scholarly journals Micro-Spectrophotometric Nuclear DNA Analysis of Aspirated Cells from Thyroid Tumor

1981 ◽  
Vol 20 (1) ◽  
pp. 8-14
Author(s):  
Shosaku ABE ◽  
Shoichi INOUE ◽  
Yutaka OHSAKI ◽  
Makoto MURAO ◽  
Mikio ARAKAWA ◽  
...  
Keyword(s):  
Dna Analysis ◽  
Nuclear Dna ◽  
Thyroid Tumor

scholarly journals Analysis of ancient DNA from a prehistoric Amerindian cemetery

1999 ◽  
Vol 354 (1379) ◽  
pp. 153-159 ◽  
Author(s):  
Anne C. Stone ◽  
Mark Stoneking
Keyword(s):  
Ancient Dna ◽  
Dna Analysis ◽  
Nuclear Dna ◽  
Genetic Research ◽  
Hypervariable Region ◽  
Dna Preservation ◽  
European Contact ◽  
Novel Method ◽  
High Level ◽  
Central Illinois

The Norris Farms No. 36 cemetery in central Illinois has been the subject of considerable archaeological and genetic research. Both mitochondrial DNA (mtDNA) and nuclear DNA have been examined in this 700–year–old population. DNA preservation at the site was good, with about 70% of the samples producing mtDNA results and approximately 15% yielding nuclear DNA data. All four of the major Amerindian mtDNA haplogroups were found, in addition to a fifth haplogroup. Sequences of the first hypervariable region of the mtDNA control region revealed a high level of diversity in the Norris Farms population and confirmed that the fifth haplogroup associates with Mongolian sequences and hence is probably authentic. Other than a possible reduction in the number of rare mtDNA lineages in many populations, it does not appear as if European contact significantly altered patterns of Amerindian mtDNA variation, despite the large decrease in population size that occurred. For nuclear DNA analysis, a novel method for DNA–based sex identification that uses nucleotide differences between the X and Y copies of the amelogenin gene was developed and applied successfully in approximately 20 individuals. Despite the well–known problems of poor DNA preservation and the ever–present possibility of contamination with modern DNA, genetic analysis of the Norris Farms No. 36 population demonstrates that ancient DNA can be a fruitful source of new insights into prehistoric populations.

scholarly journals Discordance between Mitochondrial and Nuclear DNA Genes Suggests the Possibility of Hybridization of Indian and Southeast Asian Types of Oecophylla smaragdina (Fabricius) (Hymenoptera, Formicidae) in Bangladesh

2020 ◽  
Author(s):  
M. M. Rahman ◽  
S. Hosoishi ◽  
K. Ogata
Keyword(s):  
Dna Analysis ◽  
Nuclear Dna ◽  
Nuclear Gene ◽  
Southeast Asian ◽  
Phylogenetic Study ◽  
Tropical Islands ◽  
Oecophylla Smaragdina ◽  
Mtdna Sequences ◽  
Mitochondrial Dna Analysis ◽  
Shed Light

Background: Oecophylla smaragdina is distributed from India, SE Asia and Australia including many tropical Islands. A recent phylogenetic study based on mitochondrial DNA analysis reveals that Bangladesh is the overlapping zone of both Indian and Southeast Asian type of O. smaragdina. These two different lineages of Indian and SE Asian type have the opportunities of creating the zone of contacts, but no such data was found. In this study, shed light was given to reveal the chance of hybridized colony of O. smaragdina in Bangladesh. Methods: To asses the hybridization scenario, 28 O. smaragdina colony from 27 localities in Bangladesh were analyzed using Longwave length Rhodopsin (LWRh) nuclear gene sequences and was compared with the mtDNA sequences, which was collected from the same localities and deposited into NCBI GenBank. Results: The inconsistency between mitochondrial and nuclear gene types was observed from two colonies of the overlapped zone of contact. These two colonies were identified as SE Asian type by mtDNA analysis however, by nuclear DNA analysis; it was identified as Indian type. These significant discrepancies within the colony suggested the possibility of hybridization of weaver ant in Bangladesh.

scholarly journals Developmental Validation of a MPS Workflow with a PCR-Based Short Amplicon Whole Mitochondrial Genome Panel

Genes ◽  
2020 ◽  
Vol 11 (11) ◽  
pp. 1345
Author(s):  
Jennifer Churchill Cihlar ◽  
Christina Amory ◽  
Robert Lagacé ◽  
Chantal Roth ◽  
Walther Parson ◽  
...  
Keyword(s):  
Mitochondrial Genome ◽  
Validation Studies ◽  
Dna Analysis ◽  
Nuclear Dna ◽  
Massively Parallel Sequencing ◽  
Whole Genome ◽  
Developmental Validation ◽  
Average Maximum ◽  
Variant Frequency ◽  
Sensitivity Specificity

For the adoption of massively parallel sequencing (MPS) systems by forensic laboratories, validation studies on specific workflows are needed to support the feasibility of implementation and the reliability of the data they produce. As such, the whole mitochondrial genome sequencing methodology—Precision ID mtDNA Whole Genome Panel, Ion Chef, Ion S5, and Converge—has been subjected to a variety of developmental validation studies. These validation studies were completed in accordance with the Scientific Working Group on DNA Analysis Methods (SWGDAM) validation guidelines and assessed reproducibility, repeatability, accuracy, sensitivity, specificity to human DNA, and ability to analyze challenging (e.g., mixed, degraded, or low quantity) samples. Intra- and inter-run replicates produced an average maximum pairwise difference in variant frequency of 1.2%. Concordance with data generated with traditional Sanger sequencing and an orthogonal MPS platform methodology was used to assess accuracy, and generation of complete and concordant haplotypes at DNA input levels as low as 37.5 pg of nuclear DNA or 187.5 mitochondrial genome copies illustrated the sensitivity of the system. Overall, data presented herein demonstrate that highly accurate and reproducible results were generated for a variety of sample qualities and quantities, supporting the reliability of this specific whole genome mitochondrial DNA MPS system for analysis of forensic biological evidence.

Selection and Nuclear DNA Analysis of Cell Hybrids between Daucus carota and Oryza sativa

1985 ◽  
Vol 118 (5) ◽  
pp. 409-419 ◽  
Author(s):  
C. Sala ◽  
M.G. Biasini ◽  
C. Morandi ◽  
E. Nielsen ◽  
B. Parisi ◽  
...  
Keyword(s):  
Oryza Sativa ◽  
Daucus Carota ◽  
Dna Analysis ◽  
Nuclear Dna ◽  
Cell Hybrids

scholarly journals Flow cytometric DNA analysis of oral squamous cell carcinoma in Iraqi patients

2002 ◽  
Vol 8 (2-3) ◽  
pp. 393-403
Author(s):  
B. T. Garib ◽  
S. Al Ani ◽  
N. Al Alwan ◽  
I. S. Tillawi
Keyword(s):  
Squamous Cell Carcinoma ◽  
Oral Squamous Cell Carcinoma ◽  
Cell Carcinoma ◽  
Squamous Cell ◽  
Dna Analysis ◽  
Nuclear Dna ◽  
Treatment Strategies ◽  
Dna Index ◽  
Formalin Fixed Paraffin ◽  
Formalin Fixed Paraffin Embedded

We studied the DNA content, DNA index and cell cycle parameters that are reliable markers for assessing the proliferative activity and aggressiveness of malignancies. Cytometric DNA analysis was performed on formalin-fixed paraffin embedded sections from 36 Iraqi patients with oral squamous cell carcinoma. The results showed that 20 of 36 cases [55.5%] were diploid, while 15 cases [41.7%] were aneuploid. Significantly higher S-phase fractions and higher DNA indices characterized aneuploid tumours. Nuclear DNA analysis as part of the evaluation of oral squamous cell carcinoma will influence the selection of appropriate treatment strategies.

scholarly journals Genetic variability of farmed fur animals of the Canidae family assessed by nuclear and mitochondrial DNA analysis

2016 ◽  
Vol 72 (8) ◽  
pp. 505-510 ◽  
Author(s):  
Sylwia Nisztuk-Pacek
Keyword(s):  
Mitochondrial Dna ◽  
Dna Analysis ◽  
Nuclear Dna ◽  
Mitochondrial Gene ◽  
Genetic Material ◽  
Cox1 Gene ◽  
Phylogenetic Distance ◽  
Raccoon Dog ◽  
Study Results ◽  
Fur Animals

The aim of the study was to assess the biodiversity of farmed fur animals from the Canidae family (common fox, polar fox, and raccoon dog) using nuclear and mitochondrial markers. The study involved 434 animals. The biological material included whole peripheral blood or skin tissue. The isolated genetic material was subjected to qualitative and quantitative analyses. Mitochondrial DNA (mtDNA) gene fragments (COX1, COX2, CYTB) and nuclear DNA (nDNA) gene fragments (MSTN1, MSTN2, MSTN3, IGF1, GHR) were amplified with the PCR (polymerase chain reaction) technique. The amplicons obtained were sequenced or subjected to PCR-RFLP (restriction fragment length polymorphism) reaction, and bioinformatics analyses were performed. The interspecific analysis of the nDNA sequences revealed a total of 25 polymorphisms. On the other hand, the interspecific analysis of the mtDNA gene fragments identified 277 polymorphisms. The COX1 gene fragment exhibited the greatest variability. It was shown that the frequency of polymorphisms within the mitochondrial genome was almost 20-fold higher than that in the nuclear genome of the raccoon dog. It was found that the genetic distances revealed by the analysis of the mitochondrial gene fragments were similar to the results obtained by the nDNA analysis. The genetic distance between the raccoon and common fox was the greatest. The smallest phylogenetic distance was revealed between the two fox species. The study results indicate mitochondrial and nuclear genes may be alternatively used for determining the phylogenetic relationships between fur animals from the Canidae family.

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