Genomic portrait of Odisha, India drawn by using 21 autosomal STR markers

Sahoo, Subhasish; Samal, Rashmita; Behera, Suchismeeta; Swain, Aruna Kumar; Biswas, Sumit; Shrivastava, Pankaj; Kumawat, R. K.; Chaubey, Gyaneshwer; Dash, Hirak Ranjan

doi:10.1007/s00414-020-02281-5

Cited by 16 publications

(6 citation statements)

References 9 publications

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“…The genetic dataset of present study was compared with the dataset of reported indigenous populations viz., Balmiki (Punjab) 29 , Sakaldwipi Brahmin (Jharkhand) 29 , Konkanastha_Brahmin (Maharashtra) 29 , Iyengar (Tamilnadu) 29 , Kurumans (Tamilnadu) 29 , Munda (Jharkhand) 29 , Chenchu (Andhra Pradesh) 30 , Lambadi (Andhra Pradesh) 30 , Naikpod_Gond (Andhra Pradesh) 30 , Yerukula (Andhra Pradesh) 30 , Munda (Chotanagpur) 31 , Santal (Chotanagpur) 31 , Oraon (Chotanagpur) 31 , Lodha (Bengal) 32 , Kora (Bengal) 32 , Maheli (Bengal) 32 , Central Indian Population 33 , Gond (MP) 34 , Gond_2 (MP) 35 , Gond_1 (MP) 29 , Oraon (Chhattishgarh) 36 , Population of Jharkhand 37 , Jat Sikh (Punjab) 38 , Baniya (Punjab) 38 , Khatri (Punjab) 38 , Population of Uttar Pradesh 39 , Kahar population (UP) 40 , Himachal Pradesh Population 18 , Gorkhas 41 , Tamil Population (Tamil Nadu) 42 , Population of Rajasthan 43 , Population of Odisha 44 and Bhuiyan Population (Jharkhand) 45 ;and global populations namely; Manchu Population of China 46 , Han Population of Southern China 47 , Tibetan Population (Nepal) 48 , Kathmandu 49 , Tibet 49 , Newar 49 1).…”

Section: Genetic Data Of Reported Populations For Comparisonmentioning

confidence: 99%

Genomic Insight Into 21 Hypervariable Molecular Markers in The Population of Lower Himalayan Geographical Province Himachal Pradesh, India

Sharma

Srivast

Sahajpal

et al. 2021

Preprint

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A natural geographical barrier between Tibetan plateau and south Asian countries, the Himalayan Mountain range, serves as a natural barrier between these regions for genetic flow. This has lead to vast genomic divergence among the population residing in Indian Himalayan region..This study was designed with an aim to decipher the genomic diversity and molecular characterization of 21 hypervariable molecular markers in the population of geographical province of Himachal Pradesh in the lower Himalayan region. Randomly selected 401 unrelated individuals native of the lower Himalayan geographical region were included for this study. 21 hypervariable molecular markers included in the PowerPlex® 21 system were amplified and genotyped. A total of 246 alleles and 12.3 (SE 0.927) private alleles per locus were observed. Population differentiation analysis revealed that the studied population showed a genetic affinity with the population of North India, North-west India, Central India, and Uttar Pradesh rather than the population of East India, South India, East Asia, and West Asia. Heterozygosity at the studied loci was found in the range of 0.686 to 0.920. The unite discrimination power (PD) and exclusion power (PE) was found to be 1 and 0.999999998073765 respectively. The unite value of matching probability and typical paternity index was found to be 9.33x10-26 and 5.05x108 respectively for the studied population. All the tested loci were found in Hardy Weinberg Equilibrium (HWE) expectations. Overall the studied population exhibited a great extent of genomic diversity and had a greater genetic affinity with Indo-European speakers rather than Dravidian and Tibeto-Burman speakers.

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Section: Genetic Data Of Reported Populations For Comparisonmentioning

confidence: 99%

Genomic Insight Into 21 Hypervariable Molecular Markers in The Population of Lower Himalayan Geographical Province Himachal Pradesh, India

Sharma

Srivast

Sahajpal

et al. 2021

Preprint

Self Cite

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“…Short tandem repeats (STRs), also known as Microsatellites are small sequences of DNA (two to six base pairs) which are tandemly repeated and these repeat units are different among individuals, making them highly distinguishable 1 and are highly useful and widely used in human identity testing applications. 2,3 the artifacts of polymerase slippages i.e stutter peaks, ultimately interfering with the analysis of chimerism pattern. 11 Hence by analyzing the samples of peripheral blood or bone marrow of the recipient over time may help in detecting the patterns of Chimerism by conventional STR-PCR PAGE after a stem cell transplant in several malignant and non-malignant hematological diseases.…”

Section: Introductionmentioning

confidence: 99%

Densitometry of STR-PAGE for donor chimerism in acute leukemia’s: A simple method for routine use

Nayyar,

Ahmed

2024

Pak J Med Sci

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Objective: To evaluate a PCR based method of polyacrylamide gel electrophoresis of short tandem repeats and its quantification for detecting donor chimerism after haematopoietic stem cell transplantation in acute leukaemias. Methods: The descriptive study was conducted at Genetic Resource Centre (GRC) Lab Rawalpindi from Feb 2018 - Nov 2020. A total of twenty patients with acute leukaemias having undergone HSCT were selected and assessed for the analysis of chimerism status. DNA extraction from the whole blood was done by chelex method and short tandem repeats were amplified by using conventional STR- PCR assay. Electrophoresis was carried out and 6% polyacrylamide gels were used for the resultant amplified DNA products and then followed by their densitometry. These patients had undergone HSCT from Pakistan Institute of Medical Science and Armed Forces Bone Marrow Transplant Centre. Results: The peaks in the PAGE densitometry represented the donor chimerism in all post transplant samples of the patients. Conclusion: Our study showed that densitometry of STR PCR PAGE is a useful and cheaper method for demonstration of donor chimerism in acute leukaemia patients having undergone HSCT. Hence this method can be a valuable option in the monitoring of chimerism status in these patients and therefore helps in preventing graft failure by fast and early treatment strategies for these patients. doi: https://doi.org/10.12669/pjms.40.5.9216 How to cite this: Nayyar A, Ahmed S. Densitometry of STR-PAGE for donor chimerism in acute leukemia’s: A simple method for routine use. Pak J Med Sci. 2024;40(5):---------. doi: https://doi.org/10.12669/pjms.40.5.9216 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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“…Developing and validating STR markers was an essential step toward their use in genotyping. The validated STR markers were used to estimate their frequency in various populations worldwide [24][25][26][27][28][29][30][31][32][33][34][35][36][37][38][39].…”

Section: Introductionmentioning

confidence: 99%

The Impact of Leukemia on the Detection of Short Tandem Repeat (STR) Markers

Alharbi¹,

Alamri²,

El-Shehawi³

2022

Cureus

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Introduction: Short tandem repeats (STRs) have been used for various identity typing methods worldwide. They have high discrimination power in human identification in forensics, paternity testing, missed personal identification, genetic diseases, and gene regulatory functions. They have also been used to detect and monitor the stability of diseases, including various types of cancer. This study aimed to investigate the impact of leukemia on the detection and stability of STR markers.Methods: DNA was isolated from 30 participants (15 with chronic myeloid leukemia( CML) and 15 healthy controls) and used to amplify STR markers using specific primers.Results: We found that the blood of those with leukemia had more 9.3 and 9 alleles at the tyrosine hydroxylase 1 (TH01) marker than the blood of the healthy control samples. The results of this study will help researchers understand leukemia's effect on the detection and stability of STR markers in leukemic patients compared to healthy individuals. Conclusion:Our results demonstrate that STR markers could become useful in genetic studies of leukemia cases.

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Genomic portrait of Odisha, India drawn by using 21 autosomal STR markers

Cited by 16 publications

References 9 publications

Genomic Insight Into 21 Hypervariable Molecular Markers in The Population of Lower Himalayan Geographical Province Himachal Pradesh, India

Genomic Insight Into 21 Hypervariable Molecular Markers in The Population of Lower Himalayan Geographical Province Himachal Pradesh, India

Densitometry of STR-PAGE for donor chimerism in acute leukemia’s: A simple method for routine use

The Impact of Leukemia on the Detection of Short Tandem Repeat (STR) Markers

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