Single Nucleotide Polymorphisms and Insertion–Deletions for Genetic Markers and Anchoring the Maize Fingerprint Contig Physical Map

Crop Science ◽  
2006 ◽  
Vol 46 (1) ◽  
pp. 12-21 ◽  
Author(s):  
I. Vroh Bi ◽  
M. D. McMullen ◽  
H. Sanchez‐Villeda ◽  
S. Schroeder ◽  
J. Gardiner ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Genetic Markers ◽  
Physical Map ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide

A pilot replication study of two PER3 single nucleotide polymorphisms as potential genetic markers for morning and evening earliness-lateness

2017 ◽  
Vol 48 (4) ◽  
pp. 531-540 ◽  
Author(s):  
Vladimir B. Dorokhov ◽  
Alexandra N Puchkova ◽  
Anton O. Taranov ◽  
Petr A. Slominsky ◽  
Valentin A. Vavilin ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Genetic Markers ◽  
Replication Study ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide

Analysis of 4 Single-Nucleotide Polymorphisms in Relation to Cervical Dysplasia and Cancer Development Using a High-Throughput Ligation-Detection Reaction Procedure

2011 ◽  
Vol 21 (9) ◽  
pp. 1664-1671 ◽  
Author(s):  
Helmut von Keyserling ◽  
Thomas Bergmann ◽  
Miriam Schuetz ◽  
Ursula Schiller ◽  
Jonas Stanke ◽  
...  
Keyword(s):  
Cervical Cancer ◽  
Single Nucleotide Polymorphisms ◽  
Genetic Markers ◽  
Cervical Dysplasia ◽  
Semantic Integration ◽  
Cancer Development ◽  
Large Sample Size ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Genetic Characteristics

BackgroundHost genetic characteristics and environmental factors may correlate with risk for cervical cancer development. Here we describe a retrospective screening study for single nucleotide polymorphisms (SNPs) in genetic markersTP53, MTHFR, CYP1A1,andCYP2E1in 749 patients.MethodsA multiplex ligation-dependent polymerase chain reaction approach was applied. We used archived material from human papillomavirus tests and correlated SNP genotypes to the corresponding clinical data. Semantic integration was used to identify and evaluate the clinical status from electronic health records.ResultsAn association with cervical cancer and high-grade dysplasia was found for the rare homozygous CC genotype (rs4646903) inCYP1A1(odds ratio [OR], 8.862). Odds ratios were also significantly elevated for heterozygousMTHFRCT genotype (rs1801133; OR, 1.457). No significant association was found inTP53(rs1042522) andCYP2E1(rs3813867). In addition, we found smokers at higher risk (OR, 2.688) and identified pregnancies as a significant risk factor (OR, 1.54).ConclusionsOur protocol enables a feasible way for further retrospective large sample size evaluation of potential genetic markers. This study revealed genetic associations of a rare SNP genotype with cervical dysplasia in one of the largest patient sample to date that warrants further investigation.

scholarly journals A Sequence-Ready Physical Map of Barley Anchored Genetically by Two Million Single-Nucleotide Polymorphisms

2013 ◽  
Vol 164 (1) ◽  
pp. 412-423 ◽  
Author(s):  
R. Ariyadasa ◽  
M. Mascher ◽  
T. Nussbaumer ◽  
D. Schulte ◽  
Z. Frenkel ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Physical Map ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide

scholarly journals Association of Maternal and Fetal Single-Nucleotide Polymorphisms in Metalloproteinase (MMP1, MMP2, MMP3, and MMP9) Genes with Preeclampsia

2018 ◽  
Vol 2018 ◽  
pp. 1-10 ◽  
Author(s):  
Agata Sakowicz ◽  
Michalina Lisowska ◽  
Lidia Biesiada ◽  
Magda Rybak-Krzyszkowska ◽  
Agnieszka Gach ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Genetic Markers ◽  
Gene Polymorphisms ◽  
Pivotal Role ◽  
Trophoblast Invasion ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Blood Samples ◽  
Implantation Process ◽  
Risk Of Preeclampsia

Background. Metalloproteinases (MMPs) play a pivotal role during the process of trophoblast invasion and placentation. The appearance of five functional single-nucleotide polymorphisms (SNP) in the genes of the metalloproteinases most commonly implicated in the implantation process may influence the development of preeclampsia. Methods. Blood samples were collected from 86 mothers and 86 children after preeclampsia and 85 mothers and 85 children with uncomplicated pregnancies. The distribution of genotypes for −1607 1G/2G MMP1, −735 C/T MMP2, −1306 C/T MMP2, −1171 5A/6A MMP3, and −1562C/T MMP9 polymorphisms was determined by RFLP-PCR. Results. The occurrence of 1G/1G MMP1 or 5A/5A MMP3 genotype in the mother or 1G/1G MMP1 or 5A/6A MMP3 genotype in the child is associated with preeclampsia development. Moreover, simultaneous maternal and fetal 1G/1G homozygosity increases the risk of preeclampsia development 2.39-fold and the set of maternal 5A/5A and fetal 5A/6A MMP3 genotypes by over 4.5 times. No association between the carriage of studied MMP2 or MMP9 polymorphisms and the predisposition to preeclampsia was found. Conclusion. The maternal 1G/1G MMP1 and 5A/5A MMP3 and fetal 1G/1G MMP1 and 5A/6A MMP3 gene polymorphisms may be strong genetic markers of preeclampsia, occurring either individually or together.

Association of molecular genetic markers and oxidative stress indices in workers in contact with asbestos dust

2020 ◽  
pp. 560-560
Author(s):  
L. M. Bezrukavnikova ◽  
N. N. Anokhin ◽  
E. S. Tsidilkovskaya
Keyword(s):  
Oxidative Stress ◽  
Lipid Peroxidation ◽  
Single Nucleotide Polymorphisms ◽  
Genetic Markers ◽  
Molecular Genetic ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Stress Indices ◽  
Molecular Genetic Markers ◽  
And Oxidative Stress

The studied single-nucleotide polymorphisms EPHX1 (rs1051740), SAD2 (rs4880), MP9 (rs17576) in persons exposed to asbestos dust are associated with elevated levels of lipid peroxidation catabolites, which confirms their significance in the development of asbestos-related bronchopulmonary pathology.

scholarly journals Study of the VvMybA1 gene allele state of some colored and uncolored grapevine varieties

2021 ◽  
Vol 34 ◽  
pp. 02008
Author(s):  
Alexander Milovanov ◽  
Darja Savenkova ◽  
Vitaliy Radchenko ◽  
Andrej Zvyagin ◽  
Leonid Troshin
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Genetic Markers ◽  
Structural Features ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Grape Varieties

As a result of the work, genetic markers were created that were used to identify alleles of the VvMybA1 genes, which control the anthocyanin color of berries in grape varieties. Using these markers, alleles were identified in grape varieties belonging to different ecologicalgeographical groups. In the process of work, alleles were sequenced and compared with the NCBI database in order to identify their state and their belonging to a specific type of structure. In addition, these sequences were compared with each other to reveal the structural features of varieties with and without color of berries. Single nucleotide polymorphisms, structural features, and deletions in the structure of alleles were revealed.

scholarly journals A New Panel of SNP Markers for the Individual Identification of North American Pumas

2015 ◽  
Vol 7 (1) ◽  
pp. 13-27 ◽  
Author(s):  
Robert R. Fitak ◽  
Ashwin Naidu ◽  
Ron W. Thompson ◽  
Melanie Culver
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Genetic Markers ◽  
High Throughput ◽  
North American ◽  
Large Scale ◽  
Puma Concolor ◽  
Ecological Impacts ◽  
Individual Identification ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide

Abstract Pumas Puma concolor are one of the most studied terrestrial carnivores because of their widespread distribution, substantial ecological impacts, and conflicts with humans. Over the past decade, managing pumas has involved extensive efforts including the use of genetic methods. Microsatellites have been the most commonly used genetic markers; however, technical artifacts and little overlap of frequently used loci render large-scale comparison of puma genetic data across studies challenging. Therefore, a panel of genetic markers that can produce consistent genotypes across studies without the need for extensive calibrations is essential for range-wide genetic management of puma populations. Here, we describe the development of PumaPlex, a high-throughput assay to genotype 25 single nucleotide polymorphisms in pumas. We validated PumaPlex in 748 North American pumas Puma concolor couguar, and demonstrated its ability to generate reproducible genotypes and accurately identify individuals. Furthermore, in a test using fecal deoxyribonucleic acid (DNA) samples, we found that PumaPlex produced significantly more genotypes with fewer errors than 12 microsatellite loci, 8 of which are commonly used. Our results demonstrate that PumaPlex is a valuable tool for the genetic monitoring and management of North American puma populations. Given the analytical simplicity, reproducibility, and high-throughput capability of single nucleotide polymorphisms, PumaPlex provides a standard panel of markers that promotes the comparison of genotypes across studies and independent of the genotyping technology used.

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