Browsing by Author "Pankaj Shrivastava"

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A case of “false tri-allelic pattern” on D7S820, caused by invasion of a short SE33 allele into the bins of D7S820
(Springer Science and Business Media Deutschland GmbH, 2021) Kamlesh Kaitholia; Pankaj Shrivastava; Gyaneshwer Chaubey
Autosomal short tandem repeats (asSTR) serve as genetic markers for discriminating individuals and have been extensively used for criminal investigations as well as the establishment of genetic relationships. Tri-allelic pattern usually occurs due to chromosomal duplication, trisomy, and chimerism during mitotic division, but a false tri-allelic pattern at the D7S820 locus was encountered in our laboratory during the analysis of a case exhibit. DNA isolation from exhibit for profiling was done as per manufacturer’s protocol. This is the first report which observed false tri-allelic pattern (10, 11, 14.1 allele) on D7S820 locus by analysis with GlobalFiler™ PCR Amplification Kit in Indian population. Findings were re-confirmed using other available asSTR kits in the laboratory, viz., AmpFLSTR™ Identifiler™ Plus PCR Amplification Kit and PowerPlex® Fusion 6C System. Two alleles (10, 11) found at D7S820, apart from SE33 marker, showed homozygous condition, but one Off Marker (OMR) peak was observed before start of SE33 marker region with the analysis using PowerPlex® Fusion 6C System. As it has been confirmed that the OMR allele belongs to the SE33 locus, this could be possible because of the adjacent locations of the D7S820 and the SE33 in the GlobalFiler® PCR amplification kit. 14.1 allele appeared within the allelic window of D7S820. The false tri-allelic pattern was due to the overlapping of SE33 marker allele (1.2 repeat) with bin window of D7S820 Marker. This finding might create confusion for the establishment of genetic relationships. We, therefore, conclude that such uncommon observations with rare events should be carefully investigated and interpreted. © 2021, The Author(s), under exclusive licence to Springer-Verlag GmbH, DE part of Springer Nature.
A genomic exploration of 15 autosomal STR loci for establishment of a DNA profile database of the population of Himachal Pradesh
(Elsevier B.V., 2020) B.K. Mohapatra; Kamal Chauhan; Pankaj Shrivastava; Shivani Dixit; R.K. Kumawat; Anchal Sharma; Seema Dagar; Gyaneshwer Chaubey
In order to create an autosomal STR loci population database for Himachal Pradesh, 259 blood samples were taken from people residing in various regions of the state and AmpFlSTR® Identifiler® Plus PCR amplification kit was used for evaluation of 15 autosomal STR markers. A total of 149 alleles were investigated in this study with a mean allele number of 9.933 per locus. The locus D2S1338 was most informative in our data, as it had the highest discrimination power (PD-0.967) and the highest polymorphic information content (PIC-0.86). The matching probability and typical paternity index for all the studied loci were observed as 2.9x10-18 and 4.7x105, respectively. Discrimination power (CPD) and exclusion power (CPE) for all the studied loci were observed as 1 and 0.999998. © 2020 Elsevier B.V.
A study of genomic diversity in populations of Maharashtra, India, inferred from 20 autosomal STR markers
(BioMed Central Ltd, 2021) Ashish Badiye; Neeti Kapoor; R.K. Kumawat; Shivani Dixit; Aditi Mishra; Akansha Dixit; Prachi Kathane; Sudeshna Bag; Vaishnavi Thakre; Kamlesh Kaitholia; Ankit Srivastava; Gyaneshwer Chaubey; Pankaj Shrivastava
Objective: This study was planned to evaluate the genetic diversity in the admixed and Teli (a Hindu caste) populations of Maharashtra, India using 20 autosomal Short Tandem Repeat (STR) genetic markers. We further investigated the genetic relatedness of the studied populations with other Indian populations. Results: The studied populations showed a wide range of observed heterozygosity viz. 0.690 to 0.918 for the admixed population and 0.696 to 0.942 for the Teli population. This might be due to the multi-directional gene flow. The admixed and Teli populations also showed a high degree polymorphism which ranged from 0.652 to 0.903 and 0.644 to 0.902, respectively. Their combined value of matching probability for all the studied loci was 4.29 × 10–25 and 5.01 × 10–24, respectively. The results of Neighbor-Joining tree and Principal Component Analysis showed that the studied populations clustered with the general populations of Jharkhand, UttarPradesh, Rajasthan and Central Indian States, as well as with the specific populations of Maharashtra (Konkanastha Brahmins) and Tamil Nadu (Kurmans). Overall, the obtained data showed a high degree of forensic efficacy and would be useful for forensic applications as well as genealogical studies. © 2021, The Author(s).
Allelic frequency database of 15 polymorphic autosomal STRs in the Malayalam-speaking population of Kerala, India
(Springer, 2020) R. Sreekumar; Ajeesh Thekkatavan; Pankaj Shrivastava; R.K. Kumawat; Shivani Dixit; Gyaneshwer Chaubey
In this study, we assessed and established an allelic frequency database of Malayalam-speaking population of south western Indian state Kerala, using 15 polymorphic short tandem repeats (STRs) genetic markers. For this study, 464 unrelated healthy individuals were randomly selected following the ethical standards. The most polymorphic and most discriminating locus was D2S1338, with a value of 0.860 and 0.968, respectively. The range of heterozygosity extended from a minimum of 0.668 (TH01) to a maximum of 0.847 (D2S1338). The combined discrimination power (CPD) and combined exclusion power (CPE) were 1 and 0.999997861, respectively, for all 15 autosomal STR loci under study. The combined probability of match (CPM) and combined paternity index (CPI) for all 15 autosomal STR loci were found to be 9.85 × 10−19 and 4.18 × 105, respectively. © 2020, Springer-Verlag GmbH Germany, part of Springer Nature.
An evaluation of inter and intra population structure of Uttar Pradesh, inferred from 24 autosomal STRs
(Taylor and Francis Ltd., 2022) Ikramul Haque; Shivani Dixit; Akash Kumar; Akshay Kumar; Sunita Verma; Devinder Kumar; Ankit Srivastava; R.K. Kumawat; Divya Shrivastava; Gyaneshwer Chaubey; Pankaj Shrivastava
Aim: The present study was designed to explore the STR diversity and genomic history of the inhabitants of the most populous subdivision of the country. A set of 24 hypervariable autosomal STRs was used to estimate the genetic diversity within the studied population. A panel of 15 autosomal STRs, which is most common in the previously reported data sets, was used to estimate the genetic diversity between the studied population, and obtained unique relations were reported here. Method: The genetic diversity and polymorphism among 636 individuals of different ethnic groups, residing in Bareilly, Pilibhit, Shahjahanpur, Gorakhpur, Jhansi, and Varanasi regions of Uttar Pradesh, India, was investigated. This investigation was carried out via 24 autosomal STRs. Result: The 24 loci studied showed the highest value of combined power of discrimination (CPD = 1), combined power of exclusion (CPE = 0.99999999985), combined paternity index (CPI = 6.10 × 109) and lowest combined matching probability (CPM = 7.90 × 10−31). Conclusion: The studied population showed genetic closeness with the population of Uttarakhand, the Jats of Delhi,the Jat Sikh (Punjab), and the population of Rajasthan. Among the tested loci, SE33 and Penta E were found to be most useful in terms of the highest discrimination power, lowest matching probability, the highest power of exclusion, and highest polymorphism information content for the Uttar Pradesh population. © 2021 Informa UK Limited, trading as Taylor & Francis Group.
An evaluation of molecular characterization and population structure of Uttarakhand, India
(Elsevier Inc., 2021) Manoj Agrawal; B.K. Mohapatra; Kamal Chauhan; Shivani Dixit; R.K. Kumawat; Anchal Sharma; Seema Dagar; Ankit Srivastava; Gyaneshwer Chaubey; Pankaj Shrivastava
The northern Indian state of Uttarakhand is a landmark of culture, traditional values and natural beauty. It is located on the western side of the Himalayas resulting in geographic semi-isolation, which draws attention to the genomic diversity of the population of Uttarakhand. To explore the genomic structure and forensic characterization, randomly 427 unrelated individuals from Uttarakhand were selected. A wide range of allele frequency (0.001 to 0.415) and observed heterozygosity (0.693 to 0.888) was observed, which points towards a high level of genetic mixing instead of population isolation. The allelic data of 15 autosomal STR markers were found to be under the Hardy-Weinberg Equilibrium. The population of Uttarakhand showed genetic closeness with geographically close populations, i.e., the populations of Uttar Pradesh, central India and north-western India as compared to geographically distant populations of eastern and southern India, as well as western and eastern Asian populations. The locus D2S1338 (3p21.31) was found to be the most informative marker among all the studied loci with the highest discrimination power (PD = 0.971) and polymorphic information content (PIC = 0.864), while locus TPOX (2p25.3) was found to be the least informative with the lowest discrimination power (PD = 0.862) and polymorphism information content (PIC = 0.654). The combined value of discrimination power (CPD = 1), power of exclusion (CPE = 0.999999023), paternity index (CPI = 9.40 × 105) and matching probability (CPM = 2.10 × 10−18) showed that the tested loci are very useful for personal identification, paternity testing and disaster victim identification. © 2021 Elsevier Inc.
Assessment of significance and forensic relevance of SE33 (ACTBP2) locus in five Indian populations
(Elsevier Inc., 2021) Shivani Dixit; Pankaj Shrivastava; Hirak Ranjan Dash; Kamlesh Kaitholia; Vivek Sahajpal; Shubhasish Sahoo; Varsha Srivastava; H. Surekha Rani; Aditi Mishra; Sumit Kumar Choudhary; Ajeesh Thekkatavan; Gyaneshwer Chaubey; R.K. Kumawat
The study was conducted to evaluate the genetic variability, forensic reliability and potential of SE33 STR marker in five different Indian populations. 1400 blood samples of randomly selected unrelated individuals from various regions of Odisha (508), Madhya Pradesh (370), Telangana (305), Himachal Pradesh (168) and Rajasthan (49) were genotyped and evaluated for allelic diversity and statistical parameters for SE33 marker in selected Indian populations along with its comparison from global populations. This evaluation uncovered the highest discrimination power in population of Portugal (0.995), India (0.994), Bahrain (0.994) and Colombia (0.994). However, the highest observed heterozygosity was reported in Malaysian population (0.953) out of other reported populations. In all the studied five Indian populations SE33 was found to be have the highest discrimination power and lowest probability of match which envisions its application in varied applications of forensic DNA analysis such as human identification, paternity disputes and mass disaster as well as other population genetic studies. © 2021 Elsevier Inc.
Can alcohol kill harmful microbes from our skin?
(Elsevier Inc., 2021) Pankaj Shrivastava; Toshi Jain; Vijay Nema; Mahendra K. Gupta; Naveen Kango; Pradeep K. Singhal; Gyaneshwer Chaubey; R.K. Kumawat
[No abstract available]
COVID-19: Impact on linguistic and genetic isolates of India
(Springer Nature, 2022) Prajjval Pratap Singh; Prashanth Suravajhala; Chandana Basu Mallick; Rakesh Tamang; Ashutosh Kumar Rai; Pratheusa Machha; Royana Singh; Abhishek Pathak; Vijay Nath Mishra; Pankaj Shrivastava; Keshav K. Singh; Kumarasamy Thangaraj; Gyaneshwer Chaubey
The rapid expansion of coronavirus SARS-CoV-2 has impacted various ethnic groups all over the world. The burden of infectious diseases including COVID-19 are generally reported to be higher for the Indigenous people. The historical knowledge have also suggested that the indigenous populations suffer more than the general populations in the pandemic. Recently, it has been reported that the indigenous groups of Brazil have been massively affected by COVID-19. Series of studies have shown that many of the indigenous communities reached at the verge of extinction due to this pandemic. Importantly, South Asia also has several indigenous and smaller communities, that are living in isolation. Till date, despite the two consecutive waves in India, there is no report on the impact of COVID-19 for indigenous tribes. Since smaller populations experiencing drift may have greater risk of such pandemic, we have analysed Runs of Homozygosity (ROH) among South Asian populations and identified several populations with longer homozygous segments. The longer runs of homozygosity at certain genomic regions may increases the susceptibility for COVID-19. Thus, we suggest extreme careful management of this pandemic among isolated populations of South Asia. © 2021, The Author(s), under exclusive licence to Springer Nature Limited.
Erratum: Correction to: Forensic genetic analysis of population of Madhya Pradesh with PowerPlex Fusion 6C™ Multiplex System (International journal of legal medicine (2019) 133 3 (803-805))
(NLM (Medline), 2021) Shivani Dixit; Pankaj Shrivastava; R.K. Kumawat; Kamlesh Kaitholia; Hirak Ranjan Dash; Harsh Sharma; Gyaneshwer Choubey
[No abstract available]
Evaluation of the genomic diversity and shared ancestry of the Meitei community of Manipur (India) with the East Asian populations using autosomal STRs
(Taylor and Francis Ltd., 2020) Surendrajit Leishangthem; K.P.S. Kushwaha; Tanya Chauhan; R.K. Kumawat; Gyaneshwer Chaubey; Pankaj Shrivastava
Aim: To study molecular diversity and genomic heritage of the Meitei community of Manipur using 20 autosomal gene loci markers. Subjects and methods: Blood samples were collected from 120 unrelated, healthy individuals of the Meitei population following ethical standards. DNA was extracted using the Phenol chloroform organic extraction method and amplified using the PowerPlex® 21 system. Genetic profiles of the individuals were generated using the Genetic Analyser 3500XL following the recommended protocol. Results: The studied population showed Observed Heterozygosity (Hobs) from 0.583 (TH01) to 0.90 (D6S1043) among all the studied loci. The discrimination power and exclusion power for all the studied loci were found to be 1 and 0.9999999988, respectively, with the maximum power of discrimination being found at Penta E locus. Conclusions: All the studied loci showed a high degree of matching probability and paternity index of 2.83 × 10−24 and 7.35 × 108, respectively; these are high-level statistical values and indicate that these loci might play a very important role in the application of DNA reports in the courts of justice. The studied population showed a relatively closer genetic affinity with Newar, Kathmandu, and Han Chinese populations compared with the South and West Indian populations. The outcomes of this study will enrich the STR database of the Indian population and this is the first global report on genetic diversity in the Meitei community of Manipur, India, at 20 autosomal STR genetic markers. © 2020 Informa UK Limited, trading as Taylor & Francis Group.
Exploring the genetic implications of demographic dynamics in Jammu and Kashmir using autosomal STRs
(Springer Science and Business Media Deutschland GmbH, 2025) Nadeem Mubarik; Masroor Ahmad Ganei; Shivani Dixit; Ramkishan K. Kumawat; Jaison Jeevan Sequeira; Naseer Ahmad Ahangar; Shahul Ahmad Kanth; Imtiyaz Ahmad Dar; Ishrat Mushtaq; Mohammad Mohsin; Mohammed Shafiul Mustak; G. Chaubey; Sania Hamid; Pankaj Shrivastava
The Union Territory of Jammu and Kashmir has always been a point of contention among India, Pakistan, and China for various reasons. This region has great significance historically due to its geography and ethnic diversity. However, a comprehensive genetic study providing the genetic landscape of Jammu and Kashmir was lacking until now. In this study, we analysed 21 hyper-variable autosomal STR loci of 694 individuals from Jammu and Kashmir and compared them with neighbouring populations to explore the genetic implications of demographic dynamics that have taken place in this region. Our findings suggest that the population of Jammu and Kashmir is a genetic mixture of two major clines, northern and southern, that correspond with the variation in geography, linguistics, and demography of the region. Broadly, the gene flow into the southern cline appears to be in historical times perhaps as a result of the spread of Gurjars, Dogri language and invasions of Mongols. However, the arrival of ancient nomadic tribes into this region may belong to the time depth of the arrival of pastoralist communities in this region. As a future perspective, a comprehensive study including samples from individual tribes will provide fine-scale structure of the gene pool of Jammu and Kashmir. © The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature 2024.
Exploring the genetic implications of demographic dynamics in Jammu and Kashmir using autosomal STRs
(Springer Science and Business Media Deutschland GmbH, 2024) Nadeem Mubarik; Masroor Ahmad Ganei; Shivani Dixit; R.K. Kumawat; Jaison Jeevan Sequeira; Naseer Ahmad Ahangar; Shahul Ahmad Kanth; Imtiyaz Ahmad Dar; Ishrat Mushtaq; Mohammad Mohsin; Mohammed S. Mustak; Gyaneshwer Chaubey; Sania Hamid; Pankaj Shrivastava
The Union Territory of Jammu and Kashmir has always been a point of contention among India, Pakistan, and China for various reasons. This region has great significance historically due to its geography and ethnic diversity. However, a comprehensive genetic study providing the genetic landscape of Jammu and Kashmir was lacking until now. In this study, we analysed 21 hyper-variable autosomal STR loci of 694 individuals from Jammu and Kashmir and compared them with neighbouring populations to explore the genetic implications of demographic dynamics that have taken place in this region. Our findings suggest that the population of Jammu and Kashmir is a genetic mixture of two major clines, northern and southern, that correspond with the variation in geography, linguistics, and demography of the region. Broadly, the gene flow into the southern cline appears to be in historical times perhaps as a result of the spread of Gurjars, Dogri language and invasions of Mongols. However, the arrival of ancient nomadic tribes into this region may belong to the time depth of the arrival of pastoralist communities in this region. As a future perspective, a comprehensive study including samples from individual tribes will provide fine-scale structure of the gene pool of Jammu and Kashmir. © The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature 2024.
Forensic characterization and genetic evaluation in the Central Indian population using 27 Y-STRs
(Springer Science and Business Media Deutschland GmbH, 2021) Kamlesh Kaitholia; Hirak Ranjan Dash; Pankaj Shrivastava; R.K. Kumawat; Shivani Dixit; Gyaneshwer Chaubey
Introduction: Forensic characterization and genetic evaluation study in the 539 randomly selected unrelated adult healthy individuals belonging to the Central Indian population was undertaken. Methods: The study was performed using a multiplex of 27 Y-STRs incoporated in Yfiler™ Plus multiplex kit. Results: Out of 539 samples, 6 samples were observed for large deletion and tri-allelic patterns, which were removed from the analysis, and out of 533 samples, a total of 507 haplotypes were found, and out of these haplotypes, 482 unique haplotypes were found in this piece of work. The forensically important parameters, i.e., gene diversity (GD) and discrimination capacity (DC), were found to be 0.669 and 0.951, respectively, for the tested Y STR loci. The genetic data of this study will enrich the Y STR data bank and being used as a potential tool for forensic DNA and various genetic studies. © 2021, The Author(s), under exclusive licence to Springer-Verlag GmbH, DE part of Springer Nature.
Forensic Characterization, Genomic Variability and Ancestry Analysis of Six Populations from Odisha Using mtDNA SNPs and Autosomal STRs
(Springer, 2025) Jaison Jeevan Sequeira; Muktikanta Panda; Shivani Dixit; Ramkishan K. Kumawat; Mohammed Shafiul Mustak; Awdhesh Narayan Sharma; G. Chaubey; Pankaj Shrivastava
Located on India's eastern coast, Odisha is known for its diverse tribes and castes. In the early days of genome sequencing technology, researchers primarily studied the Austroasiatic communities inhabiting this region to reconstruct the ancient origins and dispersal of this broad linguistic group. However, current research has shifted towards identifying population and individual-specific genome variation for forensic applications. This study aims to analyze the forensic efficiency and ancestry of six populations from Odisha. We assessed the SF mtDNA-SNP60™ PCR Amplification Kit by comparing it with PowerPlex® Fusion 6C System, a widely used autosomal STR (aSTR) kit, in an Indian cohort. Although the mtDNA SNP kit showed low discriminating power for individuals of a diverse population, it could identify deep lineage divergence. Also, we utilized mitochondrial and autosomal variation information to analyze the ancestry of six endogamous ethnic groups in Odisha. We observe two extremities—populations with higher West Asian affinity and those with East Asian affinity. This observation is in congruence with the existing information of their tribal and non-tribal affiliation. When compared with neighbouring populations from Central and Eastern India, multivariate analysis showed that the Brahmins clustered separately or with the Gopala, Kaibarta appeared as an intermediate, Pana and Kandha clustered with the Gonds, and Savara with the Munda tribes. Our findings indicate significant deep lineage stratification in the ethnic populations of Odisha and a gene flow from West and East Asia. The artefacts of unique deep lineage in such a diverse population will help in improving forensic identification. In addition, we conclude that the SF mtDNA-SNP60 PCR Amplification Kit may be used only as a supplementary tool for forensic analysis. © The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature 2024.
Forensic Characterization, Genomic Variability and Ancestry Analysis of Six Populations from Odisha Using mtDNA SNPs and Autosomal STRs
(Springer, 2024) Jaison Jeevan Sequeira; Muktikanta Panda; Shivani Dixit; Ramkishan Kumawat; Mohammed S. Mustak; Awdhesh Narayan Sharma; Gyaneshwer Chaubey; Pankaj Shrivastava
Located on India's eastern coast, Odisha is known for its diverse tribes and castes. In the early days of genome sequencing technology, researchers primarily studied the Austroasiatic communities inhabiting this region to reconstruct the ancient origins and dispersal of this broad linguistic group. However, current research has shifted towards identifying population and individual-specific genome variation for forensic applications. This study aims to analyze the forensic efficiency and ancestry of six populations from Odisha. We assessed the SF mtDNA-SNP60™ PCR Amplification Kit by comparing it with PowerPlex® Fusion 6C System, a widely used autosomal STR (aSTR) kit, in an Indian cohort. Although the mtDNA SNP kit showed low discriminating power for individuals of a diverse population, it could identify deep lineage divergence. Also, we utilized mitochondrial and autosomal variation information to analyze the ancestry of six endogamous ethnic groups in Odisha. We observe two extremities—populations with higher West Asian affinity and those with East Asian affinity. This observation is in congruence with the existing information of their tribal and non-tribal affiliation. When compared with neighbouring populations from Central and Eastern India, multivariate analysis showed that the Brahmins clustered separately or with the Gopala, Kaibarta appeared as an intermediate, Pana and Kandha clustered with the Gonds, and Savara with the Munda tribes. Our findings indicate significant deep lineage stratification in the ethnic populations of Odisha and a gene flow from West and East Asia. The artefacts of unique deep lineage in such a diverse population will help in improving forensic identification. In addition, we conclude that the SF mtDNA-SNP60 PCR Amplification Kit may be used only as a supplementary tool for forensic analysis. © The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature 2024.
Forensic effectiveness and genetic distribution of 23 autosomal STRs included in Verifiler PlusTM multiplex in a population sample from Madhya Pradesh, India
(Springer, 2020) Pankaj Shrivastava; Kamlesh Kaitholia; R.K. Kumawat; Shivani Dixit; Hirak Ranjan Dash; Ankit Srivastava; Yash Baroniya; Aditi Mishra; Pushpesh Kushwaha; Manisha Rana; Akansha Dixit; Tanya Sarawagi; Alay Bhatt; Harsh Sharma; Moumita Sinha; Gyaneshwer Chaubey
We report here the first ever global study on genetic polymorphism using a Verifiler PlusTM autosomal STR multiplex system. The study evaluated genetic characteristics of 23 autosomal STRs in 200 unrelated residents of Guna district of Madhya Pradesh, India. Allele frequencies and forensic parameters are reported. Population comparison analysis was also performed using NJ tree and PCA plot. Penta E marker showed highest power of discrimination (0.938) among all 23 studied markers. The study also presents the first ever global forensic assessment in Indian population on D6S1043 marker (PD 0.937). The results demonstrated that all the 23 markers were highly polymorphic and the Verifiler PlusTM kit is suitable for forensic purposes in Indian population. © 2019, Springer-Verlag GmbH Germany, part of Springer Nature.
Forensic features and phylogenetic analyses of the population of Nayagarh (Odisha), India using 23 Y-STRs
(Taylor and Francis Ltd., 2022) Muktikanta Panda; Ramkishan Kumawat; Shivani Dixit; Awdhesh Narayan Sharma; Hari Shankar; Gyaneshwer Chaubey; Pankaj Shrivastava
Aim: The present study was designed to explore the STR diversity and genomic history of the inhabitants of Nayagarh district of Odisha, India. We also tested the proficiency of the most recent, new generation PowerPlexR Y23 multiplex system for forensic characterisation and to decipher the phylogenetic affinities. Subjects and methods: The genetic diversity and polymorphism among 236 healthy unrelated male volunteers from Nayagarh district of Odisha, India was investigated. This investigation was carried out via 23 Y-chromosomal STRs using capillary electrophoresis. Result: A total 223 unique haplotypes were reported. Discrimination capacity (DC), gene diversity (GD) and power of discrimination (PD) were observed as 0.945, 0.999999999998333, and 0.99999999999794, respectively. Polymorphic information content (PIC) and matching probability (PM) were reported as 0.999999999925535 and 2.06 × 10−12, respectively. Simultaneously, the haplogroup analysis characterised with C2, E1b1a, E1b1b, G2a, H1, I2a, J2a, J2b, L, O, O1, O2, Q, R1a, R2, and T haplogroups, disclosing the possible geographical relatedness of the studied population to different areas of the world. Conclusion: Phylogenetic analysis with previously reported Indian and Asian populations showed the genetic closeness of the studied population to different Indian populations and the Bangladeshi population of Dhaka, whereas the Bhotra population of Odisha and Han population of China showed much less genetic affinity. © 2022 Informa UK Limited, trading as Taylor & Francis Group.
Forensic genetic analysis of population of Madhya Pradesh with PowerPlex Fusion 6C™ Multiplex System
(Springer Verlag, 2019) Shivani Dixit; Pankaj Shrivastava; R.K. Kumawat; Kamlesh Kaitholia; Hirak Ranjan Dash; Harsh Sharma; Gyaneshwer Choubey
Performance of PowerPlex Fusion 6C kit (PP F6C) was assessed in 374 unrelated individuals belonging to Madhya Pradesh, an Indian state. The study evaluated the forensic parameters for the loci included in PP F6C Multiplex System. The combined discrimination power (CPD) and combined exclusion power (CPE) were 1 and 0.999999995, respectively, for all 23 autosomal STR loci. SE33 showed the greatest power of discrimination (0.990) in the studied population, whereas TPOX showed the lowest (0.843). The availability of three Y-STR loci in the Multiplex System is suitable for assessing male contribution and amelogenin deletion in a single Multiplex PCR simultaneously. The study also presents the first global report on polymorphism in the Indian population on SE 33 autosomal STR loci and PP Fusion 6C Multiplex System. The results revealed that the studied STR Multiplex System is highly polymorphic and suitable for forensic purposes. © 2019, The Author(s).
Genetic and linguistic non-correspondence suggests evidence for collective social climbing in the Kol tribe of South Asia
(Nature Research, 2020) Anshika Srivastava; Prajjval Pratap Singh; Audditiya Bandopadhyay; Pooja Singh; Debashruti Das; Rakesh Tamang; Akhilesh Kumar Chaubey; Pankaj Shrivastava; George van Driem; Gyaneshwer Chaubey
Both classical and recent genetic studies have unanimously concluded that the genetic landscape of South Asia is unique. At long distances the ‘isolation-by-distance’ model appears to correspond well with the genetic data, whereas at short distances several other factors, including the caste, have been shown to be strong determinant factors. In addition with these, tribal populations speaking various languages add yet another layer of genetic complexity. The Kol are the third most populous tribal population in India, comprising communities speaking Austroasiatic languages of the Northern Munda branch. Yet, the Kol have not hitherto undergone in-depth genetic analysis. In the present study, we have analysed two Kol groups of central and western India for hundreds thousands of autosomal and several mitochondrial DNA makers to infer their fine genetic structure and affinities to other Eurasian populations. In contrast, with their known linguistic affinity, the Kol share their more recent common ancestry with the Indo-European and Dravidian speaking populations. The geographic-genetic neighbour tests at both the temporal and spatial levels have suggested some degree of excess allele sharing of Kol1 with Kol2, thereby indicating their common stock. Our extensive analysis on the Kol ethnic group shows South Asia to be a living genetics lab, where real-time tests can be performed on existing hypotheses. © 2020, The Author(s).