BioXp™ Tiles

Build high-quality genes and gene fragments, hands-free, on your benchtop

The BioXp™ System reagents and protocols provide the capability to generate up to 32 unique, high-quality, linear DNA fragments up to 1.8 kb from custom-designed oligonucleotide pools and reagents in an overnight run on the benchtop. BioXp™ Tile assembly incorporates an error correction step to improve sequence fidelity and purification, ensuring that BioXp™ Tiles are high-quality DNA fragments.

BioXp™ 3200 System benefits:

  • Fast — You get your DNA fragments faster than conventional methods
  • Efficient  — Generate custom DNA fragments in a hands-free overnight run
  • Robust — Delivers de novo DNA assembly across a wide section of the complexity continuum
  • Versatile — BioXp™ Tiles are compatible with multiple cloning and genomics workflows

The BioXp™ system reliably builds DNA fragments ranging from 400 bp to 1800 bp with a wide average GC content. The BioXp system provides scientists the onsite ability to build precisely the sequences they need without cumbersome traditional methods or relying on outside service agencies and their off-target delivery schedules. This benchtop genomic workstation provides capacity of 1 to 32 custom DNA fragments in each run, allowing up to 155 DNA fragments or 279,000 bases to be built per week, widely expanding the throughput capabilities of your research needs.

BioXp™ Tiles types

BioXp™ Tiles, True ends are DNA fragments that are built precisely to the sequence you provide. Depending on your downstream application, you simply design your sequences precisely to your needs. Each run can produce up to 32 unique BioXp™ Tiles in an overnight run.

BioXp™ Tiles, GA ends are available to help standardize downstream applications by cloning directly into SGI-DNA pUCGA cloning vectors via Gibson Assembly® Cloning. To submit BioXp™ Tiles, GA ends, simply submit your sequence of interest. These tiles automatically include unique 30-bp ends at no additional cost to you. Each overnight run can produce up to 32 unique BioXp™ Tiles with GA ends that are ready to clone into SGIDNA’s pUCGA vector.

Other Available BioXp™ products:

pUCGA 1.0 Cloning

BioXp™ Custom Cloning

BioXp™ NGS Library Construction

How It Works

Ordering BioXp™ reagents for building genes or clones is simple.

Log onto your SGI-DNA account and submit your sequences. Assembly is based upon specially designed oligonucleotide pools, specialized reagents and BioXp™ system protocols. You will receive a custom built BioXp™ kit to build your DNA fragments. Load the instrument and begin the run. The next day, collect your BioXp™ Tiles or clones, analyze the fragments and proceed to your downstream application.

DNA assembly runs generally take 12 – 17 hours depending on your constructs and are ready for downstream processing.

Workflow of BioXp 3200 system

Loading the BioXp™ machine is simple.

A Loading Map is included with each kit that provides step-by-step instruction for each of the components. These Maps and the related manuals can also be found within the Documentation

Key components include:

  • BioXp™ Oligo Vault
  • Reagent Plate
  • Recovery Plate
  • 50 and 200 µl tips
  • Reagent 8-well Strip
  • Fresh 70% ethanol

See Virtual Demo

Deck of BioXp 3200 DNA synthesis machine
The BioXp™ instrument is easy to load for virtually hands-free genomic applications.

Cloning BioXp™ Tiles

BioXp™ Tiles can be cloned using the Gibson Assembly® method and several other methodologies. Fragment design is key to successfully cloning your DNA fragment. Simply design your BioXp™ Tiles to be compatible for your intended cloning method. BioXp™ Tiles are purified using magnetic bead methods and are ready- to- use. We recommend running your BioXp™ Tile on a gel to determine the overall success of your assembly. Gel purification prior to downstream use is often helpful if your final product has multiple smaller assemblies in the final reaction.

Assembling Larger DNA Fragments

BioXp™ Tiles can be assembled to build larger constructs that have been designed accordingly using the Gibson Assembly® HiFi Kit or the Gibson Assembly® Ultra kit. It is important to design the DNA fragments appropriately for efficient downstream Hierarchical assembly. We recommend BioXp™ Tiles with true ends for assembling into larger fragments, learn more by reading this application note titled "Build Custom Designed Synthetic Genes in Your Lab Quickly and Efficiently."

Other Applications of BioXp™ Products

The BioXp™ System also provides a unique way to utilize synthetic genomic tools such as:

  • Library construction
  • Site-Directed Mutagenesis
  • Building larger DNA constructs
  • Gene construction and modification
  • Build templates for use in multiplex PCR

Performance

A capacity of up to 32 genes of 400 bp to 1.8 kb can be assembled on the BioXp™ System. DNA fragments provided in 45 µl of TE and are ready for cloning, off-line sequencing  and further assembly into larger constructs.  Additional genomic applications are in development.

Reliable Results Across a Range of DNA Fragments

The BioXp™ system provides consistent results across a range of DNA sequences. BioXp™ Tiles were assembled across a wide size range and %GC content of approximately 400 bp to 1.8 kb and 40 – 60% GC.

Construct Results

Construct Size (bp)
Control 1476
1 430
2 660
3 890
4 1120
5 1350
6 1580
7 1810
ladder 2-log
BioXp 3200 GC Panel gel

BioXp™ Compatibilities

Assembling DNA fragments successfully depends on the overall characteristics of the DNA sequence and the protocol. Two factors that influence successful de novo assembly is the length and average GC content of the sequence. In addition, dynamics such as tandem repeats and other internal complexities can make assembly challenging.

Each sequence submitted for building on the BioXp™ System is reviewed upon submission to assure it has a high probability of success. If a sequence is outside the current capabilities, you may submit for BioXp™ assembly or request a quote to build the Tile in the SGI-DNA Custom Synthesis lab.

BioXp™ 3200 DNA Fragment and Cloning Compatibilities

Size Ranges 400 bp to 1800 bp DNA Fragments
Composition A, T, C or G residues only
Ave GC% 20 – 70% GC for 400 bp – 1 kb; 40 – 60% GC for 1 kb – 1.8 kb
Sequence Complexity Sequence analysis will determine best approach for construction and assembly. Custom Services is available if DNA is outside of compatibility.
Amount Approximate yield: 200 ng of purified, linear dsDNA PCR product. DNA may need to be gel purified prior to downstream applications.
Format 96 well plate format in final volume of 45 µl in TE.

BioXp™ Tiles Analysis

To evaluate the success of the assembly it is important to run the BioXp™ Tiles on a gel. Gel examples are shown below. The image on the left shows the assembled fragment (BioXp™ Tile) clearly distinguishable without the presence of secondary bands. If you observe similar results, proceed directly to downstream applications of your choice. The gel on the right shows multiple bands. In this case, we recommend gel-purifying the Tile band to remove byproducts before proceeding.

BioXp™ Cloning is also available

Build high-quality genes and clone directly into a vector on your benchtop in a hands-free overnight run

The Cloning module for the BioXp™ System generates up to 32 unique, high-quality clones from custom-designed oligonucleotide pools and reagents in an overnight run on a personal laboratory benchtop.

Sequencing to Identify Error Free Clone

Cloning Full Length Fragments

BioXp™ Tiles are often cloned and colonies are picked for sequence verification of an error free clone. The number of clones to pick for sequencing is dependent on the size and characteristics of the DNA insert. After DNA assembly is complete, we recommend performing a gel analysis to determine the success of assembly and to confirm the presence of full length BioXp™ Tile.

If your DNA fragment is NOT a single product of the expected size as determined by gel analysis, we recommend gel purifying the fragment migrating at the expected size prior to cloning. You may also choose to clone directly without gel purification, but you will need to sequence additional clones to find your error free clone.

We recommend the following as a guideline to determine how many full- length clones to pick to find your error free clone.

Number of Full Length Clones Recommended to Sequence to Identify an Error Free Clone

DNA fragment size # Clones to pick (full length)
< 1000 bp 2 to 3
1000 – 1500 bp 3 to 5
1501 – 1800 bp 4 to 6

Ordering

Ordering a BioXp™ System

To order a BioXp™ System, please contact info@sgidna.com for a sales representative to contact you. You can also See a Virtual Demo by clicking on the button below.

See Virtual Demo

Demos

You may also request a demonstration of the instrument. We host Demos at our corporate headquarters in La Jolla, California and may also have an instrument in your area that you can visit. Please contact info@sgidna.com to request a demonstration.

Pilot Program

Our pilot program allows you to order sequences that are built in our in house BioXp™ system. We ship you the resulting product. These sequences are available to you for a special price. SGI-DNA ships you the resulting product for you to analyze when considering a BioXp™ purchase. Please contact info@sgidna.com to make your request to participate in our pilot program.

Ordering BioXp™ Reagents

BioXp™ System reagents are custom built to your sequence specification.
The ordering process begins by entering the desired sequences into the BioXp™ ordering portal located on sgidna.com or following the link below.

To Place an Order for BioXp™ Reagents:

  • Log into your SGI-DNA account
  • Click on BioXp™ Reagents
  • Complete required information
  • Submit FASTA file or text file containing your sequences
  • Review the sequences for BioXp™ compatibility
  • Select/Confirm sequences to order
  • Provide payment information
  • Submit order

BioXp™ Reagents are shipped to you in approximately 3 – 5 business days. You may load the instrument the same day you receive your order and have BioXp™ Tiles ready the following morning.

BioXp™ Tile kit includes:

  • Module A: BioXp™ Oligo Vault Kit
  • Module B: BioXp™ 1.8 kb Reagents

Additional materials required include (provided by customer):

  • Freshly made 70% Ethanol (12 ml)
  • BioXp™ Tips; 3 ea of 50 µl and 1 ea of 200 µl Tips
    Order tips by logging into your SGI-DNA account, click to order BioXp™ Tips and Accessories. You can also follow the links provided at the final pages of ordering BioXp™ reagents.
BioXp™ Oligo Vault Kit
BioXp™ Oligo Vault and +4C Reagents
BioXp™ 1.8 kb DNA Assembly Reagents
BioXp™ -20C Reagents

BioXp™ PreChecker (Optional)

You can check your sequences for compatibility on the BioXp™ PreCheck (link) web site prior to placing your order. This PreCheck tool provides you quick results regarding BioXp™ compatibilities for your sequences. It also provides detailed information for sequences that are deemed outside the BioXp™ compatibility.

Those sequences that PASS BioXp™ compatibility standards have a very high likelihood of successful assembly on the instrument (>85%). Those that do not PASS have a lower chance of successful assembly. Successful assembly on is dependent on the overall complexity of the sequences.

Those sequences that PASS BioXp™ compatibility standards (GREEN) have a high likelihood of successful assembly on the instrument (>85%). Those that do NOT PASS (RED) have a lower success rate (~50%). You are welcome to order any sequence you like, compatible or not, to test the instrument for your needs.

Other Available BioXp™ products:

pUCGA 1.0 Cloning

BioXp™ Custom Cloning

BioXp™ NGS Library Construction

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