In this study, approximately 3.4 kb nucleotide sequence of caprine TLR7 (Toll-like receptor 7) gene was generated from twelve different Indian goat breeds belonging to different geographical regions. Goat TLR7 gene ORF (Open Reading Frame) was found to be 3141 nucleotides long coding for 1046 amino acids similar to sheep. The sequence analysis at nucleotide level revealed goat TLR7 having 99.5% homology with sheep, followed by other livestock species. Simple Modular Architecture Research Tool (SMART) was used for the structural analysis of goat TLR7 that showed the presence of 22 leucine rich repeats (LRRs) along with single Toll/interleukin-1 receptor (TIR) domains. TIR domain, when compared, was found to be similar in ruminant species, goat, sheep, cattle, and buffalo. The phylogenetic analysis also revealed grouping of all ruminant species together, goat being closer to sheep followed by cattle and buffalo. A total of 22 polymorphic sites were observed in TLR7 gene of 24 goats representing 12 different breeds, out of which 19 were present within the coding region and three in 3'UTR. Out of the seven nonsynonymous SNPs, two were in ectodomains and one in TIR domain. Overall our results indicate substantial variation within goat TLR7 gene, which could be exploited for association with disease susceptibility.
Systems biology is concerned with the study of biological systems, by investigating the components of cellular networks and their interactions. The objective of present study is to build gene-gene interaction network of human cytomegalovirus genes with human genes and other influenza causing genes which helps to identify pathways, recognize gene function and find potential drug targets for cytomegalovirus visualized through cytoscape and its plugin. So, genetic interaction is logical interaction between two genes and more than that affects any organism phenotypically. Human cytomegalovirus has many strategies to survive the attack of the host. Human cytomegalovirus infection of host cells induces cellular activation and disturbance of the cell cycle. Further functional analysis was done to know functionally active genes to cause infection and also these genes will be used as targets to prevent infection spread through virus and then ontology analysis was performed to those functionally active genes describes gene products in terms of their associated biological processes, cellular components and molecular functions by using clueGO Plugin.
Background: There are certain cattle breeds which are adaptable to the temperate type environmental conditions of high altitude regions of Himalayas. The genome of such cattle have signature of adaptability in the genes related to the hypoxia. Therefore, the current study was undertaken on three hypoxia related genes (EGLN2, EGLN3 and EPAS1) in four breeds of cattle adapted to the diverse agro-climatic conditions of high (Ladakhi and Siri) and low (Hallikar and Kankrej) altitude.Methods: The genotyping of the samples was carried out by using 777 K BovineHD BeadChip (Illumina) at Agri genome Pvt. Ltd (Kerala) and the in-silico analysis of the samples was carried out at ICAR-NBAGR during 2019-2020. The SNPs underlying the genes were evaluated for the gene and genotypic frequencies at nine SNP loci residing in these three candidate genes (EGLN2, EGLN3 and EPAS1). The diversity parameters for these SNPs were assessed by GenAlEx 6.2 software and Minor Allele Frequency (MAF) differences among the breeds were calculated by Duncan’s Multiple Range Test (DMRT) using SAS software. The mi-RNA binding sites in the 3’UTR region of genes were identified by TargetScan software.Result: Higher level of polymorphism was obtained in the Ladakhi and Siri breeds of cattle of high altitude/ cold adapted region than Hallikar and Kankrej of plain and hot arid/ semi-arid region. Several mi-RNA binding sites were obtained in the 3’UTR region of these 3 genes by Target Scan software. The polymorphism obtained in these candidate genes can be utilized in the markers assisted selection of the animals more adapted to the extreme cold and high altitude region for their genetic improvement as well as designing tools for the therapy of the diseases prevalent at high altitude.
The soil of the experimental field was sandy loam texture having pH of 7.3. Soil is moderately fertile being low in available organic carbon (0.34%) and medium in available nitrogen (172 kg N ha -1 ), available phosphorus (13.8 kg N ha -1 ) and available potash (182 kg N ha -1 ). Experiment was laid out in randomized complete block design (RCBD) replicated thrice with thirteen different onion accessions as treatments viz. KLO-1, KLO-2, KLO-3, KLO-4, KLO-5, KLO-6, KLO-7, KLO-8, KLO-9, KLO-10, KLO-11 with two checks i.e. Bhima Shakti (C) and Agrifound Light Red (C). The results showed that Polar diameter (cm) and Equatorial diameter (cm) was found highest in KLO-3. Neck thickness (cm) was recorded maximum in Bhima Shakti. KLO-9 observed maximum A-grade bulbs percentage, Bolter bulbs (%) and Double bulbs (%). Maximum B-grade bulbs percentage was recorded by KLO-8 where as KLO-4 recorded maximum C-grade bulbs percentage. Maximum Average bulb weight (g), Total yield (q/ha) and Marketable yield (q/ha) was recorded in KLO-6.
Linkage disequilibrium and recombination rate analysis are the major aspects to study association between nucleotide variations. Species of Fusarium oxysporum includes extensive group of soil and plant pathogens which causes vascular wilt and root diseases to wide range of agricultural crops. Further F. oxysporum is divided into more than 120 formea species (f.sp.) depending upon their hosts. Among all formea species, Fusarium oxysporum f. sp. lycopersici (Fol) is well known pathogen which infects tomato plants and leads towards a destructive disease i.e. “Fusarium wilt”. Our study is focused to analyse association based linkage disequilibrium pattern and recombination rate in five genes of interest for causing pathogenicity in both, plants as well as humans. The fmk1 gene has the highest average nucleotide diversity (ð) value (0.66) and lowest was found in fpr1 (0.54) whereas calculation of average number of nucleotide variation per site showed that gene fpr1 (765) to be highly variating gene and fmk1 (121) to be lowest variating gene. Further, LD analysis all polymorphic sites were considered except those sites which were segregating for three or four nucleotides. LD was calculated in terms of ZnS and variations indicate the success of linkage study and minimum number of recombination event identified in terms of Rm. Through observation it is concluded that the low nucleotide diversity was there, due to the presence of high number of repeated variable nucleotides in sequence because the current estimated LD suggests that it does not extend beyond a few hundreds of base pair.
Currently, a real challenge for the workers in the agricultural research field is to stop or reduce the use of expensive agrochemicals/ chemical fertilizers which are hazardous to the environment as well as human health. Present study was aimed to improve the growth and obtain optimum yield of Vigna crop with eco-friendly, non-toxic way and to reduce the use of agrochemical/chemical fertilizer application in agricultural activities. A pot experiment was conducted to study the effect of chemical fertilizer (DAP) and biofertilizer ( Rhizobium strain) separately and in combination on seed germination and seedling growth (at 30 days) based on morphological parameters such as seedling length (cm), fresh weight (g), dry weight (g) and leaf area (cm)2 of Vigna radiata (L.) Wilczek. After one month (30 Days) observations, it was found that seedling length, fresh and dry weights and leaf area were maximum in T4 and minimum in T15, T7 and T8 favored improved seedling length and leaf area whereas T7, T8, and T9 favored improved fresh and dry weights as compared to control.
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