SNPsaurus

Providing nextRAD genotyping services, and Oxford Nanopore microbial & plasmid sequencing with the plasmidsaurus service

[plasmidsaurus @plasmidsaurus]

For bacterial genome sequencing, would you pick fast, good, or cheap? Now you can get ALL 3 with our new ONT sequencing service that almost always produces circular, full-length bacterial chromosome contigs with consensus accuracy >Q50 -- often with their full plasmids too! (1/3)

[SNPsaurus @SNPsaurus]

@mjprigge @OmicsOmicsBlog @justin_j_miller Keith is talking about a rare event. In the histograms above, it is pretty clear that the dimers are a majority of the hundreds of full-length reads, not a single artifact event, and the simplest explanation is the plasmid DNA itself is a dimer. You make a good point though!

[SNPsaurus @SNPsaurus]

@faithbtee @plasmidsaurus Hi Faith. Good news "The vendor is registered, approved, and ready to use. The supplier ID IS 0000082756". There was some kind of wires crossing going on over the company name being SNPsaurus versus the plasmidsaurus service name but they figured it out today.

[plasmidsaurus @plasmidsaurus]

Today seems like a good day to announce some improvements we've had in the works:
1. We promised lower prices as our sequencing volume increased, and thanks to our wonderful customers, as of right now we are dropping our price from $25 to $15/sample! (1/6)

[SNPsaurus @SNPsaurus]

A surprising fraction of the plasmids we sequence have an unexpected assembly size. Here is a good example:

[Calin Plesa @calinplesa]

Here is a nice example of the power of long-read full-plasmid sequencing such as the service offered by @SNPsaurus. We recently ordered a 4.7kbp plasmid from @Addgene. As part of our QC we sent it in for full-plasmid sequencing as part of a batch of plasmids... 1/n

[SNPsaurus @SNPsaurus]

@calinplesa @markwbudde We are doing 16 minimum right now, but since you are nearby just check in if you have smaller sets. We barcode and multiplex individual plasmids, can do complex pools if already barcoded on the plasmid.

[SNPsaurus @SNPsaurus]

@breakliquid @_Josh_Currie @markwbudde @alectricity We do BACs with long reads, see https://t.co/eVYTBFzWap and email [email protected] to discuss since there can be extra complications.

[SNPsaurus @SNPsaurus]

@AlbertVilella @PgpMartin @PacBio Yes. Give me an email [email protected] to discuss a specific. Probably add $10/sample but very large collections could be done for much less. Can't get full-length HiFi for 100 kb BACs but can do HiFi assembly so pipeline different.

[SNPsaurus @SNPsaurus]

@PgpMartin @AlbertVilella We do 384 plasmids at $15 a plasmid using @PacBio. Get HiFi full-length sequences that are polished to even higher quality with hundreds of other HiFi sequences from the same plasmid. Only downside is turnaround time (we do a run every other week) but working to get that better.

[Eric Johnson @eric_j_NGS]

This article hits a pet peeve of mine. It says "RADSeq" in the title but it uses the ddRAD method. This is important because the study is a diverse genus of moth. Not a diverse species, but 43 samples and 32 species. Why does that matter? 1/n

[SNPsaurus @SNPsaurus]

Even little Billy of the Family Circus wishes he could be doing some long-read genome sequencing with the @PacBio Sequel, it appears!

[SNPsaurus @SNPsaurus]

@heyaudy We just run augustus, extract the predicted proteins, blastp against a yeast RefSeq assembly's proteins, and push the blast hit back into the augustus gff.

[SNPsaurus @SNPsaurus]

The @PacBio Sequel II just keeps getting better and our pricing just keeps getting better. PacBio bacterial genomes starting at $200/sample. Yeast $300/sample. A 1 Gbp genome for $1800. Library prep, sequencing, assembly and annotation included. https://t.co/KcGpIQdnHW

[SNPsaurus @SNPsaurus]

SNPsaurus is excited to offer a new @PacBio service: full-length sequencing of individual plasmids for as low as $15/plasmid. No need to order primers to walk into a long insert. No charge if the plasmid isn't returned as a single sequence! https://t.co/eVYTBFzWap

[SNPsaurus @SNPsaurus]

@brunogomezgil @rllera @PacBio Maybe someday soon! But until then:

[SNPsaurus @SNPsaurus]

It is always fun to read the amazing research associated with samples sent to us for sequencing. Great paper!

[Benjamin Ross @rossbenjamind]

@ajverster Very happy to have our work published today! Huge thanks to @ajverster, @DanicaSchmidtk1, Joseph Mougous, Elhanan Borenstein and many others not on Twitter. https://t.co/w9axuZ54YM

[SNPsaurus @SNPsaurus]

@arunsethuraman For genomes under 500 Mb we think it makes sense to sequence the whole genome at 10X read depth. A 400 Mb beetle would be $87/sample for library prep, sequencing, and informatics. We would generate a draft reference from a few samples, align, call genotypes, return reads and vcf.

[SNPsaurus @SNPsaurus]

@PacBio @gameofkittens Do you love palindromes, or do you suggest ways to destroy them with Exo VII treatment? Hmmm? https://t.co/dEGlJrZrJL

[SNPsaurus @SNPsaurus]

@PacBio keeps pushing the metrics. It has been great to work with a platform where we've seen multiple read-length doublings and 8-fold more reads in just the past few years.