Go from intact capsids to full-length AAV genomes in 3 days. Detect snapback, deletion, and truncation variants other methods can miss.
Go from intact capsids to full-length AAV genomes in 3 days. Detect snapback, deletion, and truncation variants other methods can miss.
Go from intact capsids to full-length AAV genomes in 3 days. Detect snapback, deletion, and truncation variants other methods can miss.
Order Now
Go from intact capsids to full-length AAV genomes in 3 days. Detect snapback, deletion, and truncation variants other methods can miss.
Order Now
Fast and complete
Get full-length consensus sequences, interactive genome maps, variant breakdowns, and raw reads in 3 business days or less.
Get full-length consensus sequences, interactive genome maps, variant breakdowns, and raw reads in 3 business days or less.
Get full-length consensus sequences, interactive genome maps, variant breakdowns, and raw reads in 3 business days or less.
Get full-length consensus sequences, interactive genome maps, variant breakdowns, and raw reads in 3 business days or less.
Reveal hidden variants
Our de novo assemblies uncover subgenomic variants like snapback, truncated, and inverted payload genomes that reference-based methods can miss.
Our de novo assemblies uncover subgenomic variants like snapback, truncated, and inverted payload genomes that reference-based methods can miss.
Our de novo assemblies uncover subgenomic variants like snapback, truncated, and inverted payload genomes that reference-based methods can miss.
Our de novo assemblies uncover subgenomic variants like snapback, truncated, and inverted payload genomes that reference-based methods can miss.
Conserve precious material
Get the data you need from just 1.0×10¹¹ vector genomes per sample.
Get the data you need from just 1.0×10¹¹ vector genomes per sample.
Get the data you need from just 1.0×10¹¹ vector genomes per sample.
Get the data you need from just 1.0×10¹¹ vector genomes per sample.
Fast and complete
Get full-length consensus sequences, interactive genome maps, variant breakdowns, and raw reads in 3 business days or less.
Reveal hidden variants
Our de novo assemblies uncover subgenomic variants like snapback, truncated, and inverted payload genomes that reference-based methods can miss.
Conserve precious material
Get the data you need from just 1.0×10¹¹ vector genomes per sample.
Sequence native DNA to see what's really in your prep
Sequence native DNA to see what's really in your prep
Sequence native DNA to see what's really in your prep
Most AAV sequencing protocols use end-repair, annealing, amplification, and/or fragmentation steps that can generate artifacts. We skip all of that. Using a process unique to Plasmidsaurus, we directly ligate our sequencing adaptors to native terminally resolved ITR-containing DNA in your sample with no other modification. This means we can directly sequence both single stranded and double stranded DNA, preserving ITRs and genome configurations as they exist in your prep. The full length of AAV DNA is sequenced using the newest R10 chemistry at a modal accuracy of >99%.
All ITR-containing sequencing results are available for download as FASTQ files for easy analysis.
Catch problems before they derail your project.
Cell and Gene Therapy R&D
Rapidly validate early R&D transgene designs and production processes before investing in time and money intensive experiments. Confirm AAV genome integrity and identify problematic transgene features that may be causing truncated or snap-back subgenomic populations.
Gene therapy manufacturers and CDMOs
Get better sequencing data for each lot faster and with less input so you can stay ahead of timelines and specs.
Academic labs and University core facilities:
cost effective verification of inhouse AAV production without sacrificing significant fractions of small-lot produced virus.
Catch problems before they derail your project.
Cell and Gene Therapy R&D
Rapidly validate early R&D transgene designs and production processes before investing in time- and money-intensive experiments. Confirm AAV genome integrity and identify problematic transgene features that may be causing truncated or snapback subgenomic populations.
Gene therapy manufacturers and CDMOs
Get better sequencing data for each lot faster and with less input so you can stay ahead of timelines and specs.
Academic labs and University core facilities
Cost effective verification of inhouse AAV production without sacrificing significant fractions of small-lot produced virus.
Catch problems before they derail your project.
Cell and Gene Therapy R&D
Rapidly validate early R&D transgene designs and production processes before investing in time- and money-intensive experiments. Confirm AAV genome integrity and identify problematic transgene features that may be causing truncated or snapback subgenomic populations.
Gene therapy manufacturers and CDMOs
Get better sequencing data for each lot faster and with less input so you can stay ahead of timelines and specs.
Academic labs and University core facilities
Cost effective verification of inhouse AAV production without sacrificing significant fractions of small-lot produced virus.
Catch problems before they derail your project.
Cell and Gene Therapy R&D
Rapidly validate early R&D transgene designs and production processes before investing in time- and money-intensive experiments. Confirm AAV genome integrity and identify problematic transgene features that may be causing truncated or snapback subgenomic populations.
Gene therapy manufacturers and CDMOs
Get better sequencing data for each lot faster and with less input so you can stay ahead of timelines and specs.
Academic labs and University core facilities
Cost effective verification of inhouse AAV production without sacrificing significant fractions of small-lot produced virus.
Catch problems before they derail your project.
Cell and Gene Therapy R&D
Rapidly validate early R&D transgene designs and production processes before investing in time- and money-intensive experiments. Confirm AAV genome integrity and identify problematic transgene features that may be causing truncated or snapback subgenomic populations.
Gene therapy manufacturers and CDMOs
Get better sequencing data for each lot faster and with less input so you can stay ahead of timelines and specs.
Academic labs and University core facilities
Cost effective verification of inhouse AAV production without sacrificing significant fractions of small-lot produced virus.
Better Data. Better Workflow.
Figure 1. Representative Plasmidsaurus AAV sequencing results from a commonly used CAG>GFP-WPRE-SV40polyA vector. The top panel displays the annotated consensus assemblies, and the bottom panel shows the read length histogram, highlighting the peaks that correspond to the assembled genomes. This sample contains the full-length intended payload, Assembly 1, which is detected as the longest and most abundant assembly. Three subgenomic variants, Assemblies 2, 3, and 4, are detected, in addition to an inverted-payload plasmid backbone contaminant, Assembly 5. Assemblies 2, 3, and 4 are snapback variants and are displayed in the hairpin configuration. Assembly 5 is an inverted-payload (reverse-packaged) plasmid contaminant, containing an ampicillin resistance cassette and a pMB1 bacterial origin of replication.
Better Data. Better Workflow.
Figure 1. Representative Plasmidsaurus AAV sequencing results from a commonly used CAG>GFP-WPRE-SV40polyA vector. The top panel displays the annotated consensus assemblies, and the bottom panel shows the read length histogram, highlighting the peaks that correspond to the assembled genomes. This sample contains the full-length intended payload, Assembly 1, which is detected as the longest and most abundant assembly. Three subgenomic variants, Assemblies 2, 3, and 4, are detected, in addition to an inverted-payload plasmid backbone contaminant, Assembly 5. Assemblies 2, 3, and 4 are snapback variants and are displayed in the hairpin configuration. Assembly 5 is an inverted-payload (reverse-packaged) plasmid contaminant, containing an ampicillin resistance cassette and a pMB1 bacterial origin of replication.
Catch problems before they derail your project.
Cell and Gene Therapy R&D
Rapidly validate early R&D transgene designs and production processes before investing in time- and money-intensive experiments. Confirm AAV genome integrity and identify problematic transgene features that may be causing truncated or snapback subgenomic populations.
Gene therapy manufacturers and CDMOs
Get better sequencing data for each lot faster and with less input so you can stay ahead of timelines and specs.
Academic labs and University core facilities
Cost effective verification of inhouse AAV production without sacrificing significant fractions of small-lot produced virus.
Catch problems before they derail your project.
Cell and Gene Therapy R&D
Rapidly validate early R&D transgene designs and production processes before investing in time- and money-intensive experiments. Confirm AAV genome integrity and identify problematic transgene features that may be causing truncated or snapback subgenomic populations.
Gene therapy manufacturers and CDMOs
Get better sequencing data for each lot faster and with less input so you can stay ahead of timelines and specs.
Academic labs and University core facilities
Cost effective verification of inhouse AAV production without sacrificing significant fractions of small-lot produced virus.
Better Data. Better Workflow.
Figure 1. Representative Plasmidsaurus AAV sequencing results from a commonly used CAG>GFP-WPRE-SV40polyA vector. The top panel displays the annotated consensus assemblies, and the bottom panel shows the read length histogram, highlighting the peaks that correspond to the assembled genomes. This sample contains the full-length intended payload, Assembly 1, which is detected as the longest and most abundant assembly. Three subgenomic variants, Assemblies 2, 3, and 4, are detected, in addition to an inverted-payload plasmid backbone contaminant, Assembly 5. Assemblies 2, 3, and 4 are snapback variants and are displayed in the hairpin configuration. Assembly 5 is an inverted-payload (reverse-packaged) plasmid contaminant, containing an ampicillin resistance cassette and a pMB1 bacterial origin of replication.
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"We encountered issues with custom AAVs we purchased from a separate company and decided to try Plasmidsaurus' AAV sequencing services to determine if there were any issues with the DNA sequence. We were extremely satisfied and impressed with the quality of their service!"
Iris Escobar, Yale University
"We encountered issues with custom AAVs we purchased from a separate company and decided to try Plasmidsaurus' AAV sequencing services to determine if there were any issues with the DNA sequence. We were extremely satisfied and impressed with the quality of their service!"
Iris Escobar, Yale University
"We encountered issues with custom AAVs we purchased from a separate company and decided to try Plasmidsaurus' AAV sequencing services to determine if there were any issues with the DNA sequence. We were extremely satisfied and impressed with the quality of their service!"
Iris Escobar, Yale University
"We encountered issues with custom AAVs we purchased from a separate company and decided to try Plasmidsaurus' AAV sequencing services to determine if there were any issues with the DNA sequence. We were extremely satisfied and impressed with the quality of their service!"
Iris Escobar, Yale University
How it works
Step 1
Prepare your samples
Prepare your samples
Submit a minimum of 1.0 × 10¹¹ total vector genome (vg) copies of purified intact AAV viral capsids as determined by qPCR or ddPCR. For best results, we recommend sending 2-5 × 10¹¹ vg/sample.
Capsids can be sent in a volume of up to 200 µl of buffered saline or common AAV storage solutions.
AAV Purification Requirements:
The sample must be free of cellular debris. Affinity resin or ultracentrifugation purified AAV samples perform best.
Relatively crude PEG-precipitated virus resuspended in PBS can be sequenced if at least 2 × 10¹¹ vg is provided.
Please read our FAQ for more details and please contact support@plasmidsaurus.com if you have questions.
Step 2
Place your order online and send using the printed label
Place your order online and send using the printed label
Ship purified AAV samples in labelled 200 μl PCR strip tubes that are tightly closed, lids wrapped with parafilm, and placed inside a 50 ml conical tube. The tubes should be placed in an insulated box with frozen (-20°C) cold packs. Dry ice can also be used, but is not necessary.
AAV Sample shipping address:
Plasmidsaurus
1850 Millrace Drive, Suite 200
Eugene, OR 97403
Step 3
Get results in 3 business days or less
Get results in 3 business days or less
You’ll receive a full report with de novo assemblies and the ability to download raw reads for your own analysis.
How it works
Step 1
Submit a minimum of 1.0 × 10¹¹ total vector genome (vg) copies of purified intact AAV viral capsids as determined by qPCR or ddPCR. For best results, we recommend sending 2-5 × 10¹¹ vg/sample.
Capsids can be sent in a volume of up to 200 µl of buffered saline or common AAV storage solutions.
AAV Purification Requirements:
The sample must be free of cellular debris. Affinity resin or ultracentrifugation purified AAV samples perform best.
Relatively crude PEG-precipitated virus resuspended in PBS can be sequenced if at least 2 × 10¹¹ vg is provided.
Please read our FAQ for more details and please contact support@plasmidsaurus.com if you have questions.
Prepare your samples
Step 2
Ship purified AAV samples in labelled 200 μl PCR strip tubes that are tightly closed, lids wrapped with parafilm, and placed inside a 50 ml conical tube. The tubes should be placed in an insulated box with frozen (-20°C) cold packs. Dry ice can also be used, but is not necessary.
AAV Sample shipping address:
Plasmidsaurus
1850 Millrace Drive, Suite 200
Eugene, OR 97403
Place your order online and send using the printed label
Step 3
You’ll receive a full report with de novo assemblies and the ability to download raw reads for your own analysis.
Get results in 3 business days or less
How it works
Step 1
Prepare your samples
Submit a minimum of 1.0 x 1011 total vector genome (vg) copies of purified intact AAV viral capsids as determined by qPCR or ddPCR. For best results, we recommend sending 2-5×1011 vg/sample.
Capsids can be sent in a volume of up to 200 µl of buffered saline or common AAV storage solutions.
AAV Purification Requirements:
The sample must be free of cellular debris. Affinity resin or ultracentrifugation purified AAV samples perform best.
Relatively crude PEG-precipitated virus resuspended in PBS can be sequenced if at least 2 x 1011 vg is provided.
Please read our FAQ for more details and please contact support@plasmidsaurus.com if you have questions.
Submit a minimum of 1.0 × 10¹¹ total vector genome (vg) copies of purified intact AAV viral capsids as determined by qPCR or ddPCR. For best results, we recommend sending 2-5 × 10¹¹ vg/sample.
Capsids can be sent in a volume of up to 200 µl of buffered saline or common AAV storage solutions.
AAV Purification Requirements:
The sample must be free of cellular debris. Affinity resin or ultracentrifugation purified AAV samples perform best.
Relatively crude PEG-precipitated virus resuspended in PBS can be sequenced if at least 2 × 10¹¹ vg is provided.
Please read our FAQ for more details and please contact support@plasmidsaurus.com if you have questions.
Submit a minimum of 1.0 × 10¹¹ total vector genome (vg) copies of purified intact AAV viral capsids as determined by qPCR or ddPCR. For best results, we recommend sending 2-5 × 10¹¹ vg/sample.
Capsids can be sent in a volume of up to 200 µl of buffered saline or common AAV storage solutions.
AAV Purification Requirements:
The sample must be free of cellular debris. Affinity resin or ultracentrifugation purified AAV samples perform best.
Relatively crude PEG-precipitated virus resuspended in PBS can be sequenced if at least 2 × 10¹¹ vg is provided.
Please read our FAQ for more details and please contact support@plasmidsaurus.com if you have questions.
Step 2
Ship purified AAV samples in labelled 200 μl PCR strip tubes that are tightly closed, lids wrapped with parafilm, and placed inside a 50 ml conical tube. The tubes should be placed in an insulated box with frozen (-20°C) cold packs. Dry ice can also be used, but is not necessary.
AAV Sample shipping address:
Plasmidsaurus
1850 Millrace Drive, Suite 200
Eugene, OR 97403
Place your order online and send using the printed label
Step 3
You’ll receive a full report with de novo assemblies and the ability to download raw reads for your own analysis.
Get results in 3 business days or less
This a Plasmidsaurus exclusive service using the newest long-read sequencing technology from Oxford Nanopore Technologies, and includes the following components:
Extracting whole AAV genomes from your intact viral capsids.
Plasmidsaurus generates an exclusive annealing-free, amplification-free, end-repair-free, long-read sequencing library that enriches for ITR-containing sequences using the newest Oxford Nanopore Technologies V14 Library preparation chemistry followed by sequencing with R10.4.1 flow cells.
Identifying and assembling high-accuracy linear consensus sequences for all detectable AAV genome subspecies. These can include the expected full-length AAV genome as well as subgenomic variants such as truncations, snapback hairpins, deletions or insertions. These subgenomic species can usually be detected if they comprise greater than 1% of the total reads, depending on the sample.
Metrics on the relative quantification of each genome subspecies, relative proportions of ITR configurations, and an analysis of single-ITR reads. All ITR-containing reads, including sequences with single ITRs are delivered in .fastq format.
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Data and File Types Delivered
Data and File Types Delivered
Consensus sequence
Data and File Types Delivered
Data and File Types Delivered
.fasta: Polished genome sequence
.gbk: Polished sequence with annotations
Consensus sequence
.fasta: Polished genome sequence
.gbk: Polished sequence with annotations
Consensus sequence
.fasta: Polished genome sequence
.gbk: Polished sequence with annotations
Plasmid Map (.html)
Plasmid Map (.html)
Interactive view of sequence with annotations
Assembly quantifications (.tsv)
Assembly quantifications (.tsv)
Assembly quantifications (.tsv)
Table with relative abundance of each assembled genome in the sample compared to all assemblable reads.
ITR Orientation Counts (.tsv)
ITR Orientation Counts (.tsv)
ITR Orientation Counts (.tsv)
Read counts and percent of total for each ITR flip-flop configuration.
Single ITR Truncation Analysis (.png)
Single ITR Truncation Analysis (.png)
Single ITR Truncation Analysis (.png)
Alignment analysis of single ITR reads, identifying potential truncation hotspots.
Read Length Histogram (.png)
Read Length Histogram (.png)
Read Length Histogram (.png)
Distribution of raw read lengths
Virtual Gel (.png)
Virtual Gel (.png)
Visual “gel” of read lengths per sample
Raw Reads (.fastq.gz)
Raw Reads (.fastq.gz)
Sequences of processed raw reads (optional download)
Learn more from our Results Interpretation Guide
Learn more from our Results Interpretation Guide
Learn more from our Results Interpretation Guide
FAQ
FAQ
FAQ
FAQ
What’s new in the updated AAV sequencing workflow?
What’s new in the updated AAV sequencing workflow?
What’s new in the updated AAV sequencing workflow?
What’s new in the updated AAV sequencing workflow?
What’s new in the updated AAV sequencing workflow?
How many reads do I need for AAV Genome Sequencing?
How many reads do I need for AAV Genome Sequencing?
How many reads do I need for AAV Genome Sequencing?
How many reads do I need for AAV Genome Sequencing?
How many reads do I need for AAV Genome Sequencing?
Does the ITR sequence of my sample matter?
Does the ITR sequence of my sample matter?
Does the ITR sequence of my sample matter?
Does the ITR sequence of my sample matter?
Does the ITR sequence of my sample matter?
What contaminants or DNA types might this method miss?
What contaminants or DNA types might this method miss?
What contaminants or DNA types might this method miss?
What contaminants or DNA types might this method miss?
What contaminants or DNA types might this method miss?
How accurate are the AAV genome sequencing results?
How accurate are the AAV genome sequencing results?
How accurate are the AAV genome sequencing results?
How accurate are the AAV genome sequencing results?
How accurate are the AAV genome sequencing results?
What data & file types will I receive for successful AAV genome sequencing?
What data & file types will I receive for successful AAV genome sequencing?
What data & file types will I receive for successful AAV genome sequencing?
What data & file types will I receive for successful AAV genome sequencing?
What data & file types will I receive for successful AAV genome sequencing?
What is your policy when AAV genome samples fail?
What is your policy when AAV genome samples fail?
What is your policy when AAV genome samples fail?
What is your policy when AAV genome samples fail?
What is your policy when AAV genome samples fail?
Do you treat the sample with DNase I prior to AAV DNA extraction?
Do you treat the sample with DNase I prior to AAV DNA extraction?
Do you treat the sample with DNase I prior to AAV DNA extraction?
Do you treat the sample with DNase I prior to AAV DNA extraction?
Do you treat the sample with DNase I prior to AAV DNA extraction?
Do I need to purify or rebuffer my AAV sample before submitting?
Do I need to purify or rebuffer my AAV sample before submitting?
Do I need to purify or rebuffer my AAV sample before submitting?
Do I need to purify or rebuffer my AAV sample before submitting?
Do I need to purify or rebuffer my AAV sample before submitting?
Can I submit crude or PEG-precipitated virus preps?
Can I submit crude or PEG-precipitated virus preps?
Can I submit crude or PEG-precipitated virus preps?
Can I submit crude or PEG-precipitated virus preps?
Can I submit crude or PEG-precipitated virus preps?
Do you re-use flow cells or pool samples?
Do you re-use flow cells or pool samples?
Do you re-use flow cells or pool samples?
Do you re-use flow cells or pool samples?
Do you re-use flow cells or pool samples?