Search PubMed⌕ Search

SEARCH · Search PubMed

Results for “STR”

Search indexed PubMed citations on genomics, clinical trials, systematic reviews and public health. Explore titles, authors and supplied subject terms, then open the PubMed record.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 235 records · Page 13Linked to original sources
PubMed2003

[Genetic studies of 15 STR loci in Guangxi Miao population].

OBJECTIVE: The study was carried out to investigate genetic polymorphism of 15 STR loci in Guangxi Miao population. METHORDS: DNA samples from southern China 274 Miao unrelated individuals were screened by using AmpFlSTR Identifiler PCR Amplification Kit and 3100 Genetic Analyzer. RESULTS: These 15 loci meet the Hardy-Weinberg expectations. The matching probability of the 15 STR loci was 5.04 x 10(-17), and combined paternity of exclution was 0.9999993 in Guangxi Miao population. CONCLUSION: Our results showed Identifiler PCR Amplification systems of 15 STR loci were useful enough to forensic case work in Guangxi Miao population.

Alleles↗
PubMed2004

[Genetic polymorphisms of three STR loci on chromosome X and their forensic application in a Chinese Han population].

OBJECTIVE: To understand the allele structure and genetic polymorphism at three STR loci on chromosome X in Chinese Han population and make an evalution of their forensic application. METHODS: EDTA-blood samples were collected from the unrelated individuals in Chengdu, China. After being extracted with Chelex method, the DNA samples were amplified by PCR technique. The PCR products were analyzed by PAG electrophoresis and the approach of automated fluorescence detection. Hardy-Weinberg equilibrium of females was tested and every forensic interested value was calculated. RESULTS: The polymorphisms of all 3 STR loci were obtained from 100 unrelated females and 120 unrelated males from Chinese Han ethnic group. Chi-square tests on the genotype frequencies in females did not reveal deviations from Hardy-Weinberg equilibrium. CONCLUSION: The obtained data are beneficial to understanding the population genetics of the three STR loci in Chinese Han population. For forensic genetics, the obtained data can be used to calculate the probabilities dealing with the paternity test and the individual identification.

China↗
PubMed2004

Enhanced kinship analysis and STR-based DNA typing for human identification in mass fatality incidents: the Swissair flight 111 disaster.

A bioinformatic tool was developed to assist with the victim identification initiative that followed the Swissair Flight 111 disaster. Making use of short tandem repeat (STR) DNA typing data generated with AmpFlSTR Profiler Plus (PP) and AmpFlSTR COfiler(CO) kits, the software systematically compared each available STR genotype with every other genotype. The matching algorithm was based on the search for: (i) direct matches to genotypes derived from personal effects; and (ii) potential kinship associations between victims and next-of-kin, as measured by allele sharing at individual loci. The software greatly assisted parentage analysis by enabling kinship evaluation in situations where complete parentage trios were unavailable and, in some situations, with distantly related relatives. Exclusion of fortuitous kinship associations (FKA) was made possible through the recovery at the disaster site of at least one remains for every sought-after victim, and was incorporated into the kinship software. The data from the 13 combined STR loci produced 6 and 23 times fewer FKAs when compared with PP alone and AmpFlSTR Profiler (PR) alone, respectively. Identification leads or confirmations of identification were obtained for 218 victims for which DNA reference samples (personal effects and kin) had been submitted. Confirmation of an inferred kinship association was sought through frequency and likelihood calculations, as well as corroborative data from other identification modalities. The use of a simple, yet powerful, automated genotype comparison approach and the use of megaplexes with high power of discrimination (PD) values extended considerably the identification capabilities in the case of the Swissair disaster. The DNA typing identification modality proved to be a valuable component of the large arsenal of identification tools deployed in the aftermath of this disaster.

Accidents, Aviation↗
PubMed2004

[Polymorphisms on 15 STR loci of Han population in Yan'an].

OBJECTIVE: To investigate the polymorphisms of 15 STR loci of Han population in Yan'an. METHODS: Blood samples were obtained from 100 unrelated Han individuals in Yan'an. DNA templates were screened by AmpF/STR Identifiler kit and ABI3100Avant DNA analyzer. RESULTS: The allele frequencies of 15 STR loci ranged from 0.005 to 0.550, and the genotype frequencies ranged from 0.010 to 0.310. The combined match probability was 2.5x10(-17) and combined EPP was 0.999999999. CONCLUSIONS: The 15 STR loci used in this study were highly polymorphic in Han population in Yan'an and suitable for population study and forensic cases in this region.

Alleles↗
PubMed2004

Y-chromosome STR system, Y-PLEX 12, for forensic casework: development and validation.

The Y-PLEX 12 system, developed for use in human identification, enables simultaneous amplification of eleven polymorphic short tandem repeat (STR) loci, namely DYS392, DYS390, DYS385 a/b, DYS393, DYS389I, DYS391, DYS389II, DYS 19, DYS439 and DYS438, residing on the Y chromosome and Amelogenin. Amelogenin provides results for gender identification and serves as internal control for PCR. The validation studies were performed according to the DNA Advisory Board's (DAB) Quality Assurance Standards. The minimal sensitivity of the Y-PLEX 12 system was 0.1 ng of male DNA. The mean stutter values ranged between 3.76-15.72%. A full male profile was observed in mixture samples containing 0.5 ng of male DNA and up to 400 ng of female DNA. Amelogenin did not adversely affect the amplification of Y-STRs in mixture samples containing male and female DNA. The primers for the Y-STR loci present in Y-PLEX 12 are specific for human DNA and some higher primates. None of the primate samples tested provided a complete profile at all 11 Y-STR loci amplified with the Y-PLEX 12 system. Y-PLEX 12 is a sensitive, valid, reliable, and robust multiplex system for forensic analysis, and it can be used in human forensic and male lineage identification cases.

Amelogenin↗
PubMed2005

[Analysis on genetic polymorphism of 5 STR loci selected from X chromosome].

OBJECTIVE: To select short tandem repeats(STR) from X chromosome. METHODS: STR is a universal genetic marker that has changeable polymorphism and stable heredity in human genome. It is a specific DNA segment composed of 2-6 base pairs as its core sequence. It is an ideal DNA marker used in linkage analysis and gene mapping. In this study, 8 short tandem repeats were selected from two genomic clones on X chromosome by using BCM Search Launcher. Primers amplifying the STR loci were designed by using Primer 3.0 according to the unique sequence flanking the STRs. Polymorphisms of the short tandem repeats in Chinese population were evaluated by PCR amplification and PAGE. RESULTS: Five of these STRs were polymorphic. Chi-square test indicated that the distribution of genotypes agreed with Hardy-Weinberg equilibrium (P>0.05). CONCLUSION: Five polymorphic short tandem repeats have been identified on chromosome X and will be useful for linkage analysis and gene mapping.

Chromosomes, Human, X↗
PubMed2005

[Detection of engraftment evidence after allogeneic hematopoietic stem cell transplantation by STR-PCR].

The purpose of this study was to observe the chimera status of 15 patients received allogeneic hematopoietic stem cell transplantation by using STR-PCR method. DNA from peripheral blood or bone marrow of donors and recipients in different time were extracted, 5 STR loci with high polymorphism were amplified by PCR. The PCR products were analyzed by PAGE and silver staining. The results showed that 15 patients had different level of engraftment. 10 patients displayed complete chimerism, five patients showed mixed chimerism. 10 patients were keeping continuance of remission, 4 patients died and one patient relapsed but still alive. The decrease of donor DNA amounts in mixed chimerism foreshowed the early graft rejection or relapse. Incidence of I-II degree aGVHD high significantly correlated with mixed chimerism. It is concluded that STR-PCR is the sensitive and accurate method for analyzing the chimera status after allogeneic hematopoietic stem cell transplantation. Mixed chimerism is a prophetic role for leukemia relapse and chimera status guides the treatment.

Acute Disease↗
PubMed2002

[Study on 9 STR loci polymorphism from Chinese Yao ethnic group(Guangxi)].

Genetic polymorphism of nine STR loci was investigated from a Chinese Yao population based on STR Genescan. Sixty one alleles was determined for 9 loci, such as D3S1358,vWA,FGA,THO1,TPOX,CSF1P0,D5S818,D13S317 and D7S820 with their frequencies 0.0054-0.5924. The average heterozygosity(H) was 0.7357, polymorphism information content(PIC) was 0.6887, the accumulative discrimination power(DP) was 2.02x10(-10) and the probability of paternity exclusion(PPE) was 0.9999. These results suggested that the nine STR loci are very useful for human identification, such as analyzing forensic casework,establishing DNA databases, processing paternity test and studying gene natural resources.

English Abstract↗
PubMed2005

A novel method for STR-based DNA profiling using microarrays.

We describe a novel method for rapidly identifying and distinguishing between different DNA sequences using short tandem repeat (STR) analysis and DNA microarrays. The method can be used to deduce identity, length, and number of STRs of the target molecule. We refer to this technique as the "variable-length probe array" method for STR profiling (VLPA). The method involves hybridization of the unknown STR target sequence to a DNA microarray displaying complementary probes that vary in length to cover the range of possible STRs. A post-hybridization enzymatic digestion of the DNA hybrids is then used to selectively remove labeled single-stranded regions of DNA from the microarray surface. The number of repeats in the unknown target is then deduced based on the pattern of target DNA that remains hybridized to the array. This DNA profiling technique is useful for performing forensic analysis to uniquely identify individual humans or other species.

DNA↗
PubMed2005

[Genetic polymorphism analysis of 6 STR loci on the X chromosome in Xi'an Han population].

OBJECTIVE: To investigate the alleles and genotypes frequency of 6 short tandem repeat (STR) loci (DXS8378, DXS7132, DXS6789, DXS101, HPRTB and DXS7423) on the X chromosome in Han population. METHODS: The six X-chromosome STR loci were analyzed by PCR following polyacylamide gel electrophoresis and silver stain. RESULTS: Among 120 females from Xi'an Han population, the number of alleles in the 6 loci (DXS8378, DXS7132, DXS6789, DXS101, HPRTB and DXS7423) were 5, 6, 11, 10, 8, and 4 respectively; the number of genotypes in the 6 loci were 10, 17, 29, 32, 22, and 7 respectively; Exact tests demonstrated genotype frequencies in females had no departure from Hardy-Weinberg equilibrium. CONCLUSION: The six X-chromosome STR loci are appropriate for individual identification, paternity testing involving a female child and for study on related disease.

Alleles↗
PubMed2005

[Analysis of genetic polymorphism of 7 STR loci on chromosome 12 in Shaanxi Han populations].

To analyze the genetic polymorphism of 7 STR loci (D12S1718,D12S1675, D12S358, D12S367, D12S1638, D12S1646 and D12S1682) on chromosome 12 in Shaanxi Hans. EDTA-blood specimens were collected from 80 unrelated individuals from Chinese Han population in Shaanxi province. The DNA samples were extracted and relevant fragments were amplified by polymerase chain reaction (PCR). The PCR products were analyzed by ABI 3100 Genetic Analyzer. The number of alleles and genotypes observed at loci D12S1718, D12S1675, D12S358, D12S367, D12S1638, D12S1646 and D12S1682 were 7, 10, 8, 8, 6, 9, 11 for alleles and 10, 17, 18, 18, 14, 18, and 26 for genotypes, respectively. The heterozygosities for the 7 STR loci were 44.28%, 66.10%, 78.89%, 77.89%, 73.69%, 74.55% and 82.39%, respectively. The distribution of allele frequencies of 7 STR loci on chromosome 12 was consistent with Hardy-Weinberg equilibrium and relatively high genetic polymorphism was observed in Shaanxi Han population.

Adult↗
PubMed2005

Fungal DNA challenge in human STR typing of bone samples.

The present study focuses on possible cross-reaction of fungal DNA with human STR primers that may affect subsequent forensic DNA analysis of forensic samples. Specificity of human STR markers namely HUMAMEL, HUMCSF1PO, D8S306, HUMTH01, HUMvWA, HUMFES/FPS, HUMF13A01, HUMDHFRP2, HUMFGA and HUMTPOX was tested using DNA of 24 different filamentous fungal isolates obtained from exhumed bone samples. The specificity of these ten STR markers for human DNA was demonstrated. Presence of non-human DNA in five bone samples analyzed did not alter scoring of detected alleles. Notably, amplification was inhibited in the presence of a high proportion of fungal DNA compared to human DNA (1000 ng: 1 ng) in DNA mixture experiments. The results of the present study underscore the importance of carefully analyzing the presence of non-human biological contaminants that may affect DNA typing of environmentally challenged forensic samples to avoid spurious data interpretation.

Bone and Bones↗
PubMed2006

[Genetic polymorphisms of 10 X chromosome STR loci in a Chinese Tibetan population].

OBJECTIVE: To investigate the alleles and genotypes frequency of 10 short tandem repeat (STR) loci on the X chromosome(DXS7423, DXS8378, DXS6799, DXS7424, DXS7130, DXS7132, DXS6789, DXS101, DXS6804, DXS7133) of Tibetan individuals living in Xizang Autonomous Region, Southwest China. METHODS: The 10 X-chromosomal STR loci were analyzed with PCR, followed by polyacylamide gel electrophoresis and silver staining. RESULTS: Among unrelated Tibetan individuals, the numbers of alleles in the 10 X-STR loci(DXS7423, DXS8378, DXS6799, DXS7424, DXS7130, DXS7132, DXS6789, DXS101, DXS6804, DXS7133) were 5, 5, 5, 9, 7, 7, 11, 9, 5 and 4, respectively. The genotype frequencies in females were in accordance with Hardy-Weinberg equilibrium. CONCLUSION: The 10 X-chromosomal STRs loci are appropriate for individual identification, for paternity testing involving a female child, and for studies on related disease.

Asian People↗
PubMed2006

[Analysis of the multi-amplified 5 STR loci and their allelic distribution in both Han populations in Chengdu City and Yunnan province].

OBJECTIVE: To illuminate the multi-amplified 5 STR loci and their allelic distribution in Hans by means of STR-DNA typing with improved efficiency and decreased cost. METHODS: We have established an allelic ladder of D7S820, D13S317, D5S818, D3S1358 and Amelogenin loci via the cloning techniques. With this homemade allelic ladder, we established successfully a multiplexing polymerase chain reaction (PCR) method, followed by denaturing polyacrylamide gel electrophoresis (PAGE) and silver staining. DNA samples collected from 130 unrelated Han individuals in Yunnan and Chengdu were analyzed. The non-overlapping of the allelic fragments of the five loci allowed the detection to be accomplished successfully. RESULTS: No difference of the genotyping results of the single locus amplification and multiplexing was observed. The genotype distributions of 4 STR were in accordance with the Hardy-Weinberg equilibrium. 7, 7, 8 and 8 alleles of D7S820, D13S317, D5S818, and D3S1358 loci were observed in Yunnan Han population, as well as 8, 7, 8 and 7 alleles in Chengdu Han population respectively. No significant difference in the allele distribution of these loci was seen between these two Han populations. CONCLUSION: This multiplexing system with home-made allelic ladder has a high combined discrimination power and exclusion power. It is a valuable tool in forensic science practice.

Alleles↗
PubMed2006

[PCR-based STR genotyping of sweat latent fingerprint samples involved in cases].

OBJECTIVE: To study the extracting and genotyping method of sweat latent fingerprint samples involved in cases. METHOD: Chlex 100 extraction method was used to extract DNA. STR loci were typed after PCR amplification by Profiler Plus kit. RESULTS: All the sweat latent fingerprint samples involved in cases obtained reliable results of STR genotyping. CONCLUSION: It is very important to find and extract sweat latent fingerprint samples properly for STR genotyping.

DNA↗
PubMed2006

[Polymorphisms of eleven Y-chromosome STR loci and forensic application in Yunnan Han population].

OBJECTIVE: To abtain the genetic polymorphisms data of eleven Y-chromosome STR loci in Yunnan Han population, and to evaluate its forensic application values, which will provide the base data for forensic application. METHODS: DYS391, DYS389 I, DYS439, DYS389 II, DYS438, DYS437, DYS19, DYS392, DYS393, DYS390 and DYS385a/b loci were amplified by using Powerplex Y PCR amplification Kit and were analyzed by 310 genetic analyzer. 201 unrelated male individuals of Han population in Yunnan were investigated to determine the distributions of allele frequencies and haplotypes. RESULTS: 3, 5, 6, 8, 5, 4, 5, 8, 4, 7 alleles were found across the Y-STR loci except DYS38556 haplotypes were found across DYS385a/b locus. The minimum GD value was 0.4273 (DYS438), and the maximum was 0.9747 (DYS385a/b). 175 haplotypes were found, of which 154 were unique, 16 were found in 2 individuals, 5 were found in 3 individuals, and the observed haplotypes diversity value was 0.9984. CONCLUSION: The 11 Y-STR loci are highly polymorphic and are suitable for forensic personal identification and paternity testing in Yunnan Han population.

Alleles↗
PubMed1986

[The need for protein synthesis in UV-irradiated Escherichia coli cells for fixation of induced Str mutations].

The kinetics of accumulation of fixed Str mutations was determined during incubation in nutritional medium of Escherichia coli WP2 irradiated with 6.8 J/m2 either at log growth phase or after completion of DNA replication. Those Str mutations which lost ability for photoreactivation (fixation I) or susceptibility to antimutagenic activity of mfd-type (fixation II) were considered as fixed mutations. It was shown that both fixations occurred synchronously, starting in about 10 min after irradiation and being over in 40-50 min. In cells irradiated after completion of replication, fixation depended on protein synthesis de novo: chloramphenicol added to irradiated culture blocked fixation. An attempt to study the effect of chloramphenicol on fixation in a culture irradiated at the log phase failed, because of high lethal action of the antibiotic on such cells. Fixation could proceed in the presence of acriflavine. Possible mechanisms for fixation of Str mutations are discussed in connection with the fact of its dependence on protein synthesis.

Bacterial Proteins↗
PubMedDate not supplied

[Actinophage restriction and modification by Streptomyces hygroscopicus and Str. levoris cultures].

The capability for restriction and modification was studied in the cultures of Streptomyces hygroscopicus 0477 and Streptomyces levoris 1331, 2340, 2144 toward the active against them temperate phage and three polyphages. All these cultures were found to be capable of the restriction and modification of the temperate phage. Certain differences in the restriction and modification were established between Str. levoris 1331 and the two other cultures of this species. The culture 1331 could modify the temperate phage only with respect to itself rather than the two other cultures. The phage growing on the culture 1331 was restricted not only by the culture 0477, but also by the strains of Str. levoris 2340 and 2144. At the same time, the phage growing on the strains 2340 and 2144 gave the identical effectiveness of inoculation on any of these cultures, as well as on the culture 1331, and was restricted to the same degree by the culture 0477. One of the examined polyphages 14/3 was not restricted by any of the tested cultures. Two other polyphages SH4 and p4 were restricted only by the culture 2144. However, the modification by this culture was not observed. Among the studied cultures of Str. levoris, the culture 2144 was most capable of the restriction.

Bacteriophages↗