The Use of Capillary Electrophoresis in Genotyping STR Loci

2003 ◽  
pp. 279-290
Author(s):  
John M. Butler
Keyword(s):  
Capillary Electrophoresis ◽  
Str Loci

scholarly journals A Novel SNP-STR System Based on a Capillary Electrophoresis Platform

2021 ◽  
Vol 12 ◽  
Author(s):  
Hui Jian ◽  
Li Wang ◽  
Meili Lv ◽  
Yu Tan ◽  
Ranran Zhang ◽  
...  
Keyword(s):  
Capillary Electrophoresis ◽  
Population Data ◽  
Small Region ◽  
Individual Identification ◽  
Amplification Refractory Mutation System ◽  
Dna Mixtures ◽  
Str Loci ◽  
Autosomal Str ◽  
Mutation System ◽  
Allele Specific

Various compound markers encompassing two or more variants within a small region can be regarded as generalized microhaplotypes. Many of these markers have been investigated for various forensic purposes, such as individual identification, deconvolution of DNA mixtures, or forensic ancestry inference. SNP-STR is a compound biomarker composed of a single nucleotide polymorphism (SNP) and a closely linked short tandem repeat polymorphism (STR), and possess the advantages of both SNPs and STRs. In addition, in conjunction with a polymerase chain reaction (PCR) technique based on the amplification refractory mutation system (ARMS), SNP-STRs can be used for forensic unbalanced DNA mixture analysis based on capillary electrophoresis (CE), which is the most commonly used platform in worldwide forensic laboratories. Our previous research reported 11 SNP-STRs, but few of them are derived from the commonly used STR loci, for which existing STR databases can be used as a reference. For maximum compatibility with existing DNA databases, in this study, we screened 18 SNP-STR loci, of which 14 were derived from the expanded CODIS core loci set. Stable and sensitive SNP-STR multiplex PCR panels based on the CE platform were established. Assays on simulated two-person DNA mixtures showed that all allele-specific primers could detect minor DNA components in 1:500 mixtures. Population data based on 113 unrelated Chengdu Han individuals were investigated. A Bayesian framework was developed for the likelihood ratio (LR) evaluation of SNP-STR profiling results obtained from two-person mixtures. Furthermore, we report on the first use of SNP-STRs in casework to show the advantages and limitations for use in practice. Compared to 2.86 × 103 for autosomal STR kits, the combined LR reached 7.14 × 107 using the SNP-STR method in this casework example.

Autosomal STR loci involved in exclusion during kinship expertise in the population of the Tyumen region

2021 ◽  
Vol 22 (2) ◽  
pp. 17-19
Keyword(s):  
Capillary Electrophoresis ◽  
Genetic Study ◽  
Molecular Genetic ◽  
Molecular Genetic Study ◽  
Str Loci ◽  
Autosomal Str ◽  
Group I ◽  
Group Ii ◽  
Its Polymorphism

Aim. To conduct an analysis of STR-loci in cases of exclusion during the paternity expertise, analyze the distribution of their frequencies. Materials and methods. 364 paternity expertises (non-exclusion and exclusion) were studied, in which a molecular genetic study of the blood of all participants was carried out by the method of capillary electrophoresis. Results. Paternity was excluded out of 364 examinations in 72 cases. Of these, in 68 cases, samples for research were taken from the mother, the alleged father and the child. Groups I and II were formed. Group I included examinations in which both the mother and the child were born in the Tyumen region (53 cases). Group II included examinations in which either the mother or the child was born outside the Tyumen region (15 cases). The frequency of distribution of the loci involved in exclusion and the most frequent alleles among those found were determined. Conclusion. It was found that the role of a locus in exclusion cases does not directly depend on its polymorphism and / or frequency of mutations. Establishing the loci most often involved in excluding kinship allows the use of predominantly such more informative loci or panels containing such loci when investigating kinship in a particular geographic locality.

scholarly journals Human CODIS STR Loci Profiling from HTS Data

2016 ◽  
Author(s):  
Darrell O. Ricke ◽  
Martha Petrovick ◽  
Johanna Bobrow ◽  
Tara Boettcher ◽  
Christina Zook ◽  
...  
Keyword(s):  
Capillary Electrophoresis ◽  
Sequence Data ◽  
Read Length ◽  
Single Nucleotide ◽  
Str Loci ◽  
Multiple Loci ◽  
Protocol Development ◽  
High Throughput Dna Sequencing ◽  
Improving Accuracy ◽  
Identification Analysis

AbstractHuman DNA identification is currently performed by amplifying a small, defined set of short tandem repeat (STR) loci (e.g. CODIS) and analyzing the size of the alleles present at those loci by capillary electrophoresis. High-throughput DNA sequencing (HTS) could enable the simultaneous analysis of many additional STR and single nucleotide polymorphism (SNP) loci, improving accuracy and discrimination. However, it is necessary to demonstrate that HTS can generate accurate data on the CODIS loci to enable backwards compatibility with the FBI NDIS database. Sequencing can also detect novel polymorphisms within alleles that migrate with identical sizes by capillary electrophoresis, improving allele discrimination, and enhancing human identification analysis. All CODIS alleles from an individual can be amplified in a single, multiplex PCR reaction, and combined with additional barcoded samples prior to sequencing. A computational tool for allele identification from multiplexed sequence data has been developed. With longer-read-length platforms, 99.6% allele calling accuracy can be achieved. In the course of STR sequencing protocol development, 12 novel allele sequences have been identified for multiple loci. Sequencing STR loci combined with SNPs will enable new forensic applications.

scholarly journals Forensic Application Evaluation of a Novel Canine STR System in Pembroke Welsh Corgi and Shiba Inu Groups

2021 ◽  
Vol 2021 ◽  
pp. 1-7
Author(s):  
Yating Fang ◽  
Jinlong Yang ◽  
Yajun Deng ◽  
Bofeng Zhu
Keyword(s):  
Capillary Electrophoresis ◽  
Linkage Disequilibrium ◽  
Tandem Repeat ◽  
Genetic Relationships ◽  
Forensic Application ◽  
Str Loci ◽  
Hardy Weinberg Equilibrium ◽  
Str System ◽  
Short Tandem ◽  
Forensic Parameters

Aim. To evaluate the forensic application values of 19 autosomal short tandem repeat (STR) loci in canines. Methods. The 19 STR loci in two canine groups (Pembroke Welsh Corgis, n = 200 ; Shiba Inus, n = 175 ) were analysed by the capillary electrophoresis platform. The allele frequencies and forensic parameters were calculated, and the genetic relationships between these two canine groups and a previously reported Labrador group were analysed. Results. These two canine groups conformed to the Hardy-Weinberg equilibrium at all STRs except for locus VGL3438 in the Pembroke Welsh Corgi group, and there was no linkage disequilibrium among pairwise loci at the 19 STRs. All STRs were polymorphic in the Pembroke Welsh Corgi and Shiba Inu groups, of which the locus C38 had the highest polymorphism. And it was found that the genetic relationship between the Pembroke Welsh Corgi and Labrador groups were closer in the three canine groups (Pembroke Welsh Corgi, Shiba Inu and Labrador). Conclusion. The 19 STR loci had high genetic polymorphisms and forensic application values in Pembroke Welsh Corgi and Shiba Inu groups.

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