Method for processing tissue samples
This disclosure provides methods for producing a sample of subcellular organelles, particularly nuclei, from a tissue. In some embodiments, this disclosure provides a method of processing a tissue sample involves performing enzymatic/chemical disruption of tissue in a chamber to produce disrupted tissue comprising released cells and/or nuclei and debris; separating the released cells and/or nuclei from the debris therein; and moving the released cells and/or nuclei. In some instances, the method comprises mechanical disruption of the tissue sample.
1. A method of preparing a sample, comprising:
(a) introducing a tissue or cell sample into a chamber such that the tissue or cell sample is in a liquid medium that is in contact with a non-porous grinding stator within the chamber;
(b) introducing a tissue disruptor comprising disruptor grinding features that protrude from a surface of the tissue disruptor into the chamber;
(c) performing mechanical disruption of the tissue or cell sample in the chamber, wherein the mechanical disruption is conducted by grinding the tissue or cell sample between the disruptor grinding features and the grinding stator to produce (i) released cells or released subcellular organelles and (ii) debris;
(d) separating the released cells or the released subcellular organelles from a portion of the debris; and
(e) collecting the released cells or released subcellular organelles in a liquid suspension.
2. The method of claim 1 , further comprising:
(f) analyzing the released cells or released subcellular organelles.
3. The method of claim 2 , wherein the grinding stator comprises stator grinding features that access an interior region of the chamber.
4. The method of claim 3 , wherein the mechanical disruption is further conducted by grinding the tissue or cell sample between a surface of the tissue disruptor and the stator grinding features.
5. The method of claim 2 , wherein the analyzing the released cells or released subcellular organelles comprises performing optical imaging to measure titer, clumping, viability, or a combination thereof, of the released cells or the released subcellular organelles.
6. The method of claim 2 , wherein the analyzing the released cells or released subcellular organelles comprises performing sequencing of DNA or RNA derived from the released cells or released subcellular organelles.
7. The method of claim 2 , wherein analyzing the released cells or released subcellular organelles comprises performing single cell or single nuclei sequencing of DNA or RNA derived from the released cells or released subcellular organelles.
8. The method of claim 1 , wherein the disruptor grinding features comprise multiple teeth positioned on a surface of the tissue disruptor.
9. The method of claim 1 , wherein the mechanical disruption comprises use of a buffer comprising at least one reagent selected from the group consisting of: a detergent; an enzyme; and an RNase inhibitor.
10. The method of claim 1 , wherein the mechanical disruption comprises use of a buffer comprising a detergent that lyses cells but not nuclei.
11. The method of claim 1 , wherein the mechanical disruption comprises moving the tissue disruptor up and down, and rotating the tissue disruptor.
12. The method of claim 1 , wherein the chamber is situated in a cartridge comprising an instrument interface.
13. The method of claim 1 , wherein the tissue disruptor slideably moves within the chamber.
14. The method of claim 1 , wherein the tissue disruptor comprises a cap that releasably engages with an instrument.
15. The method of claim 1 , wherein the chamber is operably connected to a temperature regulation element that controls temperature in the chamber.
16. The method of claim 1 , wherein the separating the released cells or the released subcellular organelles from the portion of the debris comprises moving the liquid suspension into a strainer chamber comprising a strainer or filter.
17. The method of claim 1 , wherein the providing a tissue sample or cell sample comprises providing a tissue sample.
18. The method of claim 17 , wherein the tissue sample comprises an organ or organ fragment.
19. The method of claim 18 , wherein the organ or organ fragment is a kidney, lung, spleen, liver, gut, or fragment thereof.
20. The method of claim 17 , wherein the tissue sample comprises cancerous tissue.
21. The method of claim 17 , wherein the tissue sample comprises frozen tissue.
22. The method of claim 1 , wherein the released cells or released subcellular organelles comprise released cells.
23. The method of claim 1 , wherein the released cells or released subcellular organelles comprise released subcellular organelles.
24. The method of claim 23 , wherein the released subcellular organelles comprise released mitochondria or released ribosomes.
25. The method of claim 23 , wherein the released subcellular organelles comprise released nuclei.
26. The method of claim 1 , further comprising monitoring and adjusting a force applied to the tissue or cell sample by the tissue disruptor.
27. The method of claim 1 , wherein the separating the released cells or the released subcellular organelles from the portion of the debris is automated.
28. The method of claim 1 , wherein the chamber is situated in a cartridge comprising an instrument interface, the cartridge is engaged with the instrument, and the instrument actuates the tissue disruptor to perform mechanical disruption and moves liquids into and out of the chamber.
29. The method of claim 1 , wherein the grinding stator is stationary.
30. The method of claim 1 , wherein the grinding stator is movable.
31. The method of claim 1 , wherein the chamber comprises an outlet port positioned above the disruptor grinding features when the tissue disruptor is fully depressed within the chamber.
32. The method of claim 31 , further comprising displacing the released cells or released subcellular organelles to a level of the outlet port by depressing the tissue disruptor towards the bottom of the chamber, thereby allowing the released cells or released subcellular organelles to access the outlet.
33. The method of claim 1 , comprising producing and collecting released cells.
34. The method of claim 1 , comprising producing and collecting released subcellular organelles.
35. A method of analyzing cells comprising:
(a) introducing a tissue or cell sample into a chamber such that the tissue or cell sample is in a liquid medium that is in contact with a grinding stator within the chamber;
(b) introducing a tissue disruptor comprising disruptor grinding features that protrude from a surface of the tissue disruptor into the chamber, wherein:
i. the tissue disruptor comprises a portion configured as a disk or cylinder that fits within the chamber;
ii. the chamber comprises a space between the portion of the tissue disruptor configured as a disk or cylinder and a wall of the chamber, and
iii. the chamber further comprises a port positioned above the disruptor grinding features when the tissue disruptor is fully depressed;
(c) performing mechanical disruption of the tissue or cell sample in the chamber, wherein the mechanical disruption is conducted by grinding the tissue or cell sample between the disruptor grinding features and the grinding stator to produce (i) released cells or released subcellular organelles and (ii) debris;
(d) separating the released cells or the released subcellular organelles from a portion of the debris; and
(e) collecting the released cells or released subcellular organelles in a liquid suspension.
36. The method of claim 35 , wherein the collecting the cells or released subcellular organelles comprises applying pressure or suction to move the cells or released subcellular organelles out of the chamber through the port.
37. The method of claim 35 , comprising producing and collecting released cells.
38. The method of claim 35 , comprising producing and collecting released subcellular organelles.
39. The method of claim 35 , wherein the chamber comprises a cylindrical portion, and the disk or cylinder fits within the cylindrical portion of the chamber.