scholarly journals Restricted PCR: amplification of an individual sequence flanked by a highly repetitive element from total human DNA

1994 ◽  
Vol 22 (15) ◽  
pp. 3251-3252 ◽  
Author(s):  
László G. Puskás ◽  
Berthold Fartmann ◽  
Sándor Bottka
Keyword(s):  
Repetitive Element ◽  
Pcr Amplification ◽  
Human Dna

Identification ofConiothyrium minitansisolates using PCR amplification of a dispersed repetitive element

Mycologia ◽  
2000 ◽  
Vol 92 (1) ◽  
pp. 46-53
Author(s):  
Alan L. Goldstein ◽  
Margaret A. Carpenter ◽  
Ross N. Crowhurst ◽  
Alison Stewart
Keyword(s):  
Repetitive Element ◽  
Pcr Amplification

Paucity of Novel Short Interspersed Repetitive Element (SINE) Families in Human DNA and Isolation of a Novel MER Repeat

Genomics ◽  
1993 ◽  
Vol 18 (2) ◽  
pp. 322-328 ◽  
Author(s):  
C.M. Rubin ◽  
E.P. Leeflang ◽  
F.P. Rinehart ◽  
C.W. Schmid
Keyword(s):  
Repetitive Element ◽  
Human Dna

Extent of digestion affects the success of amplifying human DNA from blood meals of Anopheles gambiae (Diptera: Culicidae)

2002 ◽  
Vol 92 (3) ◽  
pp. 233-239 ◽  
Author(s):  
W.R. Mukabana ◽  
W. Takken ◽  
P. Seda ◽  
G.F. Killeen ◽  
W.A. Hawley ◽  
...  
Keyword(s):  
Anopheles Gambiae ◽  
Blood Meal ◽  
Tandem Repeats ◽  
Success Probability ◽  
Negative Relationship ◽  
Pcr Amplification ◽  
Human Dna ◽  
Significant Difference ◽  
Tc 11 ◽  
Blood Meals

AbstractThe success of distinguishing blood meal sources of Anopheles gambiae Giles through deoxyribonucleic acid (DNA) profiling was investigated by polymerase chain reaction (PCR) amplification at the TC-11 and VWA human short tandem repeats (STR) loci. Blood meal size and locus had no significant effect on the success of amplifying human DNA from blood meals digested for 0, 8, 16, 24 and 32 h (P = 0.85 and 0.26 respectively). However, logistic regression found a significant negative relationship between time since ingestion and the success probability of obtaining positive PCR products among meals digested for between 8 and 32 h (P = 0.001). Approximately 80% of fresh blood meals were successfully profiled. After 8 h, the proportion of blood meals that could be successfully profiled decreased slowly with time after ingestion, dropping to below 50% after approximately 15 h. There was no significant difference in the success of amplifying human DNA from blood meals of mosquitoes killed at time 0 and 8 h after ingestion (P = 0.272).

scholarly journals DNA degradation in human teeth exposed to thermal stress

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Diego Lozano-Peral ◽  
Leticia Rubio ◽  
Ignacio Santos ◽  
María Jesús Gaitán ◽  
Enrique Viguera ◽  
...  
Keyword(s):  
Dna Typing ◽  
Pcr Amplification ◽  
Human Identification ◽  
Dna Degradation ◽  
Peak Height ◽  
Effect Of Temperature ◽  
Peak Height Ratio ◽  
Human Teeth ◽  
Human Dna ◽  
Identifiler Plus

AbstractHuman identification from burned remains poses a challenge to forensic laboratories, and DNA profiling is widely used for this purpose. Our aim was to evaluate the effect of temperature on DNA degradation in human teeth. Thirty teeth were exposed to temperatures of 100, 200, or 400 °C for 60 min. DNA was quantified by Real-Time qPCR (Quantifiler Human DNA Quantification Kit) and fluorescence spectroscopy (Qubit 3.0 Fluorometer). DNA degradation was evaluated by using STR markers (AmpFLSTR Identifiler Plus PCR Amplification Kit) to determine the allele and locus dropout, inter-locus balance, and degradation slope (observed (Oa) to expected (Ea) locus peak height ratio against the molecular weight). Most of the genomic DNA was degraded between 100 °C and 200 °C. At 100 °C, locus dropout ratios showed significant differences between the largest loci (FGA, D7S820, D18S51, D16S539, D2S1338 and CSF1PO) and amelogenin. Inter-locus balance values significantly differed between all dye channels except between NED and PET. The dropout ratio between D18S51 (NED) and amelogenin (PET) can be recommended for the evaluation of DNA degradation. The Oa/Ea regression model can predict locus peak heights in DNA degradation (R2 = 0.7881). These findings may be useful to assess the reliability of DNA typing for human identification in teeth subjected to prolonged incineration.

scholarly journals PCR amplification of a middle repetitive element detects larval stone crabs (Crustacea:Decapoda:Menippidae) in estuarine plankton samples

1999 ◽  
Vol 188 ◽  
pp. 161-168 ◽  
Author(s):  
JG MaKinster ◽  
JE Roberts ◽  
DL Felder ◽  
CA Chlan ◽  
M Boudreaux ◽  
...  
Keyword(s):  
Repetitive Element ◽  
Pcr Amplification ◽  
Estuarine Plankton

scholarly journals BIOM-58. ASSESSMENT OF ANEUPLOIDY BY REPETITIVE ELEMENT SEQUENCING TO DETECT PEDIATRIC AND ADULT BRAIN CANCERS IN PLASMA

2020 ◽  
Vol 22 (Supplement_2) ◽  
pp. ii14-ii14
Author(s):  
Christopher Douville ◽  
Austin Mattox ◽  
Cherie Blair ◽  
Chetan Bettegowda
Keyword(s):  
Chromosomal Abnormalities ◽  
Learning Algorithm ◽  
Repetitive Element ◽  
Pcr Amplification ◽  
Circulating Tumor Dna ◽  
Adult Brain ◽  
Supervised Machine Learning ◽  
Detection Methods ◽  
Grade Ii ◽  
Cns Neoplasms

Abstract Central nervous system cancers are the tenth leading cause of death for adults and the leading cause of cancer mortality in children. Non-invasive detection methods are desperately needed for earlier diagnosis and recurrence monitoring. Aneuploidy is common to nearly all cancers and can be detected in circulating tumor DNA (ctDNA) isolated from a variety of biofluids, including plasma. We utilized a sensitive PCR-based assay called Repetitive Element AneupLoidy Sequencing System (RealSeqS) on plasma samples from 90 patients diagnosed with the most common primary brain tumors including pilocytic astrocytoma, Grade II and III astrocytoma, glioblastoma (GBM), oligodendroglioma, ependymoma, and medulloblastoma to detect aneuploidy in ctDNA. RealSeqS employs PCR amplification and sequencing of ~350,000 genome-wide loci to identify chromosomal abnormalities and then aggregate them into a single Genome Aneuploid Score via a supervised machine learning algorithm. RealSeqS identified aneuploidy in 16 of 90 (17.8%) patients, including 20.9% (9/43) of anaplastic astrocytomas and GBMs, 57.1% (4/7) ependymomas, and 18.8% (3/16) pilocytic astrocytomas. Notably, ependymomas have significant chromothripsis and aneuploidy, which was reflected in our plasma analyses. Detection of aneuploidy also correlated with higher mortality rates at the time of last follow-up (p < 0.001). RealSeqS did not detect aneuploidy in the plasma of patients with Grade II astrocytoma, medulloblastoma, or oligodendroglioma. RealSeqS detected focal amplifications of 11q in 16.7% (2/12) and a focal deletion of TERT in 8.3% (1/12) of Grade III astrocytomas, focal deletions of EXT1 (14.3%; 1/7) and focal amplifications of EGFR (14.3%; 1/7) in the plasma of patients with ependymomas, and focal deletions of EXT1 (3.2%, 1/31) and focal amplifications of CDKN2A and CDKN2B in (3.2%; 1/31) GBM. These findings suggest detection of aneuploidy by RealSeqS may be a rapid, cheaper, and more sensitive alternative to low pass whole genome sequencing for the earlier detection of certain CNS neoplasms.

Identification of Coniothyrium minitans Isolates Using PCR Amplification of a Dispersed Repetitive Element

Mycologia ◽  
2000 ◽  
Vol 92 (1) ◽  
pp. 46 ◽  
Author(s):  
Alan L. Goldstein ◽  
Margaret A. Carpenter ◽  
Ross N. Crowhurst ◽  
Alison Stewart
Keyword(s):  
Repetitive Element ◽  
Pcr Amplification ◽  
Coniothyrium Minitans
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