System and method for processing biological samples

• US 10,093,963 B2
• Filed: 03/22/2017
• Issued: 10/09/2018
• Est. Priority Date: 02/13/2012
• Status: Active Grant

• Current Assignee: Neumodx Molecular, Inc. (Qiagen NV)
• Original Assignee: Neumodx Molecular, Inc. (Qiagen NV)
• Inventors: Kusner, Michael T., Williams, Jeffrey
• Primary Examiner(s): Bowers, Nathan A
• Assistant Examiner(s): EDWARDS, LYDIA E
• Application Number:
  US15/465,796
• Publication Number:
  US 20170191115A1
• Time in Patent Office: 566 Days
• CPC Class Codes: B01L 2200/025 Align devices or objects to ensure defined positions relative to each other
• CPC Class Codes: B01L 2200/027 for microfluidic devices
• CPC Class Codes: B01L 2200/0631 Purification arrangements, e.g. solid phase extraction [SPE]
• CPC Class Codes: B01L 2200/0668 Trapping microscopic beads
• CPC Class Codes: B01L 2200/0684 Venting, avoiding backpressure, avoid gas bubbles
• CPC Class Codes: B01L 2200/0689 Sealing
• CPC Class Codes: B01L 2200/10 Integrating sample preparation and analysis in single entity, e.g. lab-on-a-chip concept
• CPC Class Codes: B01L 2300/0654 Lenses; Optical fibres
• CPC Class Codes: B01L 2300/0681 Filter
• CPC Class Codes: B01L 2300/087 Multiple sequential chambers
• CPC Class Codes: B01L 2300/123 Flexible; Elastomeric
• CPC Class Codes: B01L 2300/1827 using resistive heater
• CPC Class Codes: B01L 2300/1844 using fans
• CPC Class Codes: B01L 2400/0487 fluid pressure, pneumatics
• CPC Class Codes: B01L 2400/0655 pinch valves
• CPC Class Codes: B01L 3/502707 characterised by the manufacture of the container or its components by shaping or joining plastic parts B29C59/00, B29C65/00; by laminating B32B37/00; manufacture of microstructural devices in general B81C
• CPC Class Codes: B01L 3/502715 characterised by interfacing components, e.g. fluidic, electrical, optical or mechanical interfaces
• CPC Class Codes: B01L 3/502738 characterised by integrated valves microvalves F16K99/0001
• CPC Class Codes: B01L 7/52 with provision for submitting samples to a predetermined sequence of different temperatures, e.g. for treating nucleic acid samples amplification or hybridisation processes per se C12Q1/68; controlling sequential reactions for synthesis B01J19/0046
• CPC Class Codes: B01L 7/525 with physical movement of samples between temperature zones
• CPC Class Codes: C12Q 1/6806 : Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay C12Q1/6804 takes precedence
• CPC Class Codes: F16K 2099/0084 : Chemistry or biology, e.g. "lab-on-a-chip" technology
• CPC Class Codes: F16K 99/0005 : Lift valves

Abstract

A system and method for processing and detecting nucleic acids from a set of biological samples, comprising: a molecular diagnostic module configured to receive nucleic acids bound to magnetic beads, isolate nucleic acids, and analyze nucleic acids, comprising a cartridge receiving module, a heating/cooling subsystem and a magnet configured to facilitate isolation of nucleic acids, a valve actuation subsystem including an actuation substrate, and a set of pins interacting with the actuation substrate, and a spring plate configured to bias at least one pin in a configurations, the valve actuation subsystem configured to control fluid flow through a microfluidic cartridge for processing nucleic acids, and an optical subsystem for analysis of nucleic acids; and a fluid handling system configured to deliver samples and reagents to components of the system to facilitate molecular diagnostic protocols.

Claims

1. A system for processing and detecting nucleic acids using a cartridge with a fluidic pathway, the system comprising:

a cartridge platform configured to receive the cartridge, the cartridge platform comprising an access region configured to align with the fluidic pathway;

a valve actuation subsystem comprising;

a pin comprising a first end, a second end, and a displacement region, the pin actuatable along a displacement axis extending through the first end, the second end, and the access region;

a spring, coupled to the displacement region of the pin, that biases the pin along the displacement axis; and

an actuation substrate comprising a groove and a protrusion, the actuation substrate translatable along an actuation axis perpendicular to the displacement axis;

wherein the system is operable between;

a closed configuration, wherein the groove is aligned with the displacement region and the first end of the pin extends through the access region; and

an open configuration, wherein the protrusion is aligned with the displacement region and the first end of the pin is displaced away from the access region.

2. The system of claim 1, wherein the cartridge comprises a set of fluidic pathways, wherein the fluidic pathway is one of the set of fluidic pathways, the system further comprising a magnet, arranged inferior the cartridge platform, that applies a magnetic field spanning at least three fluidic pathways of the set of fluidic pathways.

3. The system of claim 1, further comprising an optical subsystem, arranged superior the cartridge platform, that comprises a set of units, wherein each unit includes an excitation filter, an emission filter, a photodetector aligned with the emission filter, and a dichroic mirror.

4. The system of claim 1, further comprising a linear actuator, mounted to the cartridge platform, that actuates the cartridge platform along the displacement axis.

5. The system of claim 1, further comprising the cartridge, wherein the cartridge includes a set of sample port-reagent port pairs, a fluid port, a set of detection chambers, a waste chamber, and a set of fluidic pathways, wherein the fluidic pathway is one of the set of fluidic pathways, wherein each fluidic pathway is coupled to a sample port-reagent port pair of the set of sample port-reagent port pairs, the fluid port, and a detection chamber of the set of detection chambers, wherein the fluidic pathway is occluded by the pin in the closed configuration.

6. The system of claim 1, wherein the valve actuation subsystem further comprises a pin housing surrounding the pin, the pin housing comprising a stop region, proximal the displacement region, that halts pin displacement toward the access region along the displacement axis.

7. The system of claim 1, wherein the valve actuation subsystem further comprises a substrate actuator that displaces the actuation substrate along the actuation axis between a first substrate position and a second substrate position along the actuation axis, wherein the actuation substrate is in the first substrate position when the system is in the closed configuration, and is in the second substrate position when the system is in the open configuration.

8. The system of claim 1, wherein the displacement region of the pin is arranged proximal the second end, between the first end and second end, and comprises a slot defined along a length of the pin.

9. The system of claim 8, wherein the actuation substrate passes through the slot, wherein the groove and the protrusion are defined along a face of the actuation substrate parallel the actuation axis.

10. The system of claim 9:

wherein the spring is mounted to the second end of the pin and biases the pin toward the access region;

wherein the slot further comprises a pin protrusion extending from an end of the slot proximal the second end; and

wherein the face of the actuation substrate is proximal the pin protrusion.

11. The system of claim 10, wherein the protrusion and the pin protrusion each comprise a convex profile.

12. A system for processing a biological sample with a cartridge comprising a set of fluidic pathways, each fluidic pathway comprising an occlusion region, the system comprising:

a pin comprising a first end and a second end, the pin actuatable along a displacement axis between a first pin position and a second pin position, wherein the first end of the pin occludes the occlusion region of a fluidic pathway of the cartridge in the first pin position, and the first end of the pin does not occlude the access region of the fluidic pathway of the cartridge in the second pin position;

an actuation substrate comprising a first substrate feature and a second substrate feature, the actuation substrate actuatable between a first substrate position and a second substrate position; and

a pin-substrate interface aligning and energetically coupling at least one of the first substrate feature and the second substrate feature with the second end of the pin;

wherein the system is operable between;

a closed state, wherein the actuation substrate is in the first substrate position, the first substrate feature is aligned with the second end of the pin at the pin-substrate interface, and the pin is in the first pin position; and

an open state, wherein the actuation substrate is in the second substrate position, the second substrate feature aligned with the second end of the pin at the pin-substrate interface, and the pin is in the second pin position.

13. The system of claim 12, wherein the actuation substrate is actuatable between the first substrate position and the second substrate position along an actuation axis perpendicular to the displacement axis, the system further comprising an actuator coupled to the actuation substrate that actuates the actuation substrate along the actuation axis.

14. The system of claim 12, wherein the first substrate feature applies one of a neutral or negative force to the pin at the pin-substrate interface, and the second substrate feature applies a positive force to the pin at the pin-substrate interface.

15. The system of claim 14, wherein the first substrate feature comprises a groove, and the second substrate feature comprises a protrusion.

16. The system of claim 15, wherein the pin-substrate interface comprises a spring, coupled to the second end of the pin, that applies a spring force opposing the positive force and biases the pin towards the first pin position along the displacement axis.

17. The system of claim 16, wherein the pin-substrate interface further comprises a slot, defined by the pin, proximal the second end.

18. The system of claim 17, wherein the actuation substrate is actuatable between the first substrate position and the second substrate position along an actuation axis perpendicular to the displacement axis, wherein the actuation substrate extends through the slot parallel the actuation axis, wherein the groove and the protrusion are defined along a face of the actuation substrate.

19. The system of claim 18,

wherein the groove and protrusion are defined along an inferior face of the actuation substrate;

wherein the slot comprises a pin protrusion at an inferior end of the slot; and

wherein the spring is mounted to the second end of the pin, inferior the slot.

20. The system of claim 12, further comprising:

a cartridge platform configured to receive the cartridge, wherein the valve actuation subsystem is arranged inferior the cartridge platform;

a magnet, arranged inferior the cartridge platform, that applies a magnetic field spanning at least three fluidic pathways of the set of fluidic pathways;

an optical subsystem, arranged superior the cartridge platform, that comprises an excitation filter, an emission filter, a photodetector aligned with the emission filter, and a dichroic mirror optically connected to the emission filter, cartridge, and the photodetector; and

a linear actuator, mounted to the cartridge platform, that actuates the cartridge platform along the displacement axis.