UV excitable energy transfer reagents

• US 20060269958A1
• Filed: 07/31/2006
• Published: 11/30/2006
• Est. Priority Date: 08/27/1999
• Status: Active Grant

• Current Assignee: Applera Corporation (Thermo Fisher Scientific Incorporated)
• Original Assignee: Applera Corporation (Thermo Fisher Scientific Incorporated)
• Inventors: Lee, Linda G.
• Granted Patent: US 7,378,517 B2
• Time in Patent Office: Days
• US Class Current: 435/6
• CPC Class Codes: C07H 19/10 with the saccharide radical esterified by phosphoric or polyphosphoric acids
• CPC Class Codes: C07H 19/20 with the saccharide radical esterified by phosphoric or polyphosphoric acids
• CPC Class Codes: C07H 21/00 Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids
• CPC Class Codes: C07H 21/04 with deoxyribosyl as saccharide radical
• CPC Class Codes: C09B 11/24 Phthaleins containing amino groups ; Phthalanes; Fluoranes; Phthalides; Rhodamine dyes; Phthaleins having heterocyclic aryl rings; Lactone or lactame forms of triarylmethane dyes
• CPC Class Codes: C12Q 1/6818 involving interaction of two or more labels, e.g. resonant energy transfer
• CPC Class Codes: C12Q 1/6869 Methods for sequencing
• CPC Class Codes: C12Q 2563/107 fluorescence
• CPC Class Codes: Y10T 436/143333 Saccharide [e.g., DNA, etc.]

Abstract

Novel energy transfer dyes which can be used with shorter wavelength light sources are provided. These dyes include a donor dye with an absorption maxima at a wavelength between about 250 to 450 nm and an acceptor dye which is capable of absorbing energy emitted from the donor dye. One of the energy transfer dyes has a donor dye which is a member of a class of dyes having a coumarin or pyrene ring structure and an acceptor dye which is capable of absorbing energy emitted from the donor dye, wherein the donor dye has an absorption maxima between about 250 and 450 nm and the acceptor dye has an emission maxima at a wavelength greater than about 500 nm.

Claims

1-45. -45. (canceled)

46. A fluorescently labeled reagent comprising:

a reagent selected from the group consisting of a nucleoside, nucleoside monophosphate, nucleoside diphosphate, nucleoside triphosphate, oligonucleotide and oligonucleotide analog, modified to be linked to an energy transfer fluorescent dye; and

an energy transfer fluorescent dye attached to the reagent, the energy transfer fluorescent dye including a donor dye which is a member of a class of dyes having a coumarin or pyrene ring structure; and

an acceptor dye capable of absorbing excitation energy emitted by the donor dye and emitting light in response, the acceptor dye having an emission maxima greater than about 500 nm.

47. The fluorescently labeled reagent according to claim 46 wherein the donor dye has an absorption maxima at a wavelength between about 250 and 450 nm.

48. The fluorescently labeled reagent according to claim 46 wherein the donor dye has an absorption maxima at a wavelength between about 300 and 450 nm.

49. The fluorescently labeled reagent according to claim 46 wherein the donor dye has an absorption maxima at a wavelength between about 350 and 400 nm.

50. The fluorescently labeled reagent according to claim 46 wherein the acceptor dye has an emission maxima at a wavelength greater than about 550 nm.

51. The fluorescently labeled reagent according to claim 46 wherein the acceptor dye has an emission maxima at a wavelength between about 500 and 700 nm.

52. The fluorescently labeled reagent according to claim 46 wherein the acceptor dye has an emission maxima at a wavelength at least about 150 nm greater than the absorption maxima of the donor dye.

53. The fluorescently labeled reagent according to claim 46 wherein the donor dye is selected from the group consisting of coumarin, pyrene and pyrene sulfonate.

54. The fluorescently labeled reagent according to claim 46 wherein the acceptor dye is a member of a class of dyes selected from the group consisting of fluorescein, rhodamine, asymmetric benzoxanthene, xanthene, cyanine, phthalocyanine and squaraine dyes.

55. The fluorescently labeled reagent according to claim 46 wherein the acceptor dye is selected from the group consisting of 4,7-dichlorofluorescein dyes, asymmetric benzoxanthene dyes, rhodamine, 4,7-dichiororhodamine dyes, carboxyrhodamines, N,N,N′

,N′

-tetramethyl carboxyrhodamines, carboxy R110, carboxy R6G, carboxy-X-rhodamines and Cy5.

56. The fluorescently labeled reagent according to claim 46 wherein the acceptor dye is selected from the group consisting of R110, RG6, TAMRA and ROX.

57. The fluorescently labeled reagent according to claim 46 further comprising a linker attaching the donor dye to the acceptor dye.

58. The fluorescently labeled reagent according to claim 57 wherein the linker linking the donor dye to the acceptor dye is such that the acceptor dye absorbs substantially all of the excitation energy emitted by the donor dye, the linker including a functional group selected from the group consisting of an alkene, diene, alkyne, a five and six membered ring having at least one unsaturated bond or a fused ring structure.

59. The fluorescently labeled reagent according to claim 58 wherein the linker functional group is a five or six membered ring selected from the group consisting of cyclopentene, cyclohexene, cyclopentadiene, cyclohexadiene, furan, thiofuran, pyrrole, isopyrole, isoazole, pyrazole, isoimidazole, pyran, pyrone, benzene, pyridine, pyridazine, pyrimidine, pyrazine oxazine, indene, benzofuran, thionaphthene, indole and naphthalene.

60. The fluorescently labeled reagent according to claim 46 wherein the reagent is selected from the group consisting of deoxynucleoside, deoxynucleoside monophosphate, deoxynucleoside diphosphate and deoxynucleoside triphosphate.

61. The fluorescently labeled reagent according to claim 60 wherein the deoxynucleotides are selected from the group consisting of deoxycytosine, deoxyadenosine, deoxyguanosine, and deoxythymidine.

62. The fluorescently labeled reagent according to claim 46 wherein the reagent is selected from the group consisting of dideoxynucleoside, dideoxynucleoside monophosphate, dideoxynucleoside diphosphate and dideoxynucleoside triphosphate.

63. The fluorescently labeled reagent according to claim 62 wherein the dideoxynucleotides are selected from the group consisting of deoxycytosine, deoxyadenosine, deoxyguanosine, and deoxythymidine.

64. The fluorescently labeled reagent according to claim 46 wherein the reagent is an oligonucleotide.

65. The fluorescently labeled reagent according to claim 64 wherein the oligonucleotide has a 3′

end which is extendable by using a polymerase.

66-70. -70. (canceled)