Brands

Tubes

MSDS

S6012-50-MSDS

Protocol

ZR BashingBead Lysis Tubes

ZR BashingBead™ Lysis Tubes by Zymo Research are available as S6012-50 (0.1 &amp; 0.5 mm beads, 50 pack) for environmental and microbial samples, and S6014-50 (0.1 &amp; 2.0 mm beads, 50 pack) for disease vectors and tough tissues. Each 2 ml impact-resistant tube contains 0.7 ml of chemically inert, fracture-resistant beads. Made in the USA. Suited to metagenomics, microbiomics, and vector biology labs.

Manufacturer

ZR BashingBead Lysis Tubes (0.1 & 0.5 mm) (50 Pack)

ZR BashingBead Lysis Tubes (0.1 & 2.0 mm) (50 Pack)

ZR BashingBead Lysis/Filtration Tubes

S6010 by Zymo Research is the ZR BashingBead Lysis/Filtration Tube with 0.5 mm beads, a 25-pack of 50 mL impact-resistant polypropylene tubes that combine bead-beating lysis and silica-based nucleic acid capture in a single vessel. The integrated silica filtration matrix binds 5&ndash;10 &micro;g of nucleic acid; minimum elution volume is &ge;6 &micro;l. Compatible bead beaters include the Bullet Blender (9 tubes per run), FastPrep-24 (40-second processing), and Geno/Grinder 2010 (12 tubes per run).
The 0.5 mm beads are optimized for disruption of bacteria, fungi, and yeast. For tissue homogenization, use the S6011 (2.0 mm beads). No organic denaturants or proteinases are required.
MBP is a registered vendor for Howard Hughes Medical Institute, Vanderbilt University, MD Anderson Cancer Center, Eurofins, and many other institutes across the USA. Order via <a href="https://www.mbpinc.net/quickorder">Quick Order</a> or contact <a href="mailto:customerservice@mbpinc.net">customerservice@mbpinc.net</a>.

Binding Capacity

Compatibility

Elution Volume

Format

Volumetric Capacity

ZR BashingBead Lysis/Filtration Tubes w/ 0.5 mm Beads (50 ml) (25 Pack)

ZR BashingBead Lysis/Filtration Tubes w/ 2.0 mm Beads (50 ml) (25 Pack)

<h2>What are DNA Sequencing Cleanup Reagents?</h2>
&nbsp;
DNA sequencing cleanup reagents purify double-stranded DNA at every enzymatic step in genomic library preparation workflows - after end-repair/A-tailing, after adapter ligation (to remove adapter dimers), and after PCR amplification of indexed libraries - removing primers, dNTPs, adapter dimers, buffer salts, and enzymes that inhibit downstream sequencing steps. Adapter dimer removal is the most critical cleanup step: dimers formed during ligation efficiently cluster on Illumina flow cells and produce non-informative reads that reduce effective genome coverage and waste sequencing cost. The Zymo ZR DNA Sequencing Clean-up Kit (D4050) and ZR-96 DNA Sequencing Clean-up Kit (D4052) use Zymo-Spin silica-membrane column technology to remove dye terminators, unincorporated dNTPs, salts, enzymes, and short oligonucleotides from sequencing reactions in under 10 minutes, eluting purified DNA ready for capillary electrophoresis or downstream NGS steps. Perform cleanup after every adapter ligation step in Illumina library preparation - skipping this step and proceeding to amplification will amplify adapter dimers exponentially, and the resulting library cannot be rescued by cleanup after PCR.
&nbsp;
<h2 dir="ltr">What you will find: </h2>
<ul>
<li dir="ltr" aria-level="1">
ZR DNA Sequencing Clean-up Kit&trade;: A rapid-velocity spin-column system designed to isolate ultra-pure templates without the risk of ethanol carryover or inhibitory salt precipitation.
</li>
<li dir="ltr" aria-level="1">
ZR-96 DNA Sequencing Clean-up Kit: A high-throughput 96-well platform optimized for automated liquid handlers, delivering reproducibility-tested results across massive genomic cohorts.
</li>
</ul>
&nbsp;
<h2>How to Choose a DNA Sequencing Cleanup Reagent</h2>
&nbsp;
Individual Tube vs. 96-Well Plate Format
The Zymo ZR DNA Sequencing Clean-up Kit (D4050) processes individual reactions in a standard microcentrifuge - the right format for low-volume sequencing labs running 1-24 reactions per session. The ZR-96 DNA Sequencing Clean-up Kit (D4052) processes 96 samples simultaneously using a 96-well spin plate with a centrifuge, reducing per-sample hands-on time for high-throughput sequencing workflows. Choose the 96-well format when running 48 or more sequencing reactions per session.
Dye Terminator Removal
Both ZR kits are validated for removal of BigDye Terminator v3.1 and equivalent fluorescent dideoxy terminator chemistries - the most common source of dye blob artefacts in Sanger electropherograms. The silica-membrane column binds sequencing extension products while unincorporated terminators, dNTPs, salts, and short oligonucleotides pass through in the wash steps, producing clean sequencing product ready for capillary injection.
Elution Volume
For Sanger sequencing, elute in the minimum recommended volume (6-10 ul) to maximize sequencing signal per injection. For NGS post-ligation cleanup where DNA concentration must be quantified by Qubit HS before library pooling, elute in 20-25 ul to ensure sufficient volume for quantification and downstream steps. Avoid over-eluting in large volumes that dilute the cleaned product below Qubit HS detection limits.
Post-Cleanup QC
For Sanger cleanup: confirm a clean electropherogram from base 30 onward with no dye blob artefacts and read length exceeding 700-800 bases. For NGS library cleanup: confirm with Bioanalyzer or TapeStation that the correct peak insert size is present, no adapter dimer peak is visible at 120-130 bp, and library concentration is &gt;=1 ng/ul for Qubit HS detection. A visible adapter dimer peak after cleanup signals insufficient wash steps, an overloaded column, or excessively high adapter concentration during ligation.
Throughput Scaling
For programs processing more than 96 reactions per day, run multiple ZR-96 plates sequentially on the same centrifuge. The ZR spin-column formats are optimized for manual and semi-automated workflows.
&nbsp;
<h2>Specifications Context</h2>
&nbsp;
The Zymo ZR DNA Sequencing Clean-up Kit (D4050) and ZR-96 DNA Sequencing Clean-up Kit (D4052) use Zymo-Spin column technology to remove dye terminators, dNTPs, salts, enzymes, and unincorporated primers from sequencing reactions, delivering cleaned product ready for capillary electrophoresis or NGS loading. Both kits are validated for BigDye Terminator v3.1 and produce clean electropherograms with read lengths exceeding 800 bases when input cycle-sequencing reactions are prepared under standard conditions. Column-based sequencing cleanup is the standard method for individual and plate-scale Sanger sequencing verification, clone confirmation, and plasmid sequencing at academic molecular biology laboratories at institutions including Howard Hughes Medical Institute, Vanderbilt University, and MD Anderson Cancer Center.
&nbsp;
Purify your pathway to discovery&mdash;<a href="https://mbpinc.net/contact-us">reach out to our technical team</a> today to secure a quote for your DNA cleanup reagents.

D4050-Data Sheet

D4050-MSDS

D4050-Protocol

ZR DNA Sequencing Clean-up Kit™

D4050 by Zymo Research is a 50-prep dye terminator sequencing cleanup kit using Zymo-Spin IB Columns. Removes unincorporated BigDye terminators, dNTPs, primers, and salts from 5–20 µl sequencing reactions in ~2 minutes; elution in 6–20 µl water or formamide. Reusable columns (up to 10 cycles).

Equipment

Sample Source

Sample storage

Yield

Shipping Condition

Storage Condition

ZR DNA Sequencing Clean-up Kit™ (50 Preps.)

ZR DNA Sequencing Clean-up Kit™ (200 Preps.)

Sequencing Binding Buffer (14 ml)

Sequencing Binding Buffer (500 ml)

Sequencing Binding Buffer (55 ml)

Sequencing Wash Buffer (20 ml)

Sequencing Wash Buffer (500 ml)

Sequencing Wash Buffer (70 ml)

<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

DataSheet

ZR Fungal/Bacterial RNA MiniPrep (50 Preps.)

ZR Fungal/Bacterial RNA MiniPrep (R2014) by Zymo Research isolates up to 50 µg of total RNA (≥17 nt) from gram-positive bacteria, fungi, yeast, spores, and pollen in 10 minutes or less using a bead-beating lysis step followed by spin-column purification. Purity exceeds A260/A280 of 1.8, and purified RNA is ready for RT-qPCR, RNA-seq, and microarray applications. 50-prep format.

Applicable For

Processing Time

Processing Volume

Purity

Size Range

Type

<h2>What are plasmid miniprep kits?</h2>
&nbsp;
A plasmid miniprep kit uses SDS/alkaline lysis to break open pelleted E. coli cells from a small culture volume (1-10 ml), followed by binding to a silica-membrane spin column, washing, and elution, separating plasmid DNA from genomic DNA, RNA, and protein in roughly 10-15 minutes per prep. Related entities include Buffer P1/P2/P3-style alkaline lysis reagents, color-coded lysis dyes for visual confirmation of complete lysis and neutralization, RNase A for RNA removal, and downstream applications including transformation, restriction digestion, PCR, and sequencing. Choose a miniprep kit for routine, low-volume plasmid prep (cloning screens, sequencing checks, restriction digests) where yields up to roughly 20-100 ug per column are sufficient.
&nbsp;
<h2 dir="ltr">What you will find:</h2>
&nbsp;
<ul>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">Pellet-free and classic plasmid miniprep kits for high-yield bacterial isolation using rapid spin-column workflows</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">High-throughput 96-well plasmid plates optimized for vacuum manifold processing and parallel automated screening&nbsp;</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">Specialized yeast plasmid miniprep systems for fragile fungal hosts using cell-wall digesting chemistries</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">BAC/PAC and large construct isolation units for safer purification of high-molecular-weight vectors</li>
<li dir="ltr" style="font-family: arial, helvetica, sans-serif;" role="presentation">Endotoxin-free plasmid extraction reagents for sensitive mammalian cell lines, ensuring transfection-grade DNA purity&nbsp;</li>
</ul>
&nbsp;
<h2>How to choose a plasmid miniprep kit</h2>
&nbsp;
Standard vs. high-yield chemistry
Standard silica spin-column minipreps typically recover up to about 20 ug per column, while high-yield formulations using modified alkaline lysis and novel binding chemistry can reach up to 100 ug at concentrations up to 3 ug/ul from the same small culture volume. If your downstream application (e.g., sequencing multiple samples from one prep, or transfection requiring more DNA per prep) benefits from a higher concentration, a high-yield kit reduces the need to scale up to midiprep.
Plasmid copy number and culture volume planning
High-copy plasmids (pUC-based vectors) can saturate a miniprep column from as little as 3 ml of culture, yielding around 20 ug, while low-copy plasmids (pBR322, pET, cosmids) may yield under 2 ug from the same volume and benefit from doubling culture volume to 5-10 ml. Identify your vector's origin of replication before choosing a standard culture volume, since low-copy vectors at standard volumes can produce yields too low for some downstream steps.
Color-coded lysis buffers for visual QC
Some miniprep kits include color-coded lysis and neutralization buffers that allow visual confirmation of complete cell lysis (color change) and proper neutralization before loading the column, helping catch incomplete-lysis failures before they waste a column. This visual QC step is particularly useful for new users or when troubleshooting inconsistent yields across a batch of preps.
Endotoxin-free and large-construct options
For transfection-sensitive downstream applications, endotoxin-free miniprep kits add a dedicated wash step without significantly extending the protocol time; for large plasmids, cosmids, or BAC/YAC/PAC constructs, some miniprep kits are validated up to approximately 200 kb, while standard kits are optimized for constructs up to roughly 25 kb. Confirm both endotoxin status and size compatibility match your specific construct and downstream use before relying on a standard miniprep.
&nbsp;
<h2>Specifications context</h2>
&nbsp;
The key specs for plasmid miniprep selection are expected yield relative to your plasmid's copy number and culture volume, whether color-coded buffers aid visual QC, and whether endotoxin-free or large-construct compatibility is needed for your downstream application. A standard miniprep yielding up to roughly 20-25 ug in 10-15 minutes from 1-10 ml of culture covers most routine cloning workflows, while high-yield kits up to 100 ug reduce the need to scale up for moderately DNA-hungry applications. Labs running both daily cloning screens and occasional larger-scale prep work typically keep <a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/plasmid-dna-extraction-kits/miniprep-kits">miniprep kits</a>&nbsp;on hand alongside&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/plasmid-dna-extraction-kits/midiprep-kits">midiprep kits</a>&nbsp;for when miniprep yields aren't sufficient. The parent&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/plasmid-dna-extraction-kits">plasmid DNA extraction kits category</a>&nbsp;and&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/plasmid-dna-extraction-kits/maxiprep-kits">maxiprep kits</a>&nbsp;cover larger-scale options, while the broader&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits">nucleic acid extraction kits hub</a>&nbsp;and&nbsp;<a href="https://mbpinc.net/reagents/molecular-biology/nucleic-acid-extraction-kits/dna-extraction-kits/genomic-dna">genomic DNA extraction kits category</a> link to chromosomal DNA workflows.&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>

Miniprep Kits

Product Literature

ZR Plasmid Miniprep - Classic

ZR Plasmid Miniprep Classic D4015 by Zymo Research isolates up to 25 µg of plasmid DNA from up to 5 mL of overnight E. coli culture using a traditional three-buffer alkaline lysis protocol in approximately 15 minutes, with A260/280 ≥1.8 purity and ≤50 EU/µg endotoxin. 100 preps per kit.

Endotoxin Levels

ZR Plasmid Miniprep - Classic (100 Preps.)

ZR Plasmid Miniprep - Classic (400 Preps.)

ZR Plasmid Miniprep-Classic (800 Preps.)

<h2>What Are Zymo Research Buffers?</h2>
Zymo Research buffers are formulation-specific reagents used at defined steps &mdash; lysis, binding, wash, and elution &mdash; in Zymo-Spin column-based purification protocols for DNA, RNA, and bisulfite-converted DNA. Each buffer is optimized for a specific kit family: DNA Wash Buffer concentrate (requires ethanol addition before use) removes salts and contaminants before elution from Zymo-Spin silica columns; DNA Elution Buffer (10 mM Tris, pH 8.5, 0.1 mM EDTA) releases purified DNA from the matrix; RNA Wash Buffer supports RNA extraction kits including Quick-RNA and Direct-zol lines; M-Elution Buffer is designed for eluting bisulfite-converted DNA in EZ DNA Methylation kits. Researchers typically order these separately when a single buffer component runs out before the rest of the kit, or when scaling up a protocol beyond the volume included.
TL;DR: Order Zymo buffers individually to replenish a specific step in your existing Zymo workflow without replacing the full kit.
<h2>How to Choose Zymo Research Buffers</h2>
<h3>Match the buffer to your kit family</h3>
Every Zymo buffer is paired to a specific kit line. DNA Wash Buffer and DNA/RNA Wash Buffer concentrate are used in DNA Clean &amp; Concentrator, Quick-DNA, and Zymoclean Gel DNA Recovery kits. RNA Wash Buffer pairs with Quick-RNA kits. ZymoBIOMICS DNA Wash Buffer 1 and Wash Buffer 2 are specific to the ZymoBIOMICS microbiomics line. Substituting a buffer from a different kit family can compromise yield or purity.
<h3>Confirm ethanol addition requirements before use</h3>
Several Zymo wash buffer concentrates require addition of 96-100% ethanol to the bottle before first use &mdash; the label states the exact volume. DNA Wash Buffer concentrate, DNA/RNA Wash Buffer concentrate, and Urine DNA Wash Buffer concentrate all require this step. Pre-made (non-concentrate) versions such as RNA Wash Buffer are supplied ready to use.
<h3>Select the right volume for your throughput</h3>
Zymo buffers are available in sizes from 6 ml (single-experiment replenishment) up to 500 ml (Buffer P1 Red, for high-volume plasmid prep labs). For labs processing more than 50 samples per week, ordering the largest available size reduces per-sample cost and the frequency of reordering.
<h3>Choose elution buffer chemistry based on downstream application</h3>
DNA Elution Buffer (10 mM Tris pH 8.5, 0.1 mM EDTA) is the standard for most PCR and sequencing applications. For applications sensitive to EDTA &mdash; such as some restriction enzyme digests or direct use with divalent cation-dependent enzymes &mdash; eluting in molecular-grade water or a Tris-only buffer is preferable. M-Elution Buffer is specifically formulated for bisulfite-converted DNA and should not be substituted with standard elution buffer in methylation workflows.
<h3>Verify research-use-only status</h3>
All Zymo Research buffers sold through MBP are for research use only (RUO). They are not cleared for in vitro diagnostic use. For clinical or diagnostic laboratory applications, confirm regulatory status with your institutional compliance officer before use.
<h2>Compare Zymo Buffer Types</h2>
<table>
<thead>
<tr>
<th>Buffer Type</th>
<th>Primary Application</th>
<th>Kit Family</th>
<th>Format Available</th>
</tr>
</thead>
<tbody>
<tr>
<td>DNA Wash Buffer (concentrate)</td>
<td>Salt removal before DNA elution</td>
<td>DNA Clean &amp; Concentrator, Quick-DNA</td>
<td>6 ml &ndash; 200 ml</td>
</tr>
<tr>
<td>DNA/RNA Wash Buffer (concentrate)</td>
<td>Salt removal for dual DNA/RNA preps</td>
<td>Quick-DNA/RNA kits</td>
<td>6 ml &ndash; 200 ml</td>
</tr>
<tr>
<td>DNA Elution Buffer (10 mM Tris pH 8.5, 0.1 mM EDTA)</td>
<td>DNA release from silica column</td>
<td>All Zymo DNA purification</td>
<td>16 ml &ndash; available sizes vary</td>
</tr>
<tr>
<td>RNA Wash Buffer</td>
<td>RNA purification wash step</td>
<td>Quick-RNA kits</td>
<td>Ready-to-use</td>
</tr>
<tr>
<td>M-Elution Buffer</td>
<td>Elution of bisulfite-converted DNA</td>
<td>EZ DNA Methylation kit families</td>
<td>Small volume</td>
</tr>
<tr>
<td>ZymoBIOMICS DNA Wash Buffer 2</td>
<td>Metagenomic/microbiomic DNA cleanup</td>
<td>ZymoBIOMICS DNA kits</td>
<td>Sold separately</td>
</tr>
<tr>
<td>Buffer P1 Red</td>
<td>Alkaline lysis resuspension (plasmid prep)</td>
<td>Zyppy Plasmid Miniprep</td>
<td>10 ml &ndash; 500 ml</td>
</tr>
</tbody>
</table>
<h2>Specifications Context</h2>
Zymo wash buffer concentrates are supplied at a defined fold-concentration (commonly 4x or 6x) and require ethanol addition to reach working strength &mdash; the exact ratio is printed on the bottle and in the kit protocol. Elution buffer volumes for Zymo-Spin columns typically range from 6 to 100 &micro;l per elution; larger elution volumes improve total yield at the cost of DNA concentration. For DNA elution from Zymo-Spin columns, the protocol recommends a minimum 1-minute contact time between elution buffer and the silica matrix to maximize recovery of fragments 10 kb and above. As of 2025, Zymo Research tests all buffer lots for performance consistency, with integrity guaranteed for up to one year from purchase date.
Browse the full <a href="https://www.notion.so/reagents">Zymo Research reagents collection at MBP</a> for kits and columns that use these buffers, or visit our <a href="https://www.notion.so/reagents/buffers">reagent buffers category</a> for non-Zymo buffer options including ABM and other brands. For volume orders or purchase orders, use the <a href="https://www.notion.so/quickorder">Quick Order</a> tool or <a href="https://www.notion.so/contact-us">contact us</a> directly &mdash; MBP is a registered vendor for institutional procurement systems.
Last updated: June 2025
&nbsp;

Zymo Buffers

ZR RNA Buffer

ZR RNA Buffer — R1020-1-100 by Zymo Research — is a 100 mL one-step lysis and RNA binding buffer for use with the Quick-RNA Midiprep Kit, combining cell lysis and column binding into a single step to streamline RNA purification. Available from MBP in 50 mL, 100 mL, and 200 mL sizes. Order via <a href="https://www.mbpinc.net/quickorder">Quick Order</a> or contact <a href="mailto:customerservice@mbpinc.net">customerservice@mbpinc.net</a> for volume pricing.

ZR RNA Buffer (100 ml)

ZR RNA Buffer (200 ml)

ZR RNA Buffer (50 ml)

<h2>What are Spin-Column Environmental RNA Extraction Kits?</h2>
&nbsp;
Spin-column environmental RNA extraction kits purify total RNA from soil, fecal material, water concentrates, biofilm, and plant tissue using bead-beating mechanical disruption in a chaotropic lysis buffer, followed by silica-membrane column purification incorporating inhibitor-removal wash steps to eliminate humic acids, polyphenols, and other PCR inhibitors co-extracted from environmental matrices. Kits process 0.1-0.5 g of sample per extraction and elute RNA in 30-100 ul of RNase-free water in approximately 2 hours, producing RNA suitable for RT-qPCR, microarray, and RNA-seq metatranscriptomic workflows. Choose the spin-column format for environmental RNA when processing 1-24 samples per day, when the sample type is soil, feces, or biofilm, or when standard bacterial/fungal RNA kits produce inhibited RT-qPCR results from environmental matrices.
&nbsp;
<h2 dir="ltr">What you will find:</h2>
&nbsp;
<ul>
<li data-section-id="1b52a6l" data-start="0" data-end="128">ZR Soil/Fecal RNA MicroPrep Kit for efficient recovery of inhibitor-free cellular RNA from challenging soil and fecal samples.</li>
<li data-section-id="120xy2g" data-start="129" data-end="275">Zymo Environ Water RNA Kit for purification of microbial RNA from turbid water samples used in environmental monitoring and microbiome research.</li>
<li data-section-id="tojsbj" data-start="276" data-end="400">ZR Urine RNA Isolation Kit&trade; for rapid extraction of high-quality total RNA from urine using silica spin-column technology.</li>
<li data-section-id="2q9aey" data-start="401" data-end="525">RNA purification solutions tailored to environmental and liquid biopsy sample types with distinct processing requirements.</li>
<li data-section-id="7kn372" data-start="526" data-end="647">Specialized extraction workflows designed to remove contaminants that can interfere with downstream molecular analyses.</li>
<li data-section-id="1gyfm8m" data-start="648" data-end="753" data-is-last-node="">High-quality RNA isolation products suitable for RT-PCR, qPCR, sequencing, and gene expression studies.</li>
</ul>
&nbsp;
<h2>How to Choose a Spin-Column Environmental RNA Kit</h2>
&nbsp;
Inhibitor Load of Your Sample Type
High-humic soils (peat, forest soils, dark topsoil) require kits with dedicated IRT or inhibitor-precipitating wash steps, such as the QIAGEN RNeasy PowerSoil Total RNA Kit. For fecal and biofilm samples with lower humic content, the faster Zymo Quick-RNA Fecal/Soil Microbe Microprep Kit is sufficient. An A260/A230 ratio &lt; 1.5 in the eluate is a direct signal that the kit's inhibitor removal is insufficient for your matrix.
Protocol Time and Throughput
The Zymo Fecal/Soil Microprep Kit extracts in approximately 2 hours using mini-spin columns. The QIAGEN PowerSoil Total RNA Kit takes 5-7 hours but delivers higher RIN values for long-read sequencing applications. For batches of more than 12 samples per day, PowerBead Pro or Zymo's mini-column format with a vortex adapter is faster per sample than protocols requiring individual mechanical homogenization steps.
Downstream Application: Short-read vs. Long-read Sequencing
For short-read RNA-seq (Illumina), RIN &gt;= 5 is generally sufficient because library preparation using random hexamer priming tolerates fragmented RNA. For Oxford Nanopore direct RNA sequencing, which reads intact RNA molecules, RIN &gt;= 7 is required; only the QIAGEN PowerSoil kit consistently achieves this benchmark across diverse soil types in published comparisons.
Bead Type and Cell Disruption
Soil and fecal kits use ceramic or glass beads at 0.1-0.5 mm diameter. Confirm the kit includes both 0.1 mm and 0.5 mm beads to ensure unbiased lysis of Gram-negative bacteria (disrupted efficiently by 0.1 mm beads) and Gram-positive bacteria and fungi (requiring 0.5 mm beads) in the same sample. Single-bead-size kits can produce a bias toward Gram-negative recovery in mixed environmental communities.
Compatibility with rRNA Depletion
Residual inhibitors from soil RNA extract can impair enzymatic rRNA depletion reactions. If initial rRNA depletion efficiency is low (&lt;90%), re-clean the extract with a Zymo RNA Clean &amp; Concentrator-5 kit before repeating the depletion reaction. Check kit-specific guidance from your rRNA depletion kit supplier.
&nbsp;
<h2>Specifications Context</h2>
&nbsp;
Key benchmarks for spin-column environmental RNA: A260/A280 &gt;= 1.8, A260/A230 &gt;= 1.5 (target &gt;= 1.8 for long-read sequencing), and concentration &gt;= 10 ng/ul in the eluate for RT-qPCR assays. A 2024 peer-reviewed comparison in&nbsp;Microbiology Society Journals specifically evaluated five commercial soil RNA extraction kits for Oxford Nanopore metatranscriptomics and identified the QIAGEN PowerSoil kit as the highest performer across RNA yield, integrity, and purity metrics. Soil metatranscriptomics is increasingly used in climate change research - linking active microbial community function to carbon and nitrogen cycling - and environmental RNA extraction quality is cited in published methods as the rate-limiting step for generating sequencing-ready RNA from soil.
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<a href="https://mbpinc.net/contact-us">Contact the expert team </a>at MBP Inc. today and get high-yield spin-column systems for your lab.

Spin-Column

MSDS - R2040-1

ZR Soil/Fecal RNA MicroPrep (50 Preps.)

R2040 by Zymo Research is the ZR Soil/Fecal RNA MicroPrep Kit, a 50-prep RNA extraction system for up to 250 mg of soil, sludge, sediment, or fecal material. The kit recovers total RNA &ge;17 nucleotides — including small RNAs and miRNAs — at up to 10 &micro;g per column, with a standard 15 &micro;l elution volume (minimum 6 &micro;l for concentrated samples) and A260/A280 &gt;1.8 purity. All components are stored at room temperature.
The kit includes ZR BashingBead Lysis Tubes (0.1 &amp; 0.5 mm bead mix) and an HRC filtration step that removes PCR inhibitors including humic acids, polyphenols, and tannins from complex environmental matrices. Suitable for next-generation sequencing, RT-PCR, qPCR, and microarray.
MBP is a registered vendor for Howard Hughes Medical Institute, Vanderbilt University, MD Anderson Cancer Center, Eurofins, and many other institutes across the USA. Order via <a href="https://www.mbpinc.net/quickorder">Quick Order</a> or contact <a href="mailto:customerservice@mbpinc.net">customerservice@mbpinc.net</a>.

S/F RNA Lysis Buffer (50 ml)

MSDS - R1038/R1039

MSDS - R1038-1

MSDS - R1038-2

ZR Urine RNA Isolation Kit™

R1038 by Zymo Research is the ZR Urine RNA Isolation Kit™ (20 preps) for total RNA isolation — including small RNAs ≥17 nt — from urine and aqueous samples containing cells, sediment, and microvesicles. Zymo-Spin IC columns; elution ≥6 µl; purity A260/A280 &gt;1.8. Suitable for urinary biomarker and urological disease RNA research.

ZR Urine RNA Isolation Kit™ (20 Preps.)

ZR Urine RNA Isolation Kit™ (50 Preps.)

RNA Extraction Buffer Plus (20 ml)

RNA Extraction Buffer Plus (50 ml)

Urine RNA Buffer (20 ml)

Urine RNA Buffer (50 ml)

ZR small-RNA Ladder (10 µg)

R1090 by Zymo Research is a small RNA size marker consisting of four single-stranded RNA oligonucleotides at 17, 21, 25, and 29 nucleotides, supplied as 10 µg in water for denaturing PAGE. It spans the miRNA, siRNA, and piRNA size range, enabling accurate band-size assignment during small RNA gel analysis and sequencing library quality control. Compatible with GelStar® and other single-stranded nucleic acid stains.

<h2>What are Gel Extraction Kits?</h2>
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Gel extraction kits (gel purification or gel DNA recovery kits) isolate specific DNA fragments from standard and low-melting agarose gels after electrophoresis by dissolving the excised gel band in a chaotropic buffer that melts agarose and conditions DNA to bind a Zymo-Spin followed by washing to remove agarose, gel stains (EtBr, SYBR Safe, GelRed), salts, and proteins, and elution in 30-50 ul. Gel extraction is the primary method for isolating specific DNA fragments from multi-band reactions - PCR amplifications producing non-specific products, restriction digests generating multiple fragments, and vector preparations requiring removal of small insert-incompatible fragments. Use gel extraction instead of direct PCR cleanup whenever the reaction produces more than one visible band and only a specific size is needed downstream; for single-band reactions, PCR cleanup recovers 10-20% more DNA in the same protocol time.
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<h2 dir="ltr">What you will find:</h2>
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Zymoclean&trade; Gel DNA &amp; RNA Recovery: Innovative spin-column systems created for quick extraction of nucleic acids without any salt or agarose contamination.
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ZR small-RNA&trade; PAGE Recovery: A dedicated method for the accurate isolation of microRNA and small RNA types from polyacrylamide gels, preserving isoform uniqueness.
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Large Fragment DNA Recovery: Designed methods for the careful elution of high-molecular-weight DNA, avoiding mechanical shearing for extended-read sequencing.
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High-Throughput &amp; Universal Kits: Adaptable ZR-96 formats and flexible Column-Pure systems designed for standard laboratory cleanup and automated processes.
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<h2>How to Choose a Gel Extraction Kit</h2>
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Fragment Size Range
Standard silica-column gel extraction kits ( Zymo Zymoclean, Thermo Fisher GeneJET) purify 70 bp to 10 kb with &gt;80% recovery for 200 bp-5 kb.&nbsp; For fragments larger than 10 kb requiring size-selective gel purification, use electroelution, agarase digestion of low-melting agarose, or pulse-field gel extraction followed by alcohol precipitation.
Agarose Percentage and Dissolution Protocol
For standard 0.8-2% agarose gels: use 3 volumes of dissolution buffer per 1 volume (weight:volume) of gel slice at 50-60 degrees C for 5-10 minutes. For high-percentage gels (&gt;2%): use 6 volumes of dissolution buffer and extend incubation to 10-15 minutes, or add isopropanol to help dissolve the denser agarose matrix. Incomplete dissolution is the most common cause of low yield and must be verified visually - no visible agarose particles should remain in the dissolved solution before loading the column.
Elution Volume
For cloning applications where insert concentration matters, use the minimum elution volume (30-35 ul) to maximize insert concentration for ligation. For sequencing of gel-purified products, elute in 30-50 ul and measure concentration by Qubit or NanoDrop before use.&nbsp;
UV Exposure Minimization
UV transilluminator exposure damages DNA via pyrimidine dimer formation, reducing downstream PCR amplification and sequencing efficiency. Limit UV exposure to &lt;30 seconds when excising bands; use a long-wavelength (365 nm) UV source instead of short-wavelength (254 nm) to minimize damage. Alternatively, use a blue-light transilluminator (Safe-Imager, Clare Chemical DarkReader) with SYBR Safe or GelRed stain, which causes no photodamage to DNA during band excision.
Column vs. Magnetic Bead Gel Extraction
Standard gel extraction uses spin columns. For 96-well high-throughput gel extraction applications, vacuum-manifold compatible 96-well plate formats (Norgen DNA Gel Extraction Kit 96-well) process multiple samples simultaneously. AMPure XP magnetic beads can perform gel-alternative size selection from solution without the gel step, which avoids UV damage entirely and is preferred in NGS library preparation workflows where fragment size distribution rather than specific band isolation is the goal.
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<h2>Specifications Context</h2>
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Key benchmarks for gel extraction kits: &gt;=70% recovery for 200 bp-5 kb fragments from 1% TAE agarose gels, A260/A280 &gt;= 1.7 in eluate, no detectable agarose (confirmed by no viscosity increase in eluate), and complete removal of gel stain and EtBr (confirmed by absence of stain fluorescence in eluate). The Zymo Zymoclean Gel DNA Recovery Kit purifies DNA from TAE or TBE gels using Zymo-Spin technology, eluting in as little as 6 ul for highly concentrated DNA in minutes. Gel extraction remains an essential cloning technique at academic molecular biology labs, with blue-light transilluminator-based band excision increasingly replacing UV-based methods to protect DNA integrity during size selection.
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Unleash the genetic capabilities of your samples&mdash;<a href="https://mbpinc.net/contact-us">reach out to MBP Inc.</a> now to obtain a quote for our gel recovery services.

Gel Extraction Kits

ZR small-RNA™ PAGE Recovery Kit (20 Preps.)

ZR small-RNA PAGE Recovery Kit (R1070) by Zymo Research — recovers RNA 17–200 nt from PAGE gel slices with ≥50% efficiency for 17–28 nt fragments. Up to 10 µg in ≥6 µl elution. 20 Preps.

Columns, Plastics & Accessories

ZR-96 BashingBead Lysis Rack

ZR-96 BashingBead Lysis Rack by Zymo Research — 96-well mechanical lysis platform for high-throughput homogenization of tough samples. Available as S6002-96-2 (2 mm beads, 1 Rack) and S6002-96-3 (0.5 mm &amp; 0.1 mm beads, 1 Rack).

Closure Type

Color

Fill

For Use With (Application)

Additional Processing Equipment

ZR-96 BashingBead Lysis Rack (2 mm) (1 Rack)

ZR-96 BashingBead Lysis Rack (0.5 mm & 0.1 mm) (1 Rack)

ZR-96 BashingBead Lysis Rack (Barcoded)

S6002-96-4 by Zymo Research is the ZR-96 BashingBead Lysis Rack with laser-etched 2D barcodes, a 96-well format lysis rack with 1.1 mL polycarbonate impact-resistant tubes pre-loaded with ultra-high-density silica beads. The rack has an ANSI/SLAS-standard footprint (128.0 &times; 85.0 &times; 57.0 mm) for compatibility with automated liquid-handling platforms and plate-format bead beaters. Triple screw-thread caps with septum closure prevent cross-contamination between wells.
Designed for high-throughput bead-beating lysis of bacteria, fungi, yeast, soil, feces, and other challenging matrices in ZymoBIOMICS 96 DNA/RNA extraction workflows.
MBP is a registered vendor for Howard Hughes Medical Institute, Vanderbilt University, MD Anderson Cancer Center, Eurofins, and many other institutes across the USA. Order via <a href="https://www.mbpinc.net/quickorder">Quick Order</a> or contact <a href="mailto:customerservice@mbpinc.net">customerservice@mbpinc.net</a>.