96 Kit, Quick-DNA 96 Plus Kit, 96-well Blood DNA Kit, and 96-well Tissue DNA Kit support parallel processing in a plate-based format, helping laboratories scale routine genotyping, PCR, qPCR, and sequencing workflows. Typical workflows combine optimized lysis and silica-based DNA binding chemistry to remove inhibitors while producing purified DNA suitable for downstream molecular biology applications.&nbsp;When selecting a kit, confirm compatibility with your laboratory's centrifuge rotor, 96-well carrier, or vacuum manifold system, as equipment requirements vary between platforms. Most kit components are stored at room temperature, while any included enzyme reagents should be stored according to the manufacturer's recommendations. Lot-specific Certificates of Analysis (CoAs) are available upon request.
&nbsp;
<a href="https://mbpinc.net/contact-us">Contact the MBP team </a>today to discuss high-throughput genomic DNA extraction workflows and receive expert guidance on selecting the right 96-well plate solution for your laboratory.

96-well plate

DataSheet

MSDS

Protocol

Quick-DNA 96 Kit

D3010 Quick-DNA 96 Kit by Zymo Research purifies inhibitor-free genomic DNA (≤5 µg/well, ≥40 kb) from whole blood, cells, and tissue in a 2×96-well plate format. Compatible with PCR, genotyping, bisulfite conversion, and NGS.

ZR-96 Quick-DNA™ Kit (2 x 96 Preps.)

ZR-96 Quick-DNA™ (4 x 96 Preps.)

ZR-96 Quick-DNA™ (10 x 96 Preps.)

D4070-Data Sheet

D4070 - MSDS

D4070-Protocol

Quick-DNA 96 Plus Kit

D4070 by Zymo Research: Quick-DNA™ 96 Plus Kit, 2×96 preps. Extracts genomic DNA from biofluids, cells, and solid tissues. 5 µg/well binding capacity; ≥15 µl elution; Proteinase K digestion at 55°C. Typical yield: 5–7 µg from 100 µl whole blood. Made in USA.

Elution Volume

Workflow

Quick-DNA™ 96 Plus Kit (2 x 96 Preps.)

Quick-DNA™ 96 Plus Kit (4 x 96 Preps.)

<h2>What are microbial and environmental DNA isolation kits?</h2>
&nbsp;
Microbial and environmental DNA isolation kits purify DNA from soil, sediment, freshwater, marine water, feces, and other complex environmental matrices using lysis and purification chemistry designed to remove humic acids, metal compounds, and other inhibitors that interfere with PCR and sequencing, supporting 16S/18S rRNA amplicon profiling and shotgun metagenomic sequencing. Related entities include "kitome" and "splashome" contamination controls, alpha diversity and microbial community composition analysis, and compatibility with both short-read (Illumina) and long-read (Oxford Nanopore) sequencing platforms. Choose a kit validated for your specific sample matrix (soil, sediment, water, or feces), since benchmarking studies consistently show kit performance varies by matrix rather than one kit being universally best.
&nbsp;
<h2 dir="ltr">What you will find:</h2>
&nbsp;
<ul>
<li dir="ltr" role="presentation">Spin-column fungal and bacterial kits for rapid DNA purification using rapid silica-membrane technology&nbsp;</li>
<li dir="ltr" role="presentation">Parallel extraction of soil, fecal, and environmental samples using high-throughput 96-well microplates&nbsp;</li>
<li dir="ltr" role="presentation">Automated&nbsp; purification of complex microbial and environmental specimens using Magnetic bead isolation systems</li>
<li dir="ltr" role="presentation">Scalable microprep and midiprep columns tailored for concentrated low-volume elution demands and diverse sample inputs</li>
</ul>
&nbsp;
<h2>How to choose a microbial and environmental DNA isolation kit</h2>
&nbsp;
Matrix-specific kit performance
Benchmarking studies comparing multiple commercial kits across sediment, water, soil, oyster gut microbiome, and mammalian feces have found that the best-performing kit varies by matrix - kits ranked highly for sediment did not necessarily perform best for water or host-associated samples. Rather than assuming a single "universal" kit, match your kit choice to published benchmarking results for your primary sample type where available.
Inhibitor removal for downstream PCR and sequencing
Environmental samples, especially sediments and soils, contain organic and metal compounds that inhibit PCR amplification if not removed during extraction; kits designed for these matrices integrate inhibitor-removal steps as part of the standard protocol. If your samples have historically produced low PCR amplification efficiency with general-purpose kits, an environmental-matrix-specific kit with built-in inhibitor removal is the first thing to evaluate.
Short-read vs. long-read sequencing compatibility
For long-read metagenomic sequencing, DNA fragment length and integrity from the extraction kit directly affect achievable read lengths, though longer extracted fragments don't always translate consistently into longer sequencing reads - kit choice affects both fragment length and downstream classification rate and reproducibility. If long-read metagenomics is your goal, prioritize kits with published long-read benchmarking data over kits validated only for short-read amplicon work.
Contamination control (kitome/splashome)
Kit-derived contamination ("kitome") and cross-sample contamination during processing ("splashome") can affect microbial community composition results, particularly for low-biomass samples; benchmarking studies evaluate kits specifically for these contamination sources alongside yield and diversity metrics. For low-biomass environmental samples, prioritize kits with documented low kitome contamination in published comparisons.
&nbsp;
<h2>Specifications context</h2>
&nbsp;
The key specs for microbial and environmental DNA isolation are matrix-specific validation (soil vs. sediment vs. water vs. feces), built-in inhibitor removal for PCR-ready output, and fragment length/integrity for long-read sequencing compatibility where relevant. Since benchmarking studies repeatedly show no single kit performs best across all matrices, identifying your primary sample type before selecting a kit is the most impactful decision. Labs running metagenomic surveys across multiple matrices (e.g., soil and water from the same field site) often need separate matrix-optimized kits rather than a single universal kit. The parent <a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/dna-extraction-kits/genomic-dna">genomic DNA extraction kits hub</a>&nbsp;links to related sample-type categories, including&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/dna-extraction-kits/genomic-dna/insect">insect genomic DNA kits</a>&nbsp;and&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/dna-extraction-kits/genomic-dna/plant">plant genomic DNA kits</a>&nbsp;for organism-associated environmental work, and&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/dna-extraction-kits/high-molecular-weight-dna">high molecular weight DNA kits</a>&nbsp;for long-read metagenomics requiring larger fragment sizes. For cell-free DNA in environmental water samples (eDNA detection), see&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/dna-extraction-kits/cell-free-dna">cell-free DNA kits</a>.&nbsp;
<section class="mbp-contact-cta">
&nbsp;
MBP's specialist team can help match kit chemistry, format, and throughput to your sample type and downstream application.&nbsp;<a href="https://mbpinc.net/contact-us">Contact the MBP team</a> for personalized guidance.
</section>

Microbial & Environmental DNA Isolation

Quick-DNA Fecal/Soil Microbe MicroPrep Kit (50 Preps.)

D6012 Quick-DNA Fecal/Soil Microbe MicroPrep Kit by Zymo Research — 50 preps, ≤15 min, ≤50 mg feces or ≤250 mg soil input, inhibitor-free DNA, ≤5 µg yield, ≥20 µl elution.

Applicable For

Processing Volume

Sample Storage

Type

<h2>What Are Spin-Column Genomic DNA Kits for Blood and Tissue?</h2>
&nbsp;
A spin-column genomic DNA kit for blood and tissue combines a proteinase K-based direct lysis step with a silica-membrane spin column to purify genomic, mitochondrial, or viral DNA from animal blood, tissue, and cultured cells without phenol, chloroform, or alcohol precipitation. Related entities include direct-lysis protocols, dried blood spot supplementary workflows, TissueLyser mechanical disruption, and downstream PCR, genotyping, and sequencing library preparation.&nbsp;Use spin-column formats for individual or small-batch genomic DNA extraction from blood, cells, or tissue using a standard microcentrifuge.
&nbsp;
<h2 dir="ltr">What you will find:</h2>
&nbsp;
<ul>
<li>Efficient isolation of high-quality genomic DNA from blood, saliva, tissues, and other biological samples using rapid spin-column purification.&nbsp;</li>
<li>Maximize DNA recovery with optimized lysis and binding chemistry while minimizing inhibitor, protein, and contaminant interference</li>
<li>Midiprep, microprep, and miniprep formats available to support varied sample input volumes&nbsp;</li>
<li>User-friendly workflows and streamlined protocols with fast processing times for efficient genomic DNA extraction&nbsp;</li>
</ul>
&nbsp;
<h2>How to Choose a Spin-Column Blood/Tissue Genomic DNA Kit</h2>
&nbsp;
Lysis Approach by Sample Type
Whole blood, buffy coat, buccal cells, and cultured cells generally undergo direct proteinase K lysis without mechanical disruption. In contrast, fibrous or fatty tissues such as muscle, liver, or skin often require mechanical homogenization prior to the lysis step to ensure complete cell disruption.
Anticoagulant and Blood Sample Handling
These kits typically support fresh or frozen blood collected in EDTA, citrate, or heparin. Dried blood spots generally require supplementary protocols and additional equipment beyond standard spin-column workflows.
Column Elution Chemistry
Elution is typically performed using Tris-based buffer or nuclease-free water, with volumes ranging from approximately 50&ndash;200 &micro;L depending on kit design and sample type. Water elution may be preferred for EDTA-sensitive downstream applications.
Scaling Beyond a Single Column
For higher throughput workflows, 96-well plate formats using the same silica-membrane chemistry enable simultaneous processing of multiple samples per centrifuge run. Spin-column formats remain best suited for method development and low-to-moderate sample volumes.
&nbsp;
<h2>Specifications Context:</h2>
&nbsp;
The most important parameters for spin-column blood/tissue genomic DNA kits are sample-type compatibility and elution buffer composition, as these determine whether additional pretreatment is required and whether the eluate is directly compatible with downstream workflows. A typical 200 &micro;L whole blood input yields low-microgram quantities of genomic DNA in an elution volume of approximately 50&ndash;200 &micro;L.
&nbsp;
Use MBP's <a href="mbpinc.net/quickorder">Quick Order tool</a> for bulk pricing or <a href="mbpinc.net/contact-us">contact the specialist team</a> to confirm pretreatment requirements for challenging tissue types.

Quick-DNA Microprep Kit

C2010 by Zymo Research — 2-pack of Zymo-Spin™ I-96-XL deep-well 96-well purification plates for high-throughput HMW DNA (up to 5 µg/well) and RNA (up to 10 µg/well) purification. 1.1 ml well capacity; elution in ≥ 15 µl per well. Centrifuge-compatible. Pair with Air Permeable Sealing Cover (C2011-2).

Quick-DNA™ MicroPrep (50 Preps.)

Quick-DNA™ MicroPrep (200 Preps.)

Quick-DNA Miniprep

D3024 by Zymo Research is the Quick-DNA™ Miniprep Kit (50 preps) for rapid, Proteinase K-free gDNA isolation from whole blood (up to 200 µl), plasma, serum, cultured cells, and buccal samples—yielding 3–7 µg per 100 µl blood (up to 25 µg total) with A260/A280 &gt;1.8, DNA up to 40 kb+, in ≥50 µl eluate. The inhibitor-free output is directly compatible with PCR, qPCR, restriction digestion, and bisulfite conversion.

Quick-DNA™ MiniPrep (50 Preps.)

Quick-DNA™ MiniPrep (200 Preps.)

<h2>What Are 96-Well Plate Viral DNA Extraction Kits?</h2>
&nbsp;
A 96-well plate viral DNA extraction kit replaces individual spin columns with a silica-membrane plate, allowing up to 96 cell-free liquid samples to be lysed, bound, washed, and eluted simultaneously using either a centrifuge equipped with a 96-well rotor carrier or a vacuum manifold. These systems support high-throughput viral DNA purification workflows while maintaining the nucleic acid quality required for PCR, qPCR, sequencing, and molecular diagnostics.&nbsp;Choose a 96-well plate viral DNA extraction kit when sample volumes justify batch processing, and your laboratory has compatible centrifuge or vacuum-manifold equipment.
&nbsp;
<h2>What you will find:&nbsp;</h2>
&nbsp;
<ul>
<li>Quick-DNA Viral 96 Kit: Enables efficient parallel processing of up to 96 samples in a single workflow.</li>
<li>Sequencing Ready: Produces purified viral nucleic acids suitable for next-generation sequencing applications.</li>
<li>PCR &amp; qPCR Compatible: Delivers high-quality DNA and RNA for PCR, qPCR, and RT-qPCR workflows.</li>
<li>Molecular Diagnostics Support: Ideal for high-throughput viral screening and diagnostic research applications.</li>
</ul>
<h2>&nbsp;</h2>
<h2>How to Choose a 96-Well Plate Viral DNA Extraction Kit</h2>
&nbsp;
Centrifuge Rotor and Minimum Speed Requirements
Most 96-well plate kits require a centrifuge equipped with a compatible 96-well plate rotor or carrier. Some systems specify minimum centrifugal forces around 2,250 &times; g and sufficient bucket depth to accommodate the plate format. Confirm equipment compatibility before selecting a kit.
Vacuum Manifold Compatibility
Many plate-based viral DNA extraction kits can also be operated using a vacuum manifold instead of centrifugation. This option is particularly useful for laboratories already utilizing vacuum-based nucleic acid purification workflows.
Elution Volume and DNA Concentration
Some kits support elution volumes as low as 6&ndash;10 &micro;L of DNase/RNase-free water, enabling recovery of highly concentrated viral DNA suitable for low-titer samples and sensitive qPCR applications. Larger elution volumes may be preferable when sample concentration is less critical, and ease of handling is a priority.
Throughput and Workflow Efficiency
While plate-format kits generally have a higher upfront cost than individual spin-column kits, they significantly reduce hands-on time per sample when processing large batches. Laboratories routinely processing dozens of samples per run typically benefit most from plate-based workflows.
&nbsp;
<h2>Specifications Context</h2>
&nbsp;
The most important specifications for 96-well plate viral DNA extraction kits are sample input capacity, minimum elution volume, and equipment compatibility requirements. Many systems process up to 400 &micro;L of sample per well and support low-volume elution for concentrated DNA recovery.&nbsp;Plate-based workflows are commonly adopted by laboratories transitioning from single-column extraction methods to higher-throughput operations. By combining silica-membrane purification with automation-friendly formats, these kits help standardize viral DNA extraction across large sample sets while maintaining consistent performance for downstream PCR, qPCR, and sequencing applications.
&nbsp;
<a href="https://mbpinc.net/contact-us">Contact the MBP team</a> today to discuss your high-throughput viral DNA extraction requirements and receive expert guidance on selecting the right 96-well plate solution for your laboratory workflow.

Quick-DNA Viral 96 Kit

D3017 by Zymo Research is a 96-well viral DNA isolation kit providing 2 × 96 preps. Accepts ≤200 µl whole blood, plasma, serum, tissue, or cultured cells; elutes in ≥10 µl with A260/A280 ≥1.8 and DNA spanning 100 bp–50 kb. Compatible with qPCR, NGS, PCR, Southern blotting, and restriction digestion.

Quick-DNA™ Viral 96 Kit (2 x 96 Preps.)

Quick-DNA™ Viral 96 Kit (4 x 96 Preps.)

<h2>What are FFPE DNA extraction kits?</h2>
&nbsp;
An FFPE DNA extraction kit purifies genomic DNA from formalin-fixed, paraffin-embedded tissue sections through a deparaffinization step (xylene-free in most current kits), proteinase K digestion to lyse fixed tissue, heat treatment to reverse formalin-induced crosslinks, and silica-membrane spin column purification, with some kits offering an optional uracil-N-glycosylase (UNG) treatment to remove deaminated-cytosine artifacts before NGS. Choose an FFPE-specific kit rather than a standard tissue kit whenever your sample is formalin-fixed and paraffin-embedded, since standard kits don't include deparaffinization or crosslink-reversal steps.
&nbsp;
<h2 dir="ltr">What you will find:</h2>
&nbsp;
<ul>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" aria-level="1">Quick-DNA&trade; FFPE MiniPrep for rapid isolation of high-purity genomic DNA from FFPE tissue samples for high-throughput downstream applications.</li>
<li data-section-id="1n7706u" data-start="258" data-end="375">Designed to recover highly fragmented and cross-linked DNA suitable for sensitive downstream molecular workflows.</li>
<li data-section-id="355glt" data-start="376" data-end="494">Streamlined workflow supports rapid processing of FFPE samples with minimal hands-on time and reduced sample loss.</li>
<li data-section-id="125uabh" data-start="495" data-end="611">Optimized for compatibility with high-throughput applications, including PCR, sequencing, and genotyping assays.</li>
<li data-section-id="10hv3na" data-start="612" data-end="731" data-is-last-node="">Ensures consistent DNA yield and purity from challenging archived tissue specimens for reliable experimental results.</li>
</ul>
&nbsp;
<h2>How to choose an FFPE DNA extraction kit</h2>
&nbsp;
Deparaffinization chemistry
Most current FFPE DNA kits use a proprietary, xylene-free Deparaffinization Solution that dissolves paraffin without multiple wash steps, though some published methods use mineral oil as a simple alternative deparaffinization approach. Xylene-free chemistry reduces hands-on time and avoids handling a hazardous solvent, which matters for labs without dedicated solvent fume hoods.
Crosslink reversal and artifact removal
Formalin fixation creates DNA-protein crosslinks that block PCR unless reversed, so FFPE kits include a heat-based de-crosslinking step after lysis; some kits add an optional UNG treatment before a second lysis step to remove deaminated-cytosine artifacts, which is specifically useful for reducing C-to-T and G-to-A transition artifacts in NGS data. If your downstream application is NGS or dPCR on long-archived samples, a kit with UNG treatment is worth the extra step.
Sample input and elution volume
FFPE kits typically recommend 6-8 tissue sections of 5-10 um thickness as input, with some kits offering elution volumes as low as 15-30 ul for concentrated DNA suitable for limited-input downstream assays. If your archived sections are scarce, prioritize kits that minimize sample loss during deparaffinization rather than requiring multiple wash steps.
Expected DNA quality and fragment size
DNA from FFPE samples is inherently fragmented due to formalin fixation, and downstream applications involving fragments under 200 bp are generally achievable with effective deparaffinization and extraction; PCR success rates around 97% across microsatellite markers have been reported with optimized protocols on long-archived specimens. Set expectations for fragment size and PCR success rate based on sample age and fixation duration rather than assuming fresh-tissue-equivalent quality.
&nbsp;
<h2>Specifications context</h2>
&nbsp;
The key specs for FFPE DNA extraction are deparaffinization chemistry (xylene-free vs. solvent-based), whether crosslink reversal and optional UNG artifact removal are included, and elution volume relative to your sample's scarcity. A kit recommending 6-8 sections per extraction with elution as low as 15-30 ul concentrates limited archived material for downstream PCR or NGS. Labs working with both fresh and archived samples often keep&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/dna-extraction-kits/genomic-dna/blood/tissue">blood/tissue genomic DNA kits</a>&nbsp;for fresh/frozen tissue alongside a dedicated FFPE kit for archived specimens, since standard tissue kits lack deparaffinization chemistry. The parent&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/dna-extraction-kits/genomic-dna">genomic DNA extraction kits hub</a>&nbsp;and broader&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/dna-extraction-kits">DNA extraction kits hub</a>&nbsp;link to related sample-type categories, including&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/dna-extraction-kits/genomic-dna/urine">urine DNA extraction kits</a>&nbsp;and&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/dna-extraction-kits/genomic-dna/insect">insect genomic DNA kits</a>&nbsp;for other specialized sample types.&nbsp;
&nbsp;
<section class="mbp-contact-cta">
MBP's specialist team can help match kit chemistry, format, and throughput to your sample type and downstream application.&nbsp;<a href="https://mbpinc.net/contact-us">Contact the MBP team</a> for personalized guidance.
</section>

FFPE

Quick-DNA™ FFPE MiniPrep

D3067 by Zymo Research is the Quick-DNA FFPE MiniPrep Kit (50 preps) for extracting up to 25 µg of DNA from FFPE tissue samples into ≥50 µl with A260/A280 ≥1.8 purity. Includes Deparaffinization Solution and Zymo-Spin IIC columns; fragment size selection available for &gt;50 bp (qPCR) or &gt;500 bp (NGS) targets. Compatible with fresh/frozen tissue. Requires microcentrifuge and heat block (55 °C and 90 °C). Made in USA by Zymo Research.

Quick-DNA™ FFPE MiniPrep (50 Preps.)

Deparaffinization Solution (20 ml)

Genomic DNA Wash 1 (25 ml)

Genomic DNA Wash 2 (12 ml)

Quick-DNA™ Fecal/Soil Microbe 96 Kit (2 x 96 Preps.)

The Quick-DNA™ Fecal/Soil Microbe 96 Kit (D6011) by Zymo Research extracts inhibitor-free genomic DNA in a 96-well format from fecal samples (≤80 mg), soil (≤135 mg), and microbial cells. Silicon-A-HRC technology removes humic acids, polyphenolics, and melanins. Yields up to 5 µg DNA per prep at A260/A280 ≥1.8; 2 × 96 preps per kit; compatible with qPCR, NGS, and microarrays.

MSDS - D6010-FM

MSDS - D6011-FM

MSDS - D6012-FM

Optimized Lysis Protocols

Quick-DNA™ Fecal/Soil Microbe 96 Magbead Kit

Quick-DNA™ Fecal/Soil Microbe 96 Magbead Kit (D6010FM) by Zymo Research — 96-well magnetic bead DNA extraction from ≤80 mg feces or ≤135 mg soil. Inhibitor-free, ≥37.5 µl elution, ≤25 µg yield, ~90 min processing. Automation-compatible (Hamilton, KingFisher, Tecan). 2 × 96 preps per kit. Made in the USA.

Quick-DNA™ Fecal/Soil Microbe 96 Magbead Kit (2 x 96 Preps) (includes ZR BashingBead™ Lysis Rack)

Quick-DNA™ Fecal/Soil Microbe 96 Magbead Kit (2 x 96 Preps.)(Lysis Matrix Not Included)

Quick-DNA™ Fecal/Soil Microbe 96 Magbead Kit (2 x 96 Preps) (includes ZR BashingBead™ Lysis Tubes)

Quick-DNA™ Fecal/Soil Microbe DNA MiniPrep Kit (50 Preps.)

D6010 by Zymo Research is the Quick-DNA™ Fecal/Soil Microbe DNA MiniPrep Kit (50 preps). Isolates inhibitor-free DNA from feces (≤150 mg), soil (≤250 mg), or fungal/bacterial cells (≤100 mg). Yield ≤25 µg; purity A260/A280 ≥1.8; fragments up to 40 kb+. Uses ZR BashingBead™ Lysis Tubes. Processing time ~15 min after bead beating.

Quick-DNA™ Fecal/Soil Microbe MidiPrep (25 Preps.)

D6110 Quick-DNA Fecal/Soil Microbe MidiPrep Kit by Zymo Research — 25 preps, ≤375 mg feces or ≤5 g soil input, up to 125 µg DNA yield, ≥150 µl elution, ≤25 min, inhibitor-free.

United States

Texas

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