Anyone have rec's for fast-turnaround MiSeq service?

falconpunch · 10-05-2018, 09:35 AM

I'm currently generating about a plate of 16S samples every 2 months, prepping and mixing them myself, and submitting to my university core facility (who shall remain nameless...).

Everything is working well, but the turnaround is about 25 days, thus hampering my decisions on what experiment to do next. I've already put out a few quote requests for services offering 2 x 250bp MiSeq sequencing of prepared libraries, have got a couple hits back, but I'm wondering if anyone here can recommend anyone? Sometimes their websites aren't always the best, and I've had a few not get back to me.

Could be private company, university, whatever as long as the turnaround is closer to a week (or less!) and the cost isn't *too* much higher than what we're paying now.

Thanks!!!

MU Core · 10-08-2018, 05:49 AM

I would be happy to talk with you in detail about your sequencing needs off-line. Contact info can be found at the website below.

https://dnacore.missouri.edu/

JoeKutch · 10-08-2018, 12:47 PM

Have you tried talking to the staff at your core to find out why the turnaround is so long? I doubt their MiSeq is being used to capacity, so there must be a specific spot where it's being held up.

My guess would be reagent ordering, as that can take a while between business office approval and Illumina shipping. The core I work in doesn't always keep 500v2 or 600v3 kits on hand - if they knew in advance of your experiment they could have reagents ordered. QC should take a few days to a week if they batch qpcr runs, so that as soon as QC is completed they can load immediately. The only other potential slowdown is analysis if they're doing anything beyond fastq generation or if they're extremely booked. Maybe staffing if the core is small but offers a lot of services, in which case you're absolutely right and the best way to hit your turnaround goal is to find a new provider.

thermophile · 11-07-2018, 01:31 PM

you can contact me as well. User prepped libraries are usually sequenced in 1 week. When you are prepping, let us know what kit you need (or you can order the kit from Illumina and have it delivered to me).

mars.uconn.edu

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10-05-2018, 09:35 AM	#1
falconpunch Junior Member Location: New England Join Date: Oct 2018 Posts: 4	Anyone have rec's for fast-turnaround MiSeq service? I'm currently generating about a plate of 16S samples every 2 months, prepping and mixing them myself, and submitting to my university core facility (who shall remain nameless...). Everything is working well, but the turnaround is about 25 days, thus hampering my decisions on what experiment to do next. I've already put out a few quote requests for services offering 2 x 250bp MiSeq sequencing of prepared libraries, have got a couple hits back, but I'm wondering if anyone here can recommend anyone? Sometimes their websites aren't always the best, and I've had a few not get back to me. Could be private company, university, whatever as long as the turnaround is closer to a week (or less!) and the cost isn't too much higher than what we're paying now. Thanks!!!

11-07-2018, 01:31 PM	#4
thermophile Senior Member Location: CT Join Date: Apr 2015 Posts: 243	you can contact me as well. User prepped libraries are usually sequenced in 1 week. When you are prepping, let us know what kit you need (or you can order the kit from Illumina and have it delivered to me). mars.uconn.edu __________________ Microbial ecologist, running a sequencing core. I have lots of strong opinions on how to survey communities, pretty sure some are even correct.

10-08-2018, 05:49 AM	#2
MU Core Member Location: Columbia, Missouri Join Date: Apr 2008 Posts: 57	I would be happy to talk with you in detail about your sequencing needs off-line. Contact info can be found at the website below. https://dnacore.missouri.edu/

10-08-2018, 12:47 PM	#3
JoeKutch Member Location: Philadelphia Join Date: Oct 2016 Posts: 17	Have you tried talking to the staff at your core to find out why the turnaround is so long? I doubt their MiSeq is being used to capacity, so there must be a specific spot where it's being held up. My guess would be reagent ordering, as that can take a while between business office approval and Illumina shipping. The core I work in doesn't always keep 500v2 or 600v3 kits on hand - if they knew in advance of your experiment they could have reagents ordered. QC should take a few days to a week if they batch qpcr runs, so that as soon as QC is completed they can load immediately. The only other potential slowdown is analysis if they're doing anything beyond fastq generation or if they're extremely booked. Maybe staffing if the core is small but offers a lot of services, in which case you're absolutely right and the best way to hit your turnaround goal is to find a new provider.