Analysis of the data was performed using genemapper software version 3. Powerplex y23 system and yfiler plus pcr amplification kit. The 23 ystr systems include the 11 core loci recommended by the swgdam. An enhanced ystr multiplex for casework and database applications. Ystr haplotype reference database yhrd is a searchable worldwide database of ystr haplotypes in various formats along with tools build upon their. For forensic labs, the most common application of y strs is in criminal cases such as sexual assault, where evidence samples are difficult to resolve with traditional autosomal str analysis due to low amounts of male dna present in a high background of female dna. Softgenetics software powertools for genetic analysis. Other applications for y strs include tracing paternal lineages to aid in missing persons investigations and historical studies and to help link families through genetic genealogy. Thus the ability of the uhd multiplex to distinguish individual male samples surpasses that of the two commercially available multiplex. This study aimed at estimating the lebanese ystr allele and haplotype frequencies in 502 nonrelated males using the yfiler kit applied biosystems which includes the nine minimal ystr haplotype. The kit contains all 12 loci in powerplex y system, the additional 5 loci found in ampf l str yfiler, plus 6 new loci. Estimation of allele and haplotype frequencies for 23 ystr. Recently, ystr typing up to 16plex in a single reaction has become commercially available e. Str yfiler pcr amplification kit applied biosystems, that permits the simultaneous amplification of all the markers included in the actually used european extended haplotype, dys19, dys189i, dys389ii, dys390, dys391, dys392, dys393, dys385iii.
Ychromosome strs ychromosome strs are demonstrating value in the forensic identification of male dna from sexual assault cases. Ystr reference databases thermo fisher scientific us. Amplified products were separated on an applied biosystems. Data were collected using data collection software version 3. Y str analysis focuses on short tandem repeats strs found on the y chromosome, only carried by male individuals. Aug 03, 2008 electrophoresis of the pcr products, together with genescan500 internal lane size standard liz500 for size determination, was performed on the abi prism 3100 avant genetic analyzer applied biosystems to separate ystr alleles. Amplified dna was separated on an abi3 dna genetic analyzer applied biosystems and analyzed using genemapper idv3. Allele frequencies and population data for 17 ystr loci included in a new commercial kit that has recently been available, the ampf. Data, applied biosystems, foster city, california, or the nist 1036 revised u. Dna profiling of hungarian king bela iii and other skeletal. Allele frequencies and population data for 17 ystr loci. Consolidated ystr database 32,972 haplotypes with 11 loci.
Aug 01, 2007 in comparison, the two commercially available ystr multiplex kits, promegas powerplex y and applied biosystems ampflstr yfiler, produced discriminatory capacities of only 87. Investigations, testing mutations and standardization. Released by applied biosystems in dec 2004 3 dye colors 12. Powerplex y23 system is a 23loci, 5color ystr multiplex designed for genotyping of database, paternity and forensic casework samples. Haplotype diversity of 17 ystr loci in a chinese han population. Genetic polymorphisms of 17 ychromosomal short tandem repeat.
Commercially available ystr multiplexes incorporating 1217 loci are currently used in forensic casework promegas powerplex y and applied biosystems. Thus, large databases of multilocus ystr haplotypes need. Ystr diversity in the swedish population and its implication. An investigation of admixture in an australian aboriginal y.
Amplified products were separated on an applied biosystems 3500xl genetic analyzer 1. Haplotype frequencies and genetic diversities were. An ultrahigh discrimination y chromosome short tandem. Creating and managing effective ystr databases promega. Genetic characterization of 27 y str loci in the native population of ashaninka from peru d. The software can also set up direct amplification from swabs and card punches.
Manually enter the haplotypehaplotypes to search for. Depending on the informative value and complexity of the. This study aimed at estimating the lebanese ystr allele and haplotype. Other applications for ystrs include tracing paternal lineages to aid. The ystr alleles were designated according to the international society for forensic genetics isfg recommendations 2. All the str amplifications were performed in a geneamp 9700 thermal cycler applied biosystems. Ystr haplotype frequency estimates are based on the us ystr database release 4. For forensic labs, the most common application of ystrs is in criminal cases such.
In the desired markers pulldown list, select a standard ladder allele value e. After heating to 95 c for 3 min on a heating block and snapcooling for 3 min in a metal block in a 20 c freezer, the prepared samples were injected sequentially onto an applied biosystems 3 genetic analyzer at 3 kv for 2, 5 and 10 seconds 6. Once a match is identified by the codis software, the laboratories involved in the match. Genemarker software is compatible with output files from all major sequencing systems, including abiprism, applied biosystems seqstudio, and promega spectrum compact ce systems genetic analyzers, as well as custom primers or commercially available 46 dye chemistries. If you dont know how to set up an excel, openoffice or csvspreadsheet, please see our example or read our instructions. Sep 12, 2017 ystr mutations in 100 fatherson pairs. Information sharing occurs between state and local databases. Genetic characterization of 27 ystr loci in the native population of ashaninka from peru d. Y chromosome strs y chromosome strs are demonstrating value in the forensic identification of male dna from sexual assault cases.
Commercially available kits for ystr testing include the powerplex y system with 12 ystr loci and applied biosystems ampflstr yfiler kit, which includes the powerplex y loci plus five additional loci for a total of 17 ystr loci. Powerplex y23 system is a 23loci, 5color ystr multiplex designed for genotyping forensic casework samples, database samples and paternity samples. Inhouse control along with the kit control was also used. However, all loci in powerplex 12 loci and mentype kit keywords. Croatian national reference ystr haplotype database.
Ystr haplotyping, that is multiplex analysis of several ystrs with capillary electrophoresis ce, was applied to 100 fatherson pairs to test for ystr. This could lead to unexpected results when uploading the file to the website. Data was analyzed by using gene mapper idx software applied biosystems, foster city, ca, usa. Applied biosystems 2004a ampflstr identifiler pcr amplification kit. If you dont know how to export your samples using applied biosystems genemapper ididx please read our instructions. Development of a ystr 12plex pcr system and haplotype. Endpoint fluorescent data were captured using the software sequence detection system version 2. Dna casework technical procedures table of contents. Amplified products were separated on an applied biosystems 3500xl genetic. In genemapper idx software and genemapper id software there is an issue where the loci may not be ordered properly in the exported file used for upload of the batch profiles for search.
The following databases allow dna labs to search and estimate the ystr haplotype frequency across populations for forensic and paternity casework. Codis was designed to compare a target dna record against the dna records contained in the database. Ystr analysis focuses on short tandem repeats strs found on the y chromosome, only carried by male individuals. List of ystr markers 530 words exact match in snippet view article find links to article forensic labs usually use powerplex y promega corporation and yfiler applied biosystems kits that examine 12 or 17 ystrs, respectively. List of ystr markers 530 words exact match in snippet view article find links to article forensic labs usually use powerplex y promega corporation and yfiler applied biosystems kits that examine 12. Jun 21, 2019 developmental validation of the yfiler plus pcr amplification kit. In the complete dataset, 287 different haplotypes were identified of which 274 were unique. An ultrahigh discrimination y chromosome short tandem repeat. Applied biosystems 2001 ampflstr identifiler pcr amplification kit users manual. Dna amplification of the 23 ystr loci was performed using two commercial kits.
Pcrs were composed and run according to the kit protocols with 34 cycles. Welcome to the yfiler haplotype database user directions. Pdf croatian national reference ystr haplotype database. A reference ychromosome short tandem repeat str haplotype database is needed for ystr match interpretation as well as for national and regional characterization of populations. Chromosome information resources on the nist strbase website largest y. Applied biosystems 1998 abi prismtm genescan analysis software 3. Depending on the informative value and complexity of the data, genequest will interrogate each run on the most reliable and uptodate software genotyping platforms. New database software for calculating statistical values in forensic deoxyribonucleic acid dna typing is presented. The backseat cutting and door taken from the cab were detected to be positive for blood. Ampflstr yfiler kit applied biosystems was used to analyse the ychromosomal strs. This software can be applied to various tasks including i person. Jul 01, 2016 typing was carried out using abi 3 genetic analyser applied biosystems and the analysis was performed using genemapper id software v4. Yfiler haplotype database 11,393 haplotypes with 17 loci. Ystr testing is an established tool in the forensic casework, paternity testing and genealogy communities.
Nov 01, 2012 ampf l str yfiler tm kit applied biosystems, foster city, ca is widely used as commercial multiplex kit for y. Typing was carried out using abi 3 genetic analyser applied biosystems and the analysis was performed using genemapper id software v4. Life technologiesapplied biosystems globalfiler 6dye liz600 size standard. Dys19, dys390, dys391, dys392, dys393, dys389iii, dys385ab plus 14 other ystr loci. Applied biosystems quantifiler trio dna quantification kit and str kit globalfiler pcr. The most common haplotype was found 3 times corresponding to a population frequency of 1. A reference y chromosome short tandem repeat str haplotype database is needed for y str match interpretation as well as for national and regional characterization of populations. Ystr haplotyping, that is multiplex analysis of several ystrs with capillary electrophoresis ce, was applied to 100 fatherson pairs to test for y. In forensic casework, y chromosome short tandem repeat markers ystrs are often used to identify a male donor dna profile in the presence of excess quantities of female dna, such as is found in many sexual assault investigations. The amplification was performed in an ht7900 applied biosystems with 95 c for 10 min, 40 cycles at 95 c for 20 s60 c for 1 min, and a final extension at 72 c for 7 min. Genetic characterization of 27 ystr loci in the native. Genetic diversities of 23 ychromosome short tandem repeat. Genetic polymorphisms of 17 ychromosomal short tandem. Pdf database software for analysis of statistical values in.
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