Zymo Reagents

Devices & Instruments

Protocol

EZ-Vac96 Vacuum Manifold

<p>EZ-Vac96™ Vacuum Manifold S7003 by Zymo Research — processes up to 96 samples simultaneously using vacuum-driven column flow, eliminating centrifugation. Compatible with ZymoPURE™ 96 Plasmid Miniprep Kit (D4214, D4215); requires vacuum pump capable of up to 300 mmHg and 6.5 mm ID tubing. Chemical-resistant construction with external catch flask. Order via <a href="https://www.mbpinc.net/quickorder">Quick Order</a> or contact <a href="mailto:customerservice@mbpinc.net">customerservice@mbpinc.net</a>.</p>

Capability

Compatibility

Required Equipment

Manufacturer

Shipping Condition

Storage Condition

Columns, Plastics & Accessories

Elbow Hose Connector (1 Pack)

<p>Elbow Hose Connector S7004 by Zymo Research is a polypropylene 90-degree connector (3/8&quot; hose barb × 3/8&quot; male pipe thread) for connecting vacuum tubing to the EZ-Vac™ Vacuum Manifold (S7000). Supplied as a single connector.</p>

Color

Dimensions

Material

Plates

Elution Plate (2 Plates)

<p>C2003 — Elution Plate (2 Plates): 96-well V-bottom collection plates with 90 µl per well capacity, for use with Zymo Research spin plate purification systems to collect purified DNA or RNA eluates during high-throughput nucleic acid purification workflows.</p>

<h2>What Are Zymo Research Buffers?</h2>
<p>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.</p>
<p><strong>TL;DR:</strong> Order Zymo buffers individually to replenish a specific step in your existing Zymo workflow without replacing the full kit.</p>
<h2>How to Choose Zymo Research Buffers</h2>
<h3>Match the buffer to your kit family</h3>
<p>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.</p>
<h3>Confirm ethanol addition requirements before use</h3>
<p>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.</p>
<h3>Select the right volume for your throughput</h3>
<p>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.</p>
<h3>Choose elution buffer chemistry based on downstream application</h3>
<p>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.</p>
<h3>Verify research-use-only status</h3>
<p>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.</p>
<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>
<p>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.</p>
<p>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.</p>
<p><em>Last updated: June 2025</em></p>
<p>&nbsp;</p>

Zymo Buffers

MSDS

Endo-Wash Buffer

<p>D4036-3 by Zymo Research — Endo-Wash Buffer for endotoxin removal during plasmid DNA purification with the Zyppy Plasmid Miniprep and ZR Plasmid Miniprep - Classic kits. Room temperature storage. Available in 6 ml, 15 ml, 30 ml, 60 ml, 120 ml, 160 ml, and 240 ml formats. Yields ultra-pure, endotoxin-reduced plasmid DNA.</p>

Endo-Wash Buffer (120 ml)

Endo-Wash Buffer (15 ml)

Endo-Wash Buffer (160 ml)

Endo-Wash Buffer (240 ml)

Endo-Wash Buffer (30 ml)

Endo-Wash Buffer (6 ml)

Endo-Wash Buffer (60 ml)

Spin Columns

EndoZero II Spin Columns (25 Pack)

<p>C1060-25 by Zymo Research is a 25-pack of EndoZero™ II Spin Columns for polishing plasmid DNA purified with ZymoPURE II Midiprep, Maxiprep, or Gigaprep kits to ≤0.025 EU/µg endotoxin — 40× lower than standard transfection-grade. Accepts up to 400 µg plasmid input; 2-minute incubation + centrifugation.</p>

EndoZero Spin Columns

<p>C1051-10 by Zymo Research is a 10-pack of EndoZero Spin Columns engineered for use with the ZymoPURE II Maxi and ZymoPURE II Gigaprep Plasmid Purification Kits to produce endotoxin-free plasmid DNA from <em>E. coli</em>. The resin selectively removes LPS without co-purifying plasmid DNA, enabling the fastest available endotoxin-free Maxi/Gigaprep workflow. Available from MBP, a registered vendor for Howard Hughes Medical Institute, Vanderbilt University, MD Anderson Cancer Center, and many other institutes across the USA.</p>

EndoZero Spin Columns (10 Pack)

EndoZero Spin Columns (5 Pack)

<h2 data-section-id="b4wzzk" data-start="0" data-end="47">What is bacterial culture media for cloning?</h2>
<p>&nbsp;</p>
<p data-start="49" data-end="917">Bacterial culture media for cloning workflows includes LB (Luria-Bertani) broth and agar, the standard general-purpose media for <em data-start="178" data-end="187">E. coli</em> growth, SOC media used for post-transformation recovery, and Terrific Broth for higher-density culture in plasmid preparation. Pre-made agar plates with antibiotic selection (ampicillin, kanamycin, chloramphenicol, and others matching common selection markers) are used to isolate colonies carrying the desired plasmid. Related entities include antibiotic selection markers matching transformation kit resistance genes, post-transformation recovery time, and plasmid yield scaling with culture volume and media richness.</p>
<p dir="ltr">&nbsp;</p>
<h2 dir="ltr"><span style="font-family: helvetica, arial, sans-serif;">What you will find:</span></h2>
<p dir="ltr">&nbsp;</p>
<ul>
<li dir="ltr" role="presentation"><span style="font-family: arial, helvetica, sans-serif;">ZymoBroth Growth Media for efficient transformation workflows to generate highly competent bacterial cells</span></li>
<li dir="ltr" role="presentation"><span style="font-family: arial, helvetica, sans-serif;">Overexpression Broth (OB) optimized for increasing recombinant protein yields with high-density nutrient media.</span></li>
<li dir="ltr" role="presentation"><span style="font-family: arial, helvetica, sans-serif;">Expansion Broth (EB) for the faster and more reliable expansion of microbial cultures.</span></li>
<li dir="ltr" role="presentation"><span style="font-family: arial, helvetica, sans-serif;">Dual Media Sets for integrated growth and induction workflows with the help of combined EB and OB systems</span></li>
</ul>
<p><span style="font-family: arial, helvetica, sans-serif;"><strong>&nbsp;</strong></span></p>
<h2 data-section-id="9xi4x5" data-start="919" data-end="971">How to choose bacterial culture media for cloning</h2>
<p>&nbsp;</p>
<p data-section-id="1x5ij65" data-start="973" data-end="1009"><strong>LB broth/agar vs. Terrific Broth</strong></p>
<p data-start="1010" data-end="1315">LB broth and agar are the standard general-purpose media for routine cloning, colony selection, and small-scale plasmid preparation, while Terrific Broth provides higher nutrient density supporting higher bacterial cell density, making it useful when maximizing plasmid yield in larger-scale preparations.</p>
<p data-section-id="1egw329" data-start="1317" data-end="1363"><strong>SOC media for post-transformation recovery</strong></p>
<p data-start="1364" data-end="1725">SOC media is richer than standard LB and supplemented with glucose and magnesium. It is commonly used for a brief recovery incubation immediately after heat-shock or electroporation transformation, helping transformed cells recover before plating on selective agar. Some transformation protocols specifically recommend SOC rather than LB for this recovery step.</p>
<p data-section-id="ftj5tp" data-start="1727" data-end="1760"><strong>Antibiotic selection matching</strong></p>
<p data-start="1761" data-end="2097">Pre-made antibiotic-selective agar plates must match the resistance marker carried by the transformed plasmid, whether ampicillin, kanamycin, chloramphenicol, or another selection marker. Using the wrong antibiotic&mdash;or no antibiotic at all&mdash;will not properly select for plasmid-containing colonies and may allow unwanted bacterial growth.</p>
<p data-section-id="4mf3td" data-start="2099" data-end="2147"><strong>Liquid vs. agar plate formats and shelf life</strong></p>
<p data-start="2148" data-end="2487">Liquid media (broth) is used for post-transformation recovery and culture scale-up, while agar plates are used for colony isolation and selection. Pre-made antibiotic plates have a defined shelf life because antibiotics gradually lose activity over time, making expiration dates particularly important for antibiotics with lower stability.</p>
<p data-start="2148" data-end="2487">&nbsp;</p>
<h2 data-section-id="1fljvas" data-start="3523" data-end="3548">Specifications context</h2>
<p>&nbsp;</p>
<p data-start="3550" data-end="4302">LB broth and agar are formulated with defined concentrations of tryptone, yeast extract, and sodium chloride, with agar plates commonly supplied in standard Petri dish sizes (for example, 100 mm) and containing antibiotic concentrations matched to common resistance markers, such as 100 &micro;g/mL ampicillin or 50 &micro;g/mL kanamycin. SOC recovery is typically performed as a short incubation, often around one hour at 37&deg;C with shaking, before plating cells on selective agar.&nbsp;</p>
<p data-start="4304" data-end="5052">This sub-category is part of MBP's cloning catalog alongside transformation kits and competent cells, the immediately preceding step, and chemicals/reagents for enzyme-based fragment preparation. Labs scaling up plasmid production for lentivirus packaging in immortalization workflows can also review MBP's cell immortalization catalog. MBP's specialist team can help confirm antibiotic concentration and media format requirements for a specific selection marker before order placement.</p>
<p dir="ltr"><span style="font-family: arial, helvetica, sans-serif;"><a href="https://mbpinc.net/contact-us"><span style="text-decoration: underline; color: #236fa1;"><strong>Contact the expert team</strong></span></a> at MBP today to request a quote for high-quality culture media.</span></p>

Culture Media

M3012-100 - MSDS

Expansion Broth™ (EB™)

<p>Expansion Broth (EB) by Zymo Research: bacterial growth medium that represses recombinant protein expression during the cell expansion phase. Use with Overexpression Broth (OB) for consistent, high-yield recombinant protein production. Room temperature storage. 100 ml and 500 ml sizes available.</p>

Product Storage

Expansion Broth™ (EB™) (100 ml)

Expansion Broth™ (EB™) (500 ml)

<h2>What are PCR and molecular assays for microbiomics?</h2>
<p>&nbsp;</p>
<p>PCR and molecular assays in this category use quantitative PCR (qPCR) or digital PCR to measure the copy number of a defined DNA target, most often the 16S rRNA gene, to determine total bacterial load in a sample, or a specific pathogen or functional gene target for detection purposes. Unlike 16S or shotgun sequencing, which characterize the full taxonomic or functional composition of a community, these molecular assays provide a faster, more targeted quantitative or presence/absence readout for a specific question.</p>
<p dir="ltr">&nbsp;</p>
<h2 dir="ltr"><strong>What you will discover:</strong></h2>
<p dir="ltr">&nbsp;</p>
<ul>
<li dir="ltr" aria-level="1">
<p dir="ltr" role="presentation">Femto&trade; Quantification Kits: Highly sensitive systems engineered for the detection of human, bacterial, or fungal DNA at the femtogram level with negligible sequence bias.</p>
</li>
<li dir="ltr" aria-level="1">
<p dir="ltr" role="presentation">High-Fidelity qPCR Premixes: Tailored master mixes designed for effective amplification and enhanced nuclear signal localization in low-biomass samples.</p>
</li>
<li dir="ltr" aria-level="1">
<p dir="ltr" role="presentation">Certified DNA Standards: Reference materials tested for reproducibility and No Template Controls (NTC) designed to calibrate the linear dynamic range and avert background contamination.</p>
</li>
<li dir="ltr" aria-level="1">
<p dir="ltr" role="presentation">ZymoTaq&trade; Specialized Polymerases: Enzymes that are heat-activated and free of nucleases, crafted to minimize non-specific amplification and guarantee high specificity in workflows associated with CRISPR.</p>
</li>
</ul>
<p dir="ltr">&nbsp;</p>
<h2>How to choose PCR and molecular assays</h2>
<p>&nbsp;</p>
<p><strong>Use total bacterial load qPCR to screen samples before sequencing</strong></p>
<p>A qPCR assay targeting the 16S rRNA gene quantifies total bacterial content in a sample, providing a useful pre-sequencing check for low-biomass samples likely to produce poor amplification or unreliable sequencing results if processed without this screening step.</p>
<p><strong>Decide between qPCR and digital PCR based on sensitivity needs</strong></p>
<p>Digital PCR can offer higher sensitivity and more accurate quantification than standard qPCR, particularly for low-biomass samples at the limit of detection, though at the cost of longer processing time, generally a meaningful tradeoff only when standard qPCR proves insufficient.</p>
<p><strong>Confirm your qPCR assay design addresses known technical pitfalls</strong></p>
<p>Well-designed 16S qPCR assays address known issues like self-priming or mispriming of unintended targets, amplification bias from non-optimal primer coverage, and amplicon size constraints for compatibility with clinical or high-throughput qPCR platforms.</p>
<p><strong>Use pathogen-specific or functional gene qPCR for targeted detection</strong></p>
<p>Beyond total bacterial load, qPCR can target a specific pathogen's single-copy gene or a functional gene of interest, such as an antibiotic resistance gene, providing a faster, more targeted answer than waiting for full sequencing and bioinformatic analysis.</p>
<p><strong>Plan for known PCR limitations in environmental and clinical samples</strong></p>
<p>Standard qPCR can be limited by reliance on standard reference materials for quantification and is prone to inhibition from substances naturally present in environmental or clinical samples, such as heavy metals or organic matter, which digital PCR can sometimes overcome with improved robustness.</p>
<p>&nbsp;</p>
<h2>Specifications context</h2>
<p>&nbsp;</p>
<p>A PCR-based total bacterial quantification assay can provide an exact calculation of bacterial abundance useful for assessing whether a sample is likely to yield positive amplification before committing it to full sequencing, helping avoid wasted sequencing runs on low-biomass samples. As of 2026, digital PCR continues to see increased adoption over standard qPCR specifically for low-biomass, environmental, or inhibitor-prone sample types, where its improved sensitivity and accuracy can outweigh its longer processing time.</p>
<p dir="ltr"><a href="https://mbpinc.net/contact-us"><strong>Reach out to the expert team at MBP Inc.</strong></a> now to ask for a quote on the appropriate PCR and molecular assays for your laboratory.</p>

PCR & Molecular Assays

DataSheet

Femto™ Bacterial DNA Quantification Kit (100 Rxns.)

<p>E2006 by Zymo Research — Femto™ Bacterial DNA Quantification Kit, 100 reactions, qPCR detection 20 fg to 20 ng bacterial DNA from 1 µL sample. 16S rRNA primers; selective in mixed non-bacterial backgrounds. Store at −20°C.</p>

Detection Range

Equipment

Sample Source

Femto™ Bacterial qPCR Premix (1.8 ml)

<p>Femto™ Bacterial qPCR Premix (E2006-1) by Zymo Research — 1.8 mL, 100 reactions, targets 16S rRNA gene, detects as few as 20 fg bacterial DNA (5 copies E. coli), 20 fg–20 ng quantification range. Includes bacterial DNA standards 1–7 and NTC.</p>

Femto™ Fungal DNA Quantification Kit (100 Rxns.)

<p>E2007 by Zymo Research is the Femto™ Fungal DNA Quantification Kit (100 rxns) — detects as little as 20 fg of fungal DNA per reaction using SYTO® 9 and ITS1-F/ITS2-R primers. Detection range 20 fg to 20 ng. <em>S. cerevisiae</em>-derived 7-point standard curve. High fungal specificity; no cross-reactivity with bacterial, plant, or animal DNA.</p>

Femto™ Fungal qPCR Premix (1.8 ml)

<p>E2007-1 by Zymo Research — Femto Fungal qPCR Premix; 1.8 mL 2× premix; ITS-targeting primers; 20 fg–20 ng detection range; ≥2 copies S. cerevisiae; compatible with any qPCR instrument; store at –20°C.</p>

Femto™ Human DNA Quantification Kit (100 Rxns.)

<p>E2005 by Zymo Research is the Femto™ Human DNA Quantification Kit (100 rxns) — detects as little as 20 femtograms of human DNA per reaction using SYTO® 9 and LINE-1 primers. Detection range 20 fg to 20 ng. HeLa-derived 7-point standard curve. High specificity; no cross-reactivity with non-human DNA.</p>