From: Scholin, Chris

Sent: Friday, January 07, 2011 11:05 PM

To: Jensen, Scott; Pargett, Douglas; Roman, Brent; Birch, James

Cc: Scholin, Chris

Subject: draft criteria for evaluating G3 cell concentration methods

Hi all –

Here’s a draft list of criteria we could use for evaluating any biomass concentration system for G3.  These kind of attributes should feed into the  design/ interdependency matrix Doug presented.

1) Flow rate

2) Particle retention

3) Filtration capacity

4) Amenability to collecting different particle sizes from a single sample/pre-filtration

5) Suitability for cell homogenate production (activity; volume recovered, target molecule integrity)

6) Suitability for sample archival (cell or target molecule integrity and means for recovery)

7) Suitability for re-use vs 1-time use

8) Reagent vol needed to displace sample filtrate with defined chemical

9) Size/envelope/associated packaging

10) Power consumption per sample collection/lysis/processing event

11) Capacity for selective target enrichment (STE; ie, where material concentrated fits some spec that enhances target capture over ‘everything’ so that downstream reactions benefit from increased signal to noise).

12) Capacity for combining steps of sample concentration/lysis/target molecule enrichment in a single element (e.g., use of sintered glass as filtration media combined with SPE for DNA/RNA etc prep)

We can set refs based on G2 and bench.  Bench can run as standard vacuum filtration, which is not awesome, or via + pressure as is done commonly with series of in-line filters of increasingly finer porosity. 

Min requirements that the sample collection system must meet were outlined previously – something akin to the below but also ones that we should put more def behind.  There’s lots of wiggle room here but this is a start:

a) Surface to 200m (there is 1 case that specifies 300m, but I put this as nice to have)

b) Biomass concentration for various environments that meets or beats G2 (variable vol for variable particle sizes; filter rates)

c) # of collection/processing events that meets or beats G2 (44 samples using SHA only as we run today with G2)

d) 500ul homogenate representative of same sample vol for G2 (~4x more conc than G2 based on current puck system).

chris

*************************************************

Chris Scholin
President and CEO
Monterey Bay Aquarium Research Institute
7700 Sandholdt Road Moss Landing, CA 95039
scholin@mbari.org
(831) 775-1779 (office)
(831) 775-1702 (Assistant: Pat Duran)
(831) 775-1620 (fax)
http://www.mbari.org