Systems for bioagent indentification

• US 9,194,877 B2
• Filed: 07/15/2010
• Issued: 11/24/2015
• Est. Priority Date: 07/17/2009
• Status: Active Grant

• Current Assignee: Ibis Biosciences Incorporated
• Original Assignee: Ibis Biosciences Incorporated
• Inventors: Hofstadler, Steven A., Gutierrez, Jose R., Hannis, James C., Drader, Jared J., Bare, Rex O., Smith, Jeffrey C., Gleason, Paul J., Miller, Robert D., Oberkramer, Kevin S., Nathanson, Jared, Bergold, Ronald K.
• Primary Examiner(s): HOBBS, MICHAEL L
• Application Number:
  US12/837,191
• Publication Number:
  US 20120115213A1
• Time in Patent Office: 1,958 Days
• Field of Search: 435/287.2, 422/68.1
• US Class Current: 1/1
• 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: C12Q 1/6806 Preparing nucleic acids for analysis, e.g. for polymerase chain reaction [PCR] assay C12Q1/6804 takes precedence
• CPC Class Codes: C12Q 1/686 Polymerase chain reaction [PCR]
• CPC Class Codes: G01N 2035/00534 Mixing by a special element, e.g. stirrer
• CPC Class Codes: G01N 27/72 by investigating magnetic variables
• CPC Class Codes: G01N 35/00871 Communications between instruments or with remote terminals
• CPC Class Codes: G01N 35/0092 Scheduling
• CPC Class Codes: G01N 35/0095 introducing urgent samples with priority, e.g. Short Turn Around Time Samples [STATS]
• CPC Class Codes: G01N 35/0098 involving analyte bound to insoluble magnetic carrier, e.g. using magnetic separation magnetic particles used in immunoassays G01N33/54326; magnetic separation in general B03C
• CPC Class Codes: G01N 35/025 having a carousel or turntable for reaction cells or cuvettes
• CPC Class Codes: G01N 35/026 having blocks or racks of reaction cells or cuvettes

Abstract

The present invention provides systems and methods for analysis of samples, particularly biological and environmental sample to detect biomolecules of interest contained therein. A variety of system components are described herein, including, but not limited to, components for sample handling, mixing of materials, sample processing, transfer of materials, and analysis of materials. The invention further provides mechanisms for combining and integrating the different components and for housing, moving, and storing system components or the system as a whole. The systems may include any one or more or all of these components. The system finds particular use when employed for analysis of nucleic acid molecule using mass spectrometry, however, the invention is not limited such specific uses.

Claims

1. A system, comprising:

at least one sample container handling component that comprises at least one non-priority sample container storage unit and at least one priority sample container storage unit that each store at least one sample container that is configured to contain one or more samples;

at least one mixing station that comprises at least one mixing container and at least one mixing mechanism that is configured to mix at least one composition comprising magnetically responsive particles disposed in the mixing container, wherein said mixing container comprises a cartridge that comprises;

at least one body structure comprising one or more surfaces that define a cavity having upper and lower portions;

at least one rotatable member extending at least partially along an axis that is substantially horizontally disposed in the upper portion of the cavity; and

at least one protrusion extending outward from the rotatable member and into the lower portion of the cavity;

at least one sample processing component that comprises;

at least one sample processing unit that comprises;

at least one sample processing vessel that is configured to contain at least one sample comprising at least one magnetically responsive particle;

at least one magnet that generates, or is configured to generate, at least one magnetic field at least proximal to the sample processing vessel; and

at least one carrier mechanism operably connected to the sample processing unit, which carrier mechanism is configured to move the sample processing unit to one or more locations;

at least one detection component that is configured to detect at least one detectable property of at least one sample component;

at least one material transfer component that is configured to transfer material to and/or from the sample container handling component, the mixing station, the sample processing component, and/or the detection component;

at least one controller operably connected to, and configured to effect operation of, the sample container handling component, the mixing station, the sample processing component, and/or the detection component; and

,

at least one base composition database.

2. The system of claim 1, wherein the non-priority sample container storage unit and the priority sample container storage unit are each configured to store at least one microplate.

3. The system of claim 1, wherein the sample processing vessel comprises at least one cuvette.

4. The system of claim 1, wherein the magnet is in a substantially fixed position.

5. The system of claim 1, wherein the detection component comprises at least one mass spectrometer.

6. The system of claim 1, wherein the detection component comprises at least one biopolymer sequencing component.

7. The system of claim 1, comprising at least one sample preparation component and/or at least one nucleic acid amplification component.

8. The system of claim 1, comprising:

at least one sample container processing area;

at least one non-priority sample container holding area; and

,

at least one sample container transport mechanism that is configured to transport one or more sample containers between the non-priority sample container storage unit, the priority sample container storage unit, the priority sample container storage unit, the sample container processing area, and/or the non-priority sample container holding area.

9. The system of claim 8, wherein the controller is configured to selectively direct the sample container transport mechanism to:

transport a non-priority sample container from the non-priority sample container storage unit to the sample container processing area;

position the non-priority sample container while in the sample container processing area;

transport the non-priority sample container from the sample container processing area to the non-priority sample container holding area when a priority sample container is stored in the priority sample container storage unit;

transport the priority sample container from the priority sample container storage unit to the sample container processing area;

position the priority sample container while in the sample container processing area;

transport the priority sample container from the sample container processing area to the non-priority sample container storage unit or to the priority sample container storage unit;

transport the non-priority sample container from the non-priority sample container holding area to the sample container processing area; and

transport the non-priority sample container from the sample container processing area to the non-priority sample container storage unit.

10. The system of claim 1, wherein the mixing mechanism comprises at least one cartridge receiver/rotation assembly that comprises:

at least one cartridge support structure that supports the body structure of the cartridge; and

a rotational mechanism operably connected to the rotatable member.

11. The system of claim 10, wherein the controller is configured to selectively direct the rotational mechanism to rotate the rotatable member in an initiation mode or in a maintenance mode, wherein a rate of rotation of the rotatable member is greater in the initiation mode than in the maintenance mode.

12. The system of claim 1, wherein the sample processing unit comprises:

at least a first motor operably connected to the sample processing vessel, which first motor is configured to rotate the sample processing vessel around a central longitudinal axis of the sample processing vessel;

at least one support member operably connected to the first motor; and

,

at least a second motor operably connected to the support member, which second motor is configured to rotate the sample processing vessel between at least first and second positions, wherein at least the first position is within magnetic communication with the magnet when the magnet generates the magnetic field.

13. The system of claim 12, wherein the controller is configured to effect one or more of:

the magnet to generate the magnetic field, the first motor to rotate the sample processing vessel, the second motor to rotate the sample processing vessel between the first and second positions, the carrier mechanism to move the sample processing unit to the one or more locations, or the material transfer component to transfer the material to and/or from the sample processing vessel.

14. The system of claim 12, wherein the controller is configured to effect the first motor to rotate the sample processing vessel in one or more selectable modes.

15. A system, comprising:

at least one sample container handling component that comprises at least one non-priority sample container storage unit and at least one priority sample container storage unit that each store at least one sample container that is configured to contain one or more samples;

at least one mixing station that comprises at least one mixing container and at least one mixing mechanism that is configured to mix at least one composition comprising magnetically responsive particles disposed in the mixing container, wherein said mixing container comprises a cartridge that comprises;

at least one body structure comprising one or more surfaces that define a cavity having upper and lower portions;

at least one rotatable member extending at least partially along an axis that is substantially horizontally disposed in the upper portion of the cavity; and

at least one protrusion extending outward from the rotatable member and into the lower portion of the cavity;

at least one sample processing component that comprises;

at least one sample processing unit that comprises;

at least one sample processing vessel that is configured to contain at least one sample comprising at least one magnetically responsive particle;

at least one magnet that generates, or is configured to generate, at least one magnetic field at least proximal to the sample processing vessel; and

at least one carrier mechanism operably connected to the sample processing unit, which carrier mechanism is configured to move the sample processing unit to one or more locations;

at least one detection component that is configured to detect at least one detectable property of at least one sample component;

at least one material transfer component that is configured to transfer material to and/or from the sample container handling component, the mixing station, the sample processing component, and/or the detection component; and

at least one controller operably connected to, and configured to effect operation of, the sample container handling component, the mixing station, the sample processing component, and/or the detection component.

16. The system of claim 15, wherein the non-priority sample container storage unit and the priority sample container storage unit are each configured to store at least one microplate.

17. The system of claim 15, wherein the sample processing vessel comprises at least one cuvette.

18. The system of claim 15, wherein the magnet is in a substantially fixed position.

19. The system of claim 15, wherein the detection component comprises at least one mass spectrometer.

20. The system of claim 15, wherein the detection component comprises at least one biopolymer sequencing component.

21. The system of claim 15, comprising at least one sample preparation component and/or at least one nucleic acid amplification component.

22. The system of claim 15, comprising at least one database.

23. The system of claim 15, comprising:

at least one sample container processing area;

at least one non-priority sample container holding area; and

,

at least one sample container transport mechanism that is configured to transport one or more sample containers between the non-priority sample container storage unit, the priority sample container storage unit, the priority sample container storage unit, the sample container processing area, and/or the non-priority sample container holding area.

24. The system of claim 23, wherein the controller is configured to selectively direct the sample container transport mechanism to:

transport a non-priority sample container from the non-priority sample container storage unit to the sample container processing area;

position the non-priority sample container while in the sample container processing area;

transport the non-priority sample container from the sample container processing area to the non-priority sample container holding area when a priority sample container is stored in the priority sample container storage unit;

transport the priority sample container from the priority sample container storage unit to the sample container processing area;

position the priority sample container while in the sample container processing area;

transport the priority sample container from the sample container processing area to the non-priority sample container storage unit or to the priority sample container storage unit;

transport the non-priority sample container from the non-priority sample container holding area to the sample container processing area; and

transport the non-priority sample container from the sample container processing area to the non-priority sample container storage unit.

25. The system of claim 15, wherein the mixing mechanism comprises at least one cartridge receiver/rotation assembly that comprises:

at least one cartridge support structure that supports the body structure of the cartridge; and

a rotational mechanism operably connected to the rotatable member.

26. The system of claim 25, wherein the controller is configured to selectively direct the rotational mechanism to rotate the rotatable member in an initiation mode or in a maintenance mode, wherein a rate of rotation of the rotatable member is greater in the initiation mode than in the maintenance mode.

27. The system of claim 15, wherein the sample processing unit comprises:

at least a first motor operably connected to the sample processing vessel, which first motor is configured to rotate the sample processing vessel around a central longitudinal axis of the sample processing vessel;

at least one support member operably connected to the first motor; and

,

at least a second motor operably connected to the support member, which second motor is configured to rotate the sample processing vessel between at least first and second positions, wherein at least the first position is within magnetic communication with the magnet when the magnet generates the magnetic field.

28. The system of claim 27, wherein the controller is configured to effect one or more of:

the magnet to generate the magnetic field, the first motor to rotate the sample processing vessel, the second motor to rotate the sample processing vessel between the first and second positions, the carrier mechanism to move the sample processing unit to the one or more locations, or the material transfer component to transfer the material to and/or from the sample processing vessel.

29. The system of claim 27, wherein the controller is configured to effect the first motor to rotate the sample processing vessel in one or more selectable modes.