Method of targeted gene disruption, genome of hyperthermostable bacterium and genome chip using the same

• US 20060248617A1
• Filed: 08/29/2003
• Published: 11/02/2006
• Est. Priority Date: 08/30/2002
• Status: Abandoned Application

• Current Assignee: Japan Science And Technology Corpration
• Original Assignee: Japan Science And Technology Corpration
• Inventors: Atomi, Haruyuki, Imanaka, Tadayuki
• Application Number:
  US10/526,324
• Publication Number:
  US 20060248617A1
• Time in Patent Office: Days
• US Class Current: 800/289
• CPC Class Codes: C07K 14/195 from bacteria
• CPC Class Codes: C12Q 1/02 involving viable microorganisms
• CPC Class Codes: G01N 2333/195 from bacteria
• CPC Class Codes: G01N 2500/10 involving cells

Abstract

It is intended to provide an efficient and sure gene targeting method embodied at an arbitrary position in the genome of an organism and a kit therefor. It is also intended to provide a method for targeted-disruption of an arbitrary gene in the genome of an organism which comprises: 1) the step of providing the whole sequencial data of the genome of the organism; 2) the step of selecting at least one arbitrary region in the sequence; 3) the step of providing a vector containing a sequence homologous with the region selected above and a marker gene; 4) the step of transforming the organism by the vector; and 5) the step of providing the organism under such conditions as allowing homologous recombination. Moreover, the genome of a hyperthermostable bacterium and its array are provided.

Claims

1. A method for targeted-disruption of an arbitrary gene in the genome of a living organism, comprising the steps of:

A) providing information of the entire sequence of the genome of the living organism;

B) selecting at least one arbitrary region of the sequence;

C) providing a vector comprising a sequence complementary to the selected region and a marker gene;

D) transforming the living organism with the vector; and

E) placing the living organism in a condition allowing homologous recombination.

2. The method according to claim 1 wherein in step B, the region comprises at least two regions.

3. The method according to claim 1, wherein the vector further comprises a promoter.

4. The method according to claim 1 further comprising the step of detecting an expression product of the marker gene.

6. The method according to claim 1, wherein the maker is located outside of the selected region.

7. The method according to claim 1, wherein the genome is the genome of Thermococcus kodakaraensis KOD1.

5. The method according to claim 5 wherein the marker gene is located in the selected region.

8-51. -51. (canceled)

52. An RNAi molecule having a sequence homologous to a reading frame sequence wherein, when the reading frame of Table 2 is f-1, f-2 or f-3, the reading frame sequence has a sequence from the position of nucleic acid number (antisense strand, start) of SEQ ID NO:

1087 of Table 2, to the position of nucleic acid number (antisense strand, stop) or a sequence having at least 70% homology thereto.

53. The RNAi molecule according to claim 52, which is an RNA or a variant thereof comprising a double-stranded portion of at least 10 nucleotide length.

54. The RNAi molecule according to claim 52, comprising a 3′

overhang terminus.

55. The RNAi molecule according to claim 54, wherein the 3′

overhang terminus is a DNA having at least 2 nucleotides in length.

56. The RNAi molecule according to claim 54, wherein the 3′

overhang terminus is a DNA of two to four nucleotides in length.