The present invention is directed to methods and compositions for acquiring nucleotide sequence information of target sequences using adaptors interspersed in target polynucleotides. The sequence information can be new, e.g. sequencing unknown nucleic acids, re-sequencing, or genotyping. The invention preferably includes methods for inserting a plurality of adaptors at spaced locations within a target polynucleotide or a fragment of a polynucleotide. Such adaptors may serve as platforms for interrogating adjacent sequences using various sequencing chemistries, such as those that identify nucleotides by primer extension, probe ligation, and the like. Encompassed in the invention are methods and compositions for the insertion of known adaptor sequences into target sequences, such that there is an interruption of contiguous target sequence with the adaptors. By sequencing both “upstream” and “downstream” of the adaptors, identification of entire target sequences may be accomplished.

The present disclosure provides methods and kits for DNA fingerprinting or profiling by the combined analysis of short tandem repeats (STRs) from one or more autosomal chromosome STR loci; one or more X-chromosome STR loci and one or more Y-chromosome loci.

The present disclosure provides methods and kits for DNA fingerprinting or profiling by the combined analysis of short tandem repeats (STRs) from one or more autosomal chromosome STR loci; one or more X-chromosome STR loci and one or more Y-chromosome loci.

The present invention provides methods for tagging and/or identifying microorganisms. In some preferred embodiments, the microorganisms are bacteria. In some particularly preferred embodiments, the bacteria are members of the genus Streptococcus, while in other embodiments, the bacteria are members of other genera. The present invention also provides microorganisms tagged using the methods set forth herein. In some preferred embodiments, the tagged microorganisms are bacteria. In some particularly preferred embodiments, the tagged bacteria are members of the genus Streptococcus, while in other embodiments, the tagged bacteria are members of other genera.

The present invention provides methods for tagging and/or identifying microorganisms. In some preferred embodiments, the microorganisms are bacteria. In some particularly preferred embodiments, the bacteria are members of the genus Streptococcus, while in other embodiments, the bacteria are members of other genera. The present invention also provides microorganisms tagged using the methods set forth herein. In some preferred embodiments, the tagged microorganisms are bacteria. In some particularly preferred embodiments, the tagged bacteria are members of the genus Streptococcus, while in other embodiments, the tagged bacteria are members of other genera.

The present disclosure relates in some aspects to proteins and nucleic acids for probing analytes in a biological sample. In some embodiments, disclosed herein is a method in which detection probes (e.g., fluorescently labeled detection probes) may comprise a sequence of nucleobases on a synthetic backbone, the detection probes therefore generating a greater signal than reference detection probes having the same sequence of nucleobases on a sugar-phosphate backbone.

The present disclosure relates in some aspects to proteins and nucleic acids for probing analytes in a biological sample. In some embodiments, disclosed herein is a method in which detection probes (e.g., fluorescently labeled detection probes) may comprise a sequence of nucleobases on a synthetic backbone, the detection probes therefore generating a greater signal than reference detection probes having the same sequence of nucleobases on a sugar-phosphate backbone.

Oligonucleotide primers and probes for quantifying and/or detecting human male DNA in a forensic sample. The oligonucleotides are useful for amplifying a multicopy locus within the human Y-chromosome (MCL-Y) that shares at least 80% sequence identity to a sequence according to SEQ ID NO. 3 over a stretch of at least 60 base pairs. The oligonucleotides hybridize under stringent conditions to a nucleic acid having at least one sequence selected from the group consisting of SEQ ID NO. 3 to SEQ ID NO. 11 and/or SEQ ID NO. 17 to SEQ ID NO. 25. Kits including the oligonucleotide primers, probes and/or primer pairs and reagents for performing an amplification reaction on DNA recovered from a forensic sample are also disclosed.

Oligonucleotide primers and probes for quantifying and/or detecting human male DNA in a forensic sample. The oligonucleotides are useful for amplifying a multicopy locus within the human Y-chromosome (MCL-Y) that shares at least 80% sequence identity to a sequence according to SEQ ID NO. 3 over a stretch of at least 60 base pairs. The oligonucleotides hybridize under stringent conditions to a nucleic acid having at least one sequence selected from the group consisting of SEQ ID NO. 3 to SEQ ID NO. 11 and/or SEQ ID NO. 17 to SEQ ID NO. 25. Kits including the oligonucleotide primers, probes and/or primer pairs and reagents for performing an amplification reaction on DNA recovered from a forensic sample are also disclosed.

The present invention relates to melting analysis based methods for detecting the presence of a variant sequence in a target nucleic acid sequence comprising nucleotides of interest, in particular to detect microsatellite instability. The methods employ probes as reporter oligonucleotides with fluorophore and quencher and wherein the nucleotide sequence comprises nucleotides with hydrophobic intercalating residues. Also disclosed are methods for determining efficacy of a drug and for predicting the presence of a clinical disorder in an individual, as well as reporter oligonucleotides and kits for performing the methods.