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1.
Trop Anim Health Prod ; 56(6): 204, 2024 Jul 12.
Artigo em Inglês | MEDLINE | ID: mdl-38995429

RESUMO

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.


Assuntos
Peso Corporal , Animais , Masculino , Feminino , Índia , Modelos Animais , Bovinos/genética , Bovinos/crescimento & desenvolvimento , Bovinos/fisiologia , Variação Genética
2.
Anim Genet ; 54(1): 3-23, 2023 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-36352515

RESUMO

Natural fibers derived from diverse animal species have gained increased attention in recent years due to their favorable environmental effects, long-term sustainability benefits, and remarkable physical and mechanical properties that make them valuable raw materials used for textile and non-textile production. Domestication and selective breeding for the economically significant fiber traits play an imperative role in shaping the genomes and, thus, positively impact the overall productivity of the various fiber-producing species. These selection pressures leave unique footprints on the genome due to alteration in the allelic frequencies at specific loci, characterizing selective sweeps. Recent advances in genomics have enabled the discovery of selection signatures across the genome using a variety of methods. The increased demand for 'green products' manufactured from natural fibers necessitates a detailed investigation of the genomes of the various fiber-producing plant and animal species to identify the candidate genes associated with important fiber attributes such as fiber diameter/fineness, color, length, and strength, among others. The objective of this review is to present a comprehensive overview of the concept of selection signature and selective sweeps, discuss the main methods used for its detection, and address the selection signature studies conducted so far in the diverse fiber-producing animal species.


Assuntos
Genoma , Genômica , Animais , Fenótipo , Domesticação , Seleção Genética , Polimorfismo de Nucleotídeo Único
3.
Anim Biotechnol ; 34(4): 1655-1661, 2023 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-34806546

RESUMO

The present study was conducted on the MHC class I (BoLA-A/BuLA-A) gene in Sahiwal, Jersey, Hariana, and Tharparkar breeds of cattle and Murrah, Mehsana, and Bhadawari breeds of buffalo to study the polymorphism. Exons 7-8 of the MHC class I gene was first characterized for polymorphism study in buffalo and the results reveal that this gene has a higher level of nucleotide changes than the cattle. Genes were investigated for polymorphisms in 285 animals of cattle and buffalo breeds. Molecular characterization of the MHC class I (BoLa-A/Bula-A) gene reveals a higher degree of polymorphism at the nucleotide level in cattle and buffalo. Results revealed this region has a higher level of polymorphisms in buffalo as campared to the cattle. Alul restriction patterns were monomorphic except for three different patterns but it was able to illustrate the differences in buffalo and cattle. SSCP analysis of exons 7-8 showed remarkable differences in cattle and buffalo. Sequence analysis revealed more closeness of Murrah breed with crossbred and indigenous cattle than Holstein Friesian. Exon 8 had more deletion and stop codon as compared to exon 7. The investigation confirmed that MHC class I BoLa-A/Bula-A exons 7-8 is highly polymorphic in buffalo as compared to cattle.


Assuntos
Búfalos , Genes MHC Classe I , Bovinos/genética , Animais , Búfalos/genética , Filogenia , Éxons/genética , Nucleotídeos , Alelos
4.
Anim Biotechnol ; 34(4): 955-965, 2023 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-34813716

RESUMO

The BoLA class II DQA and DQB genes in crossbred cattle were studied using PCR-RFLP, cloning, and sequencing techniques. Seventy-two crossbred cattle (Vrindavani) were used in the current study. HaeIII and XbaI restriction enzymes digested DQA exon 2-3, revealing seven (HaeIII-A-G) and three (XbaI A-C) motifs, respectively. The BoLA-DQB gene was analyzed using PCR-RFLP with PstI and TaqI restriction enzymes, yielding five restriction motifs for each restriction enzyme (PstI-A-E and TaqI-A-E). In crossbred cattle, addition, deletion, and substitutions were observed in distinct sequences, resulting in variations in overall gene length. Changes in nucleotides at positions 64-80, 110-200, and 207-264 were largely responsible for polymorphism in DQA exon 2. The phylogenetic analysis predicted a high degree of nucleotide and amino acid changes in DQA exon 2-3 and DQB exon 2. DQA genes had a nucleotide dissimilarity of 0.3-25.4 percent, while DQB genes had a nucleotide dissimilarity of 1.5-14.3 percent. We cloned and sequenced 20 genotypes based on PCR-RFLP of the DQA and DQB genes. The current study observed variation in the DQA and DQB genes and will serve as a foundation for future research on the BoLA DQA and DQB genes.


Assuntos
Nucleotídeos , Bovinos/genética , Animais , Polimorfismo de Fragmento de Restrição , Filogenia , Sequência de Aminoácidos , Reação em Cadeia da Polimerase/veterinária , Clonagem Molecular , Alelos
5.
Anim Biotechnol ; 34(6): 1979-1987, 2023 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-35369840

RESUMO

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.


Assuntos
Estudo de Associação Genômica Ampla , Gado , Bovinos/genética , Animais , Gado/genética , Genômica/métodos , Fenótipo , Locos de Características Quantitativas/genética , Índia
6.
Anim Biotechnol ; 34(8): 4167-4173, 2023 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-37039747

RESUMO

Major Histocompatibility Complex (MHC) genes are among the immune genes that have been extensively studied in vertebrates and are necessary for adaptive immunity. In the immunological response to infectious diseases, they play several significant roles. This research paper provides the selection signatures in the MHC region of the bovine genome as well as how certain genes related to innate immunity are undergoing a positive selective sweep. Here, we investigated signatures of historical selection on MHC genes in 15 different cattle populations and a total of 427 individuals. To identify the selection signatures, we have used three separate summary statistics. The findings show potential selection signatures in cattle from whom we isolated genes involved in the MHC. The most significant regions related to the bovine MHC are BOLA, non-classical MHC class I antigen (BOLA-NC1), Microneme protein 1 (MIC1) , Cluster of Differentiation 244 (CD244), Gap Junction Alpha-5 Protein (GJA5). It will be possible to gain new insight into immune system evolution by understanding the distinctive characteristics of MHC in cattle.


Assuntos
Genoma , Antígenos de Histocompatibilidade Classe I , Humanos , Bovinos/genética , Animais , Genoma/genética , Cruzamento , Imunidade Inata/genética
7.
Anim Biotechnol ; 34(2): 448-455, 2023 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-34191685

RESUMO

Copy number variations (CNVs) are major forms of genetic variation with an increasing importance in animal genomics. This study used the Illumina BovineSNP 50 K BeadChip to detect the genome-wide CNVs in the Tharparkar cattle. With the aid of PennCNV software, we noticed a total of 447 copy number variation regions (CNVRs) across the autosomal genome, occupying nearly 2.17% of the bovine genome. The average size of detected CNVRs was found to be 122.2 kb, the smallest CNVR being 50.02 kb in size, to the largest being 1,232.87 Kb. Enrichment analyses of the genes in these CNVRs gave significant associations with molecular adaptation-related Gene Ontology (GO) terms. Most CNVR genes were significantly enriched for specific biological functions; signaling pathways, sensory responses to stimuli, and various cellular processes. In addition, QTL analysis of CNVRs described them to be linked with economically essential traits in cattle. The findings here provide crucial information for constructing a more comprehensive CNVR map for the indigenous cattle genome.


Assuntos
Variações do Número de Cópias de DNA , Polimorfismo de Nucleotídeo Único , Bovinos , Animais , Genoma , Fenótipo , Aclimatação
8.
Anim Biotechnol ; 34(8): 3783-3795, 2023 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-37381739

RESUMO

Riverine Buffaloes, especially the Murrah breed because of their adaptability to harsh climatic conditions, is farmed in many countries to convert low-quality feed into valuable dairy products and meat. Here, we investigated the copy number variations (CNVs) in 296 Murrah buffalo using the Axiom® Buffalo Genotyping Array 90K (Affymetrix, Santa Clara, CA, USA). The CNVs were detected on the autosomes, using the Copy Number Analysis Module (CNAM) using the univariate analysis. 7937 CNVs were detected in 279 Buffaloes, the average length of the CNVs was 119,048.87 bp that ranged between 7800 and 4,561,030 bp. These CNVs were accounting for 10.33% of the buffalo genome, which was comparable to cattle, sheep, and goat CNV analyses. Further, CNVs were merged and 1541 CNVRs were detected using the Bedtools-mergeBed command. 485 genes were annotated within 196 CNVRs that were identified in at least 10 animals of Murrah population. Out of these, 40 CNVRs contained 59 different genes that were associated with 69 different traits. Overall, the study identified a significant number of CNVs and CNVRs in the Murrah breed of buffalo, with a wide range of lengths and frequencies across the autosomes. The identified CNVRs contained genes associated with important traits related to production and reproduction, making them potentially important targets for future breeding and genetic improvement efforts.


Assuntos
Búfalos , Variações do Número de Cópias de DNA , Bovinos , Animais , Ovinos/genética , Variações do Número de Cópias de DNA/genética , Búfalos/genética , Genoma/genética , Fenótipo , Polimorfismo de Nucleotídeo Único
9.
Anim Biotechnol ; 34(8): 3920-3933, 2023 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-37493405

RESUMO

The identification of candidate genes related to pigmentation and under selective sweep provides insights into the genetic basis of pigmentation and the evolutionary forces that have shaped this variation. The selective sweep events in the genes responsible for normal coat color in Indian cattle groups are still unknown. To find coat color genes displaying signs of selective sweeps in the indigenous cattle, we compiled a list of candidate genes previously investigated for their association with coat color and pigmentation. After that, we performed a genome-wide scan of positive selection signatures using the BovineSNP50K Bead Chip in 187 individuals of seven indigenous breeds. We applied a wide range of methods to find evidence of selection, such as Tajima's D, CLR, iHS, varLD, ROH, and FST. We found a total of sixteen genes under selective sweep, that were involved in coat color and pigmentation physiology. These genes are CRIM1 in Gir, MC1R in Sahiwal, MYO5A, PMEL and POMC in Tharparkar, TYRP1, ERBB2, and ASIP in Red Sindhi, MITF, LOC789175, PAX3 and TYR in Ongole, and IRF2, SDR165 and, KIT in Nelore, ADAMTS19 in Hariana. These genes are related to melanin synthesis, the biology of melanocytes and melanosomes, and the migration and survival of melanocytes during development.


Assuntos
Genoma , Polimorfismo de Nucleotídeo Único , Humanos , Animais , Bovinos/genética , Pigmentação/genética , Cruzamento
10.
Parasitol Res ; 123(1): 36, 2023 Dec 13.
Artigo em Inglês | MEDLINE | ID: mdl-38086995

RESUMO

Oriental theileriosis caused by Theileria orientalis, previously considered a benign disease, is posing a significant threat to the livestock industry across the globe. To elucidate the prevalence of Theileria orientalis in ticks and their host, the Mithun, a comprehensive study was undertaken in the two northeastern states of India, viz. Nagaland and Arunachal Pradesh. A total of 340 of Rhipicephalus microplus ticks and 25 Ambylomma sp. ticks were screened for the presence of Theileria orientalis through PCR. Among the R. microplus ticks examined, 25 of them tested positive for T. orientalis infection whereas none of the Amblyomma ticks was positive. Additionally, a total of 275 blood samples were collected from Mithun from Arunachal and Nagaland and 31 animals were found to be positive for T. orientalis infection. Notably, six positive cases were identified in Porba (Phek district), six in Tening, and one in Bamsiakilwa village (Peren district) of Nagaland. Moreover, out of the 41 animals examined at Medziphema farms, Nagaland, 18 were found to be positive for T. orientalis infection. Moreover, the phylogenetic investigation has unveiled the presence of the highly pathogenic Type 2 (Ikeda) T. orientalis genotype in Mithun, supported by a strong bootstrap value of 100%. This study marks the initial documentation of oriental theileriosis in mithun. It underscores the need for vigilant monitoring and active surveillance of mithun populations in the northeastern states of India. Timely treatment of infected animals is imperative to avert economic losses for the farmers.


Assuntos
Doenças dos Bovinos , Theileria , Theileriose , Animais , Bovinos , Theileria/genética , Theileriose/epidemiologia , Filogenia , Doenças dos Bovinos/epidemiologia , Genótipo
11.
Microb Pathog ; 165: 105483, 2022 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-35318070

RESUMO

The bovine TLR4 gene is an interesting candidate marker for mastitis resistance, since it is involved in neutrophil migration to and from the mammary gland during mastitis. TLR4 detects pathogen ligands, such as the Escherichia coli lipopolysaccharide (LPS) endotoxin and facilitates innate and adaptive immune responses. In the current study, a total of 130 crossbred cows (74 mastitis tolerant and 56 with clinical mastitis) kept at the Cattle and Buffalo Farm, IVRI, Izatnagar, were selected to explore the polymorphism in the co-receptor binding region 2 (CRBR2) fragment of the TLR4 gene. PCR-SSCP and sequence analysis showed two genotypes of the TLR4 gene's CRBR2 fragment, AA and AB, which were polymorphic in both the afflicted and tolerant groups. Sequencing revealed eight single nucleotide polymorphisms (SNPs) in allele A and ten SNPs in allele B. This genotype had no significant effect on the incidence of clinical mastitis according to the logistic regression model. Our study found insufficient evidence linking SNP variants in the CRBR2 region of the TLR4 gene to mastitis susceptibility in crossbred cattle.


Assuntos
Mastite Bovina , Animais , Bovinos , Feminino , Genótipo , Humanos , Polimorfismo de Nucleotídeo Único , Receptor 4 Toll-Like/genética
12.
Anim Biotechnol ; : 1-12, 2022 Nov 17.
Artigo em Inglês | MEDLINE | ID: mdl-36384399

RESUMO

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.

13.
Anim Biotechnol ; 33(2): 297-311, 2022 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-32730141

RESUMO

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.


Assuntos
Polimorfismo de Nucleotídeo Único , Animais , Bovinos/genética , Genótipo , Haplótipos , Homozigoto , Índia , Desequilíbrio de Ligação , Polimorfismo de Nucleotídeo Único/genética
14.
Genomics ; 113(3): 955-963, 2021 05.
Artigo em Inglês | MEDLINE | ID: mdl-33610795

RESUMO

Domestication and selection are the major driving forces responsible for the determinative genetic variability in livestock. These selection patterns create unique genetic signatures within the genome. BovineSNP50 chip data from 236 animals (seven indicine and five taurine cattle breeds) were analyzed in the present study. We implemented three complementary approaches viz. iHS (Integrated haplotype score), ROH (Runs of homozygosity), and FST, to detect selection signatures. A total of 179, 56, and 231 regions revealed 518, 277, and 267 candidate genes identified by iHS, ROH, and FST methods, respectively. We found several candidate genes (e.g., NCR3, ARID5A, HIST1H2BN, DEFB4, DEFB7, HSPA1L, HSPA1B, and DNAJB4) related to production traits and the adaptation of indigenous breeds to local environmental constraints such as heat stress and disease susceptibility. However, further studies are warranted to refine the findings using a larger sample size, whole-genome sequencing, and/or high density genotyping.


Assuntos
Polimorfismo de Nucleotídeo Único , Seleção Genética , Animais , Bovinos/genética , Genômica , Haplótipos , Fenótipo
15.
Trop Anim Health Prod ; 54(2): 135, 2022 Mar 15.
Artigo em Inglês | MEDLINE | ID: mdl-35292868

RESUMO

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.


Assuntos
Povo Asiático , Hibridização Genética , Animais , Bovinos/genética , Genótipo , Humanos , Índia , Software
16.
Anim Biotechnol ; 32(1): 130-136, 2021 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-31364913

RESUMO

Single nucleotide polymorphisms (SNPs) have now replaced microsatellite markers in several species for various genetic investigations like parentage assignment, genetic breed composition, assessment for individuality and, most popularly, as a useful tool in genomic selection. However, such a resource, which can offer to assist breed identification in a cost-effective manner is still not explored in cattle breeding programs. In our study, we have tried to describe methods for reducing the number of SNPs to develop a breed-specific panel. We have used SNP data from Dryad open public access repository. Starting from a global dataset of 178 animals belonging to 10 different breeds, we selected five panels each comprising of similar number of SNPs using different methods i.e., Delta, Pairwise Wright's FST, informativeness for assignment, frequent item feature selection (FIFS) and minor allele frequency-linkage disequilibrium (MAF-LD) based method. MAF-LD based method has been recently developed by us for construction of breed-specific SNP panels. The STRUCTURE software analysis of MAF-LD based method showed appropriate clustering in comparison to other panels. Later, the panel of 591 breed-specific SNPs was called to their respective breeds using Venny 2.1.0 and UGent web tools software. Breed-specific SNPs were later annotated by using various Bioinformatics softwares.


Assuntos
Bovinos/classificação , Bovinos/genética , Técnicas de Genotipagem/métodos , Polimorfismo de Nucleotídeo Único/genética , Animais , Cruzamento , Desequilíbrio de Ligação/genética
17.
Rocz Panstw Zakl Hig ; 72(4): 443-451, 2021.
Artigo em Inglês | MEDLINE | ID: mdl-34928121

RESUMO

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.


Assuntos
Conhecimentos, Atitudes e Prática em Saúde , Cirurgiões , Compostos Benzidrílicos , Feminino , Humanos , Índia , Masculino , Fenóis
18.
OMICS ; 2024 Sep 20.
Artigo em Inglês | MEDLINE | ID: mdl-39302202

RESUMO

Cattle breed identification is crucial for livestock research and sustainable food systems, and advances in genomics and artificial intelligence present new opportunities to address these challenges. This study investigates the identification of the Tharparkar cattle breed using genomics tools combined with machine learning (ML) techniques. By leveraging data from the Bovine SNP 50K chip, we developed a breed-specific panel of single nucleotide polymorphisms (SNPs) for Tharparkar cattle and integrated data from seven other Indian cattle populations to enhance panel robustness. Genome-wide association studies (GWAS) and principal component analysis were employed to identify 500 SNPs, which were then refined using ML models-AdaBoost, bagging tree, gradient boosting machines, and random forest-to determine the minimal number of SNPs needed for accurate breed identification. Panels of 23 and 48 SNPs achieved accuracy rates of 95.2-98.4%. Importantly, the identified SNPs were associated with key productive and adaptive traits, thus attesting to the value and potentials of digital transformation in livestock genomics. The ML-aided ultra-low-density SNP panel approach reported here not only facilitates breed identification but also contributes to preserving genetic diversity and guiding future breeding programs.

19.
OMICS ; 28(8): 380-393, 2024 08.
Artigo em Inglês | MEDLINE | ID: mdl-39012961

RESUMO

Bottlenecks in moving genomics to real-life applications also include phenomics. This is true not only for genomics medicine and public health genomics but also in ecology and livestock phenomics. This expert narrative review explores the intricate relationship between genetic makeup and observable phenotypic traits across various biological levels in the context of livestock research. We unpack and emphasize the significance of precise phenotypic data in selective breeding outcomes and examine the multifaceted applications of phenomics, ranging from improvement to assessing welfare, reproductive traits, and environmental adaptation in livestock. As phenotypic traits exhibit strong correlations, their measurement alongside specific biological outcomes provides insights into performance, overall health, and clinical endpoints like morbidity and disease. In addition, automated assessment of livestock holds potential for monitoring the dynamic phenotypic traits across various species, facilitating a deeper comprehension of how they adapt to their environment and attendant stressors. A key challenge in genetic improvement in livestock is predicting individuals with optimal fitness without direct measurement. Temporal predictions from unmanned aerial systems can surpass genomic predictions, offering in-depth data on livestock. In the near future, digital phenotyping and digital biomarkers may further unravel the genetic intricacies of stress tolerance, adaptation and welfare aspects of animals enabling the selection of climate-resilient and productive livestock. This expert review thus delves into challenges associated with phenotyping and discusses technological advancements shaping the future of biological research concerning livestock.


Assuntos
Gado , Fenômica , Fenótipo , Gado/genética , Animais , Fenômica/métodos , Genômica/métodos
20.
Vet Parasitol Reg Stud Reports ; 54: 101088, 2024 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-39237232

RESUMO

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.


Assuntos
Sanguessugas , Extratos Vegetais , Animais , Extratos Vegetais/farmacologia , Sanguessugas/efeitos dos fármacos , Índia , Nicotiana/química , Ectoparasitoses/parasitologia , Ectoparasitoses/tratamento farmacológico , Ectoparasitoses/veterinária , Etanol
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