Alternative dye-labeled primers for automated DNA sequencing
First Claim
1. A method for distinguishing polynucleotide sequences in a hybridization method of DNA sequencing, said method comprising the steps of:
- synthesizing a first, a second, a third and a fourth class of oligonucleotides, wherein all of said classes of oligonucleotides have a same length, said first, second, third and fourth classes of oligonucleotides differ from the oligonucleotides of each other class by one nucleotide base at a 3'"'"', a 5'"'"' or an internal position, and each oligonucleotide of the first class has a dideoxyadenosine at said position and is labeled with a first fluorophore;
each oligonucleotide in the second class has a dideoxycytidine at said position and is labeled with a second fluorophore;
each oligonucleotide in the third class having a dideoxyguanosine at said position and is labeled with a third fluorophore; and
each oligonucleotide in the fourth class has a dideoxythymidine at said position and is labeled with a fourth fluorophore;
wherein at least one of said fluorophore is a 4,4-difluoro-4-bora-3A,4A-diaza-s-indacene (BODIPY®
) fluorophore;
hybridizing said oligonucleotides to a single-stranded DNA target immobilized to a solid support, wherein said solid support is in a grid format, to form a hybridized product;
washing said hybridized product to remove any unhybridized oligonucleotide or target;
illuminating with an illumination beam the solid support, said illumination beam being capable of causing said BODIPY®
fluorophores to fluoresce; and
identifying the classes of polynucleotides in the bands by the fluorescence or absorption spectrum of the dyes.
3 Assignments
0 Petitions
Accused Products
Abstract
Methods for the use of a class of dyes for improved DNA sequencing are provided. A new class of dyes, BODIPY® fluorophore, has been described recently. The parent heterocyclic molecule of the BODIPY® fluorophore is a dipyrrometheneboron difluoride compound which is modified to create a broad class of spectrally-discriminating fluorophores. The present invention provides methods for the use of BODIPY® fluorophore-labeled DNA. BODIPY® fluorophore have improved spectral characteristics compared to conventional fluorescein and rhodamine dyes. BODIPY® fluorophore have narrower band width, insensitivity to solvent or pH, and improved photostability, thus, BODIPY® fluorophores lead to improved DNA sequencing and/or detection in any method where electrophoresis and detection of DNA is required. Additionally, the spectral properties of the BODIPY® fluorophores are sufficiently similar in wavelength and intensity to be used with conventional equipment known in the art.
-
Citations
3 Claims
-
1. A method for distinguishing polynucleotide sequences in a hybridization method of DNA sequencing, said method comprising the steps of:
-
synthesizing a first, a second, a third and a fourth class of oligonucleotides, wherein all of said classes of oligonucleotides have a same length, said first, second, third and fourth classes of oligonucleotides differ from the oligonucleotides of each other class by one nucleotide base at a 3'"'"', a 5'"'"' or an internal position, and each oligonucleotide of the first class has a dideoxyadenosine at said position and is labeled with a first fluorophore;
each oligonucleotide in the second class has a dideoxycytidine at said position and is labeled with a second fluorophore;
each oligonucleotide in the third class having a dideoxyguanosine at said position and is labeled with a third fluorophore; and
each oligonucleotide in the fourth class has a dideoxythymidine at said position and is labeled with a fourth fluorophore;
wherein at least one of said fluorophore is a 4,4-difluoro-4-bora-3A,4A-diaza-s-indacene (BODIPY®
) fluorophore;hybridizing said oligonucleotides to a single-stranded DNA target immobilized to a solid support, wherein said solid support is in a grid format, to form a hybridized product; washing said hybridized product to remove any unhybridized oligonucleotide or target; illuminating with an illumination beam the solid support, said illumination beam being capable of causing said BODIPY®
fluorophores to fluoresce; andidentifying the classes of polynucleotides in the bands by the fluorescence or absorption spectrum of the dyes. - View Dependent Claims (2, 3)
-
Specification