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The detection of selection signatures assists in understanding domestication, evolution, and the identification of genomic regions related to adaptation and production traits in buffaloes. The emergence of high-throughput technologies like Next Generation Sequencing and SNP genotyping had expanded our ability to detect these signatures of selection. In this study, we sought to identify signatures of selection in five buffalo populations (Brazilian Murrah, Bulgarian Murrah, Indian Murrah, Nili-Ravi, and Kundi) using Axiom Buffalo 90 K Genotyping Array data. Using seven different methodologies (Tajima's D, CLR, ROH, iHS, FST, FLK and hapFLK), we identified selection signatures in 374 genomic regions, spanning a total of 381 genes and 350 quantitative trait loci (QTLs). Among these, several candidate genes were associated with QTLs for milk production, reproduction, growth and carcass traits. The genes and QTLs reported in this study provide insight into selection signals shaping the genome of buffalo breeds. Our findings can aid in further genomic association studies, genomic prediction, and the implementation of breeding programmes in Indian buffaloes. [ABSTRACT FROM AUTHOR]

The field of genetics has evolved a lot after the emergence of molecular and advanced genomic technologies. The advent of Next Generation Sequencing, SNP genotyping platforms and simultaneous reduction in the cost of sequencing had opened the door to genomic research in farm animals. There are various applications of genomics in livestock, such as the use of genomic data: (i) to investigate genetic diversity and breed composition/population structure (ii) to identify genetic variants and QTLs related to economically important and ecological traits, genome-wide association studies (GWAS) and genomic signatures of selection; (iii) to enhance breeding programs by genomic selection. Compared to traditional methods, genomic selection is expected to improve selection response by increasing selection accuracy and reducing the generation interval due to early selection. Genomic selection (GS) in developed countries has led to rapid genetic gains, especially in dairy cattle, due to a well-established genetic evaluation system. Indian livestock system is still lagging behind developed nations in adopting these technologies. This review discusses the current status, challenges, and future perspectives of livestock genomics in India. [ABSTRACT FROM AUTHOR]

The Ortho-endo interdisciplinary treatment for patients are mainly managed by postgraduate students who majorly provide treatment on out-patient basis in dental colleges in India. There is lack of research in assessing the knowledge and practice related skills of treating such interdisciplinary cases among post graduates of these respective departments. The objective of this survey was to evaluate the knowledge, attitude and practice of post-graduate students towards endodontic and orthodontic interdisciplinary approach in dental clinics. An online cross sectional KAP questionnaire survey was conducted among postgraduate students of dental colleges in Southern India which were divided into 2 study groups belonging to Orthodontics, and Conservative dentistry and endodontics departments respectively. A predetermined sample size of 400 participants were divided into 2 groups of 200 from each department. Questionnaire consisted of 15 questions, of which nine were to assess knowledge, three to learn the attitude and three were to understand the practice among postgraduate students. The data collected was analysed using SPSS version 23 on receiving 200 responses in each group. A total of 400 responses were obtained in a period of 2 months. The results derived were analysed in terms of percentage. More than half of the respondents could answer only 25% of the knowledge-based questions correctly. The responses for attitude-based questions showed more than 90% of the respondents were positively motivated to improve their knowledge and awareness. Less than 50% of respondents could aptly use their knowledge in clinical practice while treating interdisciplinary cases. Participants displaying limited knowledge about the subject but positive attitude towards it suggests that there is need to enhance awareness by means of continuous dental educational programs for both orthodontics and endodontics post graduate students focusing on ortho-endo interdisciplinary dental treatment needs, which will improve their awareness towards interdisciplinary treatment and its applicability in future practice. [ABSTRACT FROM AUTHOR]

Knowledge about genetic diversity is very essential for the management and sustainable utilization of livestock genetic resources. In this study, we presented a comprehensive genome-wide analysis of genetic diversity, ROH, inbreeding, linkage disequilibrium, effective population size and haplotype block structure in Tharparkar cattle of India. A total of 24 Tharparkar animals used in this study were genotyped with Illumina BovineSNP50 array. After quality control, 22,825 biallelic SNPs were retained, which were in HWE, MAF > 0.05 and genotyping rate >90%. The overall mean observed (HO) and expected heterozygosity (HE) were 0.339 ± 0.156 and 0.325 ± 0.129, respectively. The average minor allele frequency was 0.234 with a standard deviation of ± 0.131. We identified a total of 1832 ROH segments and the highest autosomal coverage of 13.87% was observed on chromosome 23. The genomic inbreeding coefficients estimates by FROH, FHOM, FGRM and FUNI were 0.0589, 0.0215, 0.0532 and 0.0160 respectively. The overall mean linkage disequilibrium (LD) for a total of 133,532 pairwise SNPs measured by D' and r2 was 0.6452 and 0.1339, respectively. In addition, we observed a gradual decline in effective population size over the past generations. [ABSTRACT FROM AUTHOR]

In the present study, to analyze the genomic ROH fragments, haplotypes, inbreeding coefficient and effective population size (Ne), SNP50K data of 72 Vrindavani crossbred cattle strain were obtained. After a quality check, 24,449 biallelic SNPs were retained, which were in HWE, MAF > 0.01 and genotyping rate >95%. A total of 385 ROH were found, and chromosome 25 was mostly covered with 50.86%, while chromosome one was least with 12.42%. We classified ROH into <10Mb, 10-15Mb, 15-20Mb, >20Mb categories and observed a 3% inbreeding coefficient for the population in >20Mb category. Inbreeding from an excess of homozygosity was found to be 6% in the population. Ne was also estimated through Ne Estimator and SNeP and in the recent generation, it was found to be 40 for a census size of 464 cattle. The Ne/Nc ratio was found to be 0.086 and a decreasing trend of Ne was observed for over five generations. 45.95% of the autosomal genome was covered with haplotypic structure with highest total block length in chromosome one and lowest in 28. From all the observations made in this study, it can be concluded that Vrindavani is an admixed cattle strain but have an unstable population structure in the current period. [ABSTRACT FROM AUTHOR]

• Combination of MAF-LD with Delta, F ST & FIFS methods enabled the selection of SNPs for breed purity. • 582 SNPs accurately assigned individuals to their respective breeds. • 63 Tharparkar-specific SNPs annotate to candidate genes of important phenotypic traits. Tharparkar cattle breed is widely known for its superior milch quality and hardiness attributes. This study aimed to develop an ultra-low density breed-specific single nucleotide polymorphism (SNP) genotype panel to accurately quantify Tharparkar populations in biological samples. In this study, we selected and genotyped 72 Tharparkar animals randomly from Cattle & Buffalo Farm of IVRI, India. This Bovine SNP50 BeadChip genotypic datum was merged with the online data from six indigenous cattle breeds and five taurine breeds. Here, we used a combination of pre-selection statistics and the MAF-LD method developed in our laboratory to analyze the genotypic data obtained from 317 individuals of 12 distinct breeds to identify breed-informative SNPs for the selection of Tharparkar cattle. This methodology identified 63 unique Tharparkar-specific SNPs near intermediate gene frequencies. We report several informative SNPs in genes/QTL regions affecting phenotypes or production traits that might differentiate the Tharparkar breed. [ABSTRACT FROM AUTHOR]

• The natural and artificial selection are expected to impose pressure on specific genomic regions and leave footprints called as "selection signatures" • We identified selective sweep regions based on Runs of Homozygosity (ROH) and Integrated Haplotype Score (iHS) • Highlighted candidate genes related to adaptation and production traits Knowledge about genetic diversity and selection signatures are very essential for the management and sustainable utilization of sheep genetic resources in India. In this study, we performed a comprehensive genome-wide analysis of genetic diversity and selection signatures using SNP data. A total of 79 animals from three Indian sheep breeds: Changthangi (n = 29), Deccani (n = 24), and Garole (n = 26) genotyped with Illumina Ovine SNP50 BeadChip were included in this study. The average minor allele frequency was 0.284 with a standard deviation of 0.129. The overall mean observed (H O) and expected heterozygosity (H E) were 0.369±0.141 and 0.373±0.118, respectively. The proportion of polymorphic SNPs (P N) ranged from 0.84 (Garole) to 0.93 (Changthangi). The average pairwise genetic distance (D) ranged from 0.301 (Garole) to 0.313 (Changthangi). We identified a total of 9244 ROH segments and the genomic inbreeding coefficients ranged from 0.0673 (Deccani) to 0.1779 (Garole). Two different statistical approaches (ROH and iHS) revealed selection signatures in 37 genomic regions mapping to 188 genes across 16 of the 26 autosomes in three sheep breeds. The selective sweeps provide new insights into the local adaptation and production potential of three Indian sheep breeds. Some notable candidate genes include the TRPM8 gene involved in cold adaptation, JADE2, PLEKHB2, SPP2, TSHR, and UBE2B genes associated with meat quality traits, and the PPP3CA gene associated with fecundity. [ABSTRACT FROM AUTHOR]

Leech infestation poses a significant threat to Mithun (Bos frontalis) in the north-eastern region of India, leading to various health issues and potential fatality. To address this pressing concern, we conducted a comprehensive research study aimed at assessing the efficacy of herbal plant extracts against aquatic leeches, particularly Tyrannobdella rex, and land leeches of the Philobdella sp. Our investigation involved the evaluation of six distinct plant extracts, with a focus on their ability to combat leech infestation. The results of our study revealed that among the various plant extracts tested, only the ethanolic extracts of soapnut (Sapindus mukorossi) and tobacco (Nicotiana tabacum) exhibited notable effectiveness in combating aquatic leeches. At a concentration of 5%, these extracts displayed significant lethality, with soapnut extract achieving a remarkable kill time of 6.0 ± 0.40 min, while tobacco extract showed a kill time of 31.5 ± 1.32 min. In the case of land leeches, tobacco extract proved to be highly efficient, with an average kill time of 1.5 ± 0.28 min at a 5% concentration. Soapnut extract also exhibited effectiveness against land leeches, albeit with a slightly longer kill time of 14.25 ± 1.10 min at the same concentration. Additionally, Litsea grass oil (Litsea cubeba) demonstrated promising efficacy against both aquatic and land leeches, suggesting its potential as a versatile leech control agent. These compelling findings have significant implications for the management and control of leech infestation among Mithun populations. By identifying and harnessing the leech-repelling properties of soapnut, tobacco, and Litsea grass oil, this research offers practical and environmentally friendly solutions for mitigating the adverse effects of leech infestation. Furthermore, the insights gained from this study pave the way for the development of innovative strategies to safeguard the health and well-being of Mithun in the future., Competing Interests: Declaration of competing interest There was no conflict of interest among the authors., (Copyright © 2024 Elsevier B.V. All rights reserved.)

Mithun (Bos frontalis), a domestically raised herbivore, holds significant economic importance for the farming community of Northeast India. This study aimed to elucidate the genetic parameters governing Mithun body weight traits across different ages using data from the sole organized semi-intensive Mithun farm in India. Information was gathered from 110 Mithuns born over a period spanning from 2011 to 2022. Body weight taken at week 1 (W1), 1-month (M1), 3-months (M3), 6-months (M6), 9-months (M9), 12-months (M12), 30-months (M30) and 45-months (M45) were considered for the study. The genetic parameters estimation employed the BLUPF90 suite of programs, incorporating univariate Gibbs sampler animal model with fixed effects; season and period of birth, and sex of the animal. Variance and covariance components, including direct additive genetic effects, were estimated. Heritability estimates for the eight body weight traits ranged from 0.47 ± 0.0050 to 0.50 ± 0.0043, indicating varying genetic influence across growth stages. Results revealed that Mithun herd has a substantial genetic variability for growth traits and therefore there is ample scope to select for a better growth rate. Here, we conclude that Month 12 (M12) and Month 9 (M9) body weights exhibit higher heritability, indicating potential for genetic improvement through selective breeding., (© 2024. The Author(s), under exclusive licence to Springer Nature B.V.)

With the upsurge of crossbreeding in India, the admixture levels are highly unpredictable in the composite breeds. Hence, in the present study, 72 Vrindavani animals were assessed for the level of admixture from their known ancestors that are Holstein-Friesian, Jersey, Brown Swiss, and Hariana, through three different software, namely, STRUCTURE, ADMIXTURE, and frappe. The genotype data for ancestral breeds were obtained from a public repository, i.e., DRYAD. The Frieswal crossbred cattle along with ancestral breeds like Holstein-Friesian and Sahiwal were also investigated for the level of admixture with the help of the above-mentioned software. The Frieswal population was found to comprise an average of 62.49, 61.12, and 61.21% of Holstein-Friesian and 37.50, 38.88, and 38.80% of Sahiwal estimated through STRUCTURE, ADMIXTURE, and frappe, respectively. The Vrindavani population was found to consist of on average 39.5, 42.4, and 42.3% of Holstein-Friesian; 22.9, 22.3, and 21.7% of Jersey; 10.7, 10.6, and 11.9% of Brown Swiss; and 26.9, 24.7, and 24.1% of Hariana blood estimated through STRUCTURE, ADMIXTURE, and frappe, respectively. A greater degree of variation was noted in the results from STRUCTURE vs. frappe, STRUCTURE vs. ADMIXTURE than in ADMIXTURE vs. frappe. From this study, we conclude that the admixture analysis based on a single software should be validated through the use of many different approaches for better prediction of admixture levels., (© 2022. The Author(s), under exclusive licence to Springer Nature B.V.)

Background: Bisphenol A (BPA) is a product in the manufacture of Bis-GMA, which is commonly used in dentistry, and is known to have a number of adverse effects., Objectives: The aim of this study is to evaluate to assess the knowledge, attitude and practice based on exposure and handling of BPA containing materials among dental surgeons for better understanding about the level of care rendered to the patients., Material and Methods: A questionnaire survey was conducted on 400 dental surgeons in Southern India. The questionnaire consisted of 20 objective type questions out of which ten questions assessed knowledge and five questions assessed the attitude and five questions to understand the practice related measures taken by the dentist. The data collected were analysed using SPSS version 23., Results: A total of 402 responses were collected for this online questionnaire survey over a period of 2 months. It was found that females showed higher knowledge and attitude towards exposure to BPA which was statistically significant when compared to males. It showed that dentists with more than 20 years of practice had a higher level of knowledge. Though most of the groups agreed fairly on safety practice to be undertaken related to BPA exposure in their clinics, the ones with experience more than 20 years displayed the least positive attitude and dentists with 6-10 years of practice had the least positive behaviour among all., Conclusions: In spite of having a good knowledge regarding the harmful effects of BPA, dental surgeons are not very cautious while using materials containing them on a regular basis. Therefore, there is a need to enhance the awareness with the help of Continuing Dental Education programs or proper instructions on the packaging., Competing Interests: None, (© Copyright by the National Institute of Public Health NIH - National Research Institute.)