Direct label transaminated DNA probe compositions for chromosome identification and methods for their manufacture
First Claim
1. A direct label probe composition for staining the DNA present in a chromosome or region of a chromosome comprising multiple DNA segments complementary to different portions of said chromosome or chromosome region to be detected wherein (a) said DNA segments include multiple fluorescent labels covalently linked to the DNA segments via transaminated cytosine sites and (b) 0.3 to 6 mole percent of bases in the DNA segments are fluorescently labeled.
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Accused Products
Abstract
Direct label probe compositions which stain DNA of a preselected single chromosome or region of a chromosome of a multi-chromosomal genome are provided that comprise mixed DNA segments which are covalently bound to fluorophore groups through linking groups. The mixed DNA segments are derived from the DNA present in the preselected chromosome or chromosome region. These probe compositions can be used concurrently or sequentially with other probe compositions.
159 Citations
16 Claims
- 1. A direct label probe composition for staining the DNA present in a chromosome or region of a chromosome comprising multiple DNA segments complementary to different portions of said chromosome or chromosome region to be detected wherein (a) said DNA segments include multiple fluorescent labels covalently linked to the DNA segments via transaminated cytosine sites and (b) 0.3 to 6 mole percent of bases in the DNA segments are fluorescently labeled.
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5. A direct label probe composition for detecting the presence by hybridization of DNA comprising a single preselected chromosomal entity of a multi-chromosome genome, said chromosomal entity being selected from the group consisting of (a) a whole chromosome, and (b) a region of a chromosome, said probe composition comprising:
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(a) a mixture of different DNA segments that are derived from the DNA sequences comprising said preselected chromosomal entity and that are complementary to DNA segmental portions occurring throughout said DNA sequences, said DNA segments having an average size in the range of 150 to 600 base pairs, and (b) said DNA segments being covalently substituted on 1 to 30 mole percent of the total deoxycytidine nucleotides thereof with a linking group, said linking group being additionally covalently bonded to a fluorophore group, wherein 0.3 to 6 mole percent of bases in the DNA segments are labeled with said fluorophore group, so that individual ones of such fluorophore-group containing DNA segments are hybridizable to said complementary DNA segmental portions for achieving substantially complete staining of said DNA sequences. - View Dependent Claims (6, 7, 8, 9, 10, 11, 12, 13, 14)
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15. A method for making a reagent for in situ detection of a chromosome comprising:
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(a) disrupting DNA complementary to the chromosome or region of the chromosome to be detected into fragments, (b) transaminating cytosine bases in said DNA fragments, and (c) covalently linking a fluorescent dye to said transaminated DNA fragments, wherein 0.3 to 6 mole percent of bases in the DNA fragments are fluorescently labeled.
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16. A process for making a probe composition which stains the DNA present in a single preselected chromosomal entity selected from the group consisting of (1) a whole chromosome, and (2) a region of a chromosome, said process comprising the steps of:
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(a) fragmenting into a mixture of segments a plurality of starting DNA sequences which are derived from the DNA that is present in said preselected chromosomal entity, said DNA segments having average sizes in the range of 150 to 600 base pairs; (b) transaminating said segments with a difunctional linking compound one of whose two functional substituents is reactive with deoxycytidine nucleotides, said transaminating being performed in an aqueous medium which has dissolved therein an alkali metal bisulfite catalyst and which has a pH in the range of 4.5 to 7.5, said aqueous medium being maintained at a temperature in the range of 20 to 60 degrees C. until 1 to 30 mole percent of the total deoxycytidine nucleotides existing in said segments have been substituted by one of said functional substituents, thereby producing transaminated segments; and (c) covalently bonding to the second remaining functional substituent of at least some of said so transaminated linking compounds a fluorescent compound which incorporates both at least one fluorophore substituent and also a reactive substituent which is reactive with said second functional substituent, said covalent bonding being carried out by contacting under aqueous liquid phase conditions said so transaminated segments with a substantial molar excess of said fluorescent compound while maintaining a temperature in the range of 4 to 50 degrees C., to produce a probe composition having 0.3 to 6 mole percent of bases in the DNA segments fluorescently labeled.
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Specification