Apparatus and method of analyzing nucleic acid molecules

• US 4,870,004 A
• Filed: 06/08/1984
• Issued: 09/26/1989
• Est. Priority Date: 06/08/1984
• Status: Expired due to Fees

• Current Assignee: Autoseo Incorporated
• Original Assignee: Autoseq Incorporated
• Inventors: Conroy, Thomas J., Graham, Martin H.
• Primary Examiner(s): Warden, Robert J.
• Assistant Examiner(s): NOT, DEFINED
• Application Number:
  US06/618,572
• Time in Patent Office: 1,936 Days
• Field of Search: 204/299 R, 204/180 R, 204/182.3, 204/182.7, 204/182.8, 204/182.9, 935/85, 935/86, 935/87, 435/6, 210/243, 422/70, 436/162
• US Class Current: 204/461
• CPC Class Codes: C12Q 1/6816 characterised by the detection means C12Q1/6804 takes precedence
• CPC Class Codes: C12Q 1/6869 Methods for sequencing
• CPC Class Codes: C12Q 2523/107 Chemical cleaving agents
• CPC Class Codes: C12Q 2565/137 Chromatographic separation

Abstract

Apparatus and method of sequencing nucleic acid molecules, including DNA and RNA molecules. Several copies of the molecules are labeled with a radioactive tracer and divided into separate groups. The groups of molecules are then each chemically cleaved to produce labeled fragments of varying length which terminate in predetermined bases. The groups of fragments are then introduced into separate columns of electrophoresis gel and voltage is applied across the gel to cause subgroups of the fragments to propagate along the columns at a velocity which is a function of the length of the fragments in the subgroup. Radiation detectors are used to detect the subgroups of fragments as they pass a predetermined position along the gel column, and data corresponding to the order in which the subgroups of fragments are detected is stored in a memory. Such data is then used to determine the bases sequence of the molecules.

Claims

1. A method of analyzing the structure of nucleic acid molecules comprising the following steps:

providing several copies of said nucleic acid molecule to be analyzed

separating said copies into separate groups of molecule fragments;

introducing said groups into separate electrophoresis gel channels;

applying a voltage across said gel channels so that each of the groups becomes separating along the channels into subgroups of the fragments, with the fragments which comprise one of the subgroups having the same number of bases.

detecting when an individual one of the subgroups passes a predetermined position along said gel channels and producing an output signal in response thereto; and

storing data which represent said signals.

2. The method of claim 1 wherein said voltage applied across said gel channels is periodically adjusted to maintain a substantially constant fragment velocity when said subgroups pass said predetermined position.

3. The method of claim 1 further comprising the step of labeling said molecule fragments with a radioactive tracer and wherein said detecting step is carried out utilizing a radiation detector.

4. The method of claim 1 wherein said gel channels include a first section where said groups of molecule fragments are introduced followed by a second section at said predetermined position and wherein, subsequent to said step of applying a voltage, said method includes the additional step of increasing the velocity of said subgroups of molecule fragments when said subgroups exit said first section and enter said second section so as to increase the separation between said subgroups of molecule fragments at said predetermined position.

5. The method of claim 4 wherein said step of increasing the velocity of said subgroups of molecule fragments is carried out by providing said electrophoresis gel channels having said first sections with a relatively large cross-sectional area and said second sections with a relatively small cross-sectional area.

6. A method of analyzing the structure of DNA molecules comprising the following steps:

providing several copies of strands of DNA molecules to be analyzed;

labeling said copies with a tracer;

separating said copies into at least three different groups;

chemically cleaving said groups in a predetermined manner into fragments;

introducing said fragmented groups into separate electrophoresis gel channels;

applying a voltage across said gel channels;

detecting said tracer as groups of said fragments having the same number of bases pass a predetermined position along said gel channel;

producing a separate output signal for each of said gel channels in response to said detected fragments; and

storing data which represent said output signals.

7. The method of claim 6 wherein said voltage across each of said gel channels is independently controlled and said tracer is a radioactive tracer.

8. A method of analyzing the structure of nucleic acid molecules comprising the following steps:

providing fragments of said nucleic acid molecule to be analyzed, the fragments having a varying number of bases;

introducing the fragments into an electrophoresis gel channel;

applying a voltage across said gel channel so that the fragments become distributed along the channel into separate groups of fragments having the same number of bases;

detecting the passage of an individual one of the groups across a predetermined position on said one gel channel and producing an output signal in response thereto; and

storing data which represent said output signal.

9. The method of claim 8 wherein said voltage applied across said gel channel is periodically adjusted to maintain a substantially constant fragment velocity when said groups of fragments pass said predetermined position.

10. The method claim 8 further comprising the step of labeling said molecule fragments with a radioactive tracer and wherein said detecting step is carried out utilizing a radiation detector.

11. The method of claim 8 wherein said gel channel includes a first section where said molecule fragments are introduced followed by a second section at said predetermined position and wherein, subsequent to said step of applying a voltage, said method includes the additional step of increasing the velocity of said molecule fragments when said fragments exit said first section and enter said second section so as to increase the separation between said groups of molecule fragments at said predetermined position.

12. The method of claim 11 wherein said step of increasing the velocity of said molecule fragments is carried out by providing said electrophoresis gel channel having said first section with a relatively large cross-sectional area and said second section with a relatively small cross-sectional area.