Nucleic acid arrays of spatially discrete features on a surface

• US 9,677,069 B2
• Filed: 06/05/2015
• Issued: 06/13/2017
• Est. Priority Date: 07/02/2008
• Status: Active Grant

• Current Assignee: Illumina Cambridge Limited (Illumina Incorporated)
• Original Assignee: Illumina Cambridge Limited (Illumina Incorporated)
• Inventors: Rigatti, Roberto, Smith, Geoffrey Paul, Boutell, Jonathan Mark
• Primary Examiner(s): HORLICK, KENNETH R
• Application Number:
  US14/732,316
• Publication Number:
  US 20150337297A1
• Time in Patent Office: 739 Days
• Field of Search: 435 612, 435 912
• CPC Class Codes: B01J 19/0046 Sequential or parallel reactions, e.g. for the synthesis of polypeptides or polynucleotides; Apparatus and devices for combinatorial chemistry or for making molecular arrays synthesis methods per se C40B50/00
• CPC Class Codes: B01J 2219/00608 DNA chips
• CPC Class Codes: C12N 15/1068 Template (nucleic acid) mediated chemical library synthesis, e.g. chemical and enzymatical DNA-templated organic molecule synthesis, libraries prepared by non ribosomal polypeptide synthesis [NRPS], DNA/RNA-polymerase mediated polypeptide synthesis
• CPC Class Codes: C12Q 1/6837 using probe arrays or probe chips C12Q1/6874 takes precedence
• CPC Class Codes: C12Q 1/6874 involving nucleic acid arrays, e.g. sequencing by hybridisation
• CPC Class Codes: C12Q 2563/149 Particles, e.g. beads
• CPC Class Codes: C12Q 2563/161 Vesicles, e.g. liposome
• CPC Class Codes: C12Q 2565/537 characterised by the capture oligonucleotide acting as a primer
• CPC Class Codes: C12Q 2565/543 characterised by the use of two or more capture oligonucleotide primers in concert, e.g. bridge amplification

Abstract

The present invention provides methods for creating an array of features on a surface based on content transferred from a plurality of beads to the surface. Nucleic acid content can be transferred using a method including the steps of (a) providing a surface having one or more primer oligonucleotides attached to the surface; (b) providing a pool of beads, wherein beads in the pool have a plurality of templates attached thereto, the plurality comprising multiple copies of a single nucleic acid template sequence; (c) arraying the beads onto the surface by hybridizing the templates to the primer oligonucleotides; and (d) extending the primers to produce copies of the templates attached to the surface.

Claims

1. An array comprising spatially discrete nucleic acid features on a surface, wherein each spatially discrete feature comprises two or more different amplification primers, each of the two or more different amplification primers having a different sequence attached to the surface, and wherein each spatially discrete feature is separated from any other discrete feature such that amplified sequences are unable to spread outside the area of the feature, wherein the array of spatially discrete features comprises an average center-to-center distance that is less than two times the diameter of a feature.

2. The array of claim 1, wherein the surface is flat or planar.

3. The array of claim 1, wherein the surface comprises wells, depressions, pillars, ridges or channels.

4. The array of claim 1, wherein the surface comprises wells.

5. The array of claim 1, wherein the surface comprises a hydrogel.

6. The array of claim 1, wherein the array further comprises amplified nucleic acids.

7. The array of claim 5, wherein the spatially discrete nucleic acid features on the surface are of similar size to each other.

8. The array of claim 1, wherein at least one or more of the amplification primers comprise the sequence set forth in one or more of SEQ ID NOs:

1-4.

9. The array of claim 1, wherein at least one or more of the amplification primers comprise the sequence set forth SEQ ID NO:

1.

10. The array of claim 1, wherein at least one or more of the amplification primers comprise the sequence set forth SEQ ID NO:

2.

11. The array of claim 1, wherein at least one or more of the amplification primers comprise the sequence set forth SEQ ID NO:

3.

12. The array of claim 1, wherein at least one or more of the amplification primers comprise the sequence set forth SEQ ID NO:

4.