School Of Basic And Applied Sciences

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Author: search.filters.author.Choudhary, ShrutiHas files: Yes

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Now showing 1 - 6 of 6
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    Exploring microRNA profiles for circadian clock and flowering development regulation in Himalayan Rhododendron
    (Elsevier, 2018) Choudhary, Shruti; Thakur, Sapna; Majeed, Aasim; Bhardwaj, Pankaj
    miRNA is a non-coding, yet crucial entity in remodeling the genetic architecture. Rhododendron arboreum of Himalayas grows and even flower under fluctuating climate. sRNA from leaves of vegetative and reproductive periods was sequenced to elucidate its seasonal associations. Conserved (256) and novel (210) miRNAs and their precursors were located based on homology with plant databases and transcriptome of the species. 27,139 predicted targets were involved with metabolism, reproduction, and response to abiotic stimuli. A comparative analysis showed differential expression of 198 miRNAs with season-specific abundance of 103 miRNAs. Specific isoforms of 11 miRNA families exhibited a temporal expression and targeted different genes implying a complex regulation. The variable miRNA expression among the tissues of different conditions can be associated with the adaptability of the species, which will prove essential for further study on miRNAs mediating seasonal response. Moreover, exogenous cues also mediate phase transition via networking of flowering pathways and their components. In this context, 18 known families and 77 novel miRNAs modulating 117 genes crucial in circadian entrainment were filtered. A negative correlation was obtained between the expression of 18 of these miRNAs and their targets when tested through quantitative-PCR. It highlighted the role of miRNA-target pairs in perceiving environmental variabilities and monitoring flowering growth. Furthermore, a phylogenetic clustering was performed, which supported the lineage-specific evolution and function of putative miR156 sequence in the species. This documentation of genome-wide profiling of miRNA, their targets, and expression will enhance the understanding of developmental and climate-tolerance strategies in high-altitude trees.
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    Development and chacterization of genomic microsatellite markers in rhdodendron arboreum
    (Central University of Punjab, 2014) Choudhary, Shruti; Bhardwaj, Pankaj
    Rhododendron arboreum, a key species inhabiting Indian Himalayas, has ecological and economic importance. Global climate change and anthropogenic activities can pose a threat to the biodiversity richness. Population genetics characteristics are the fundamentals of conservation and management practices. However, no genetic background for the species is presently available. To provide an insight into the population structure of the species, an effective marker resource was developed. A genomic library enriched for microsatellites was constructed using biotin- streptavidin hybridization technique, followed by sequencing of positive clones. With 54% enrichment rate, 41 primers were designed from SSR clones, consisting of perfect or interrupted repeats of AG/CT, AC/GT motifs. 38 loci showed successful amplification on genotypes of three populations with number of alleles ranging from 2 to 14, observed and expected heterozygosity of 0.167 to 0.933 and 0.422 to 0.917, respectively and average polymorphic information content of 0.104 to 0.811. A high gene flow (Nm= 5.436) demonstrated high genetic diversity within the populations. 19 loci displayed significant deviations from Hardy Weinberg equilibrium. Overall no linkage disequilibrium and bottleneck was detected among sampled populations. DARwin and STRUCTURE analysis grouped the populations into two original clusters and admixed genetic stock irrespective of their geographical locations. These novel loci will support further genotyping studies in R. arboreum.
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    Genetic diversity and population structure of Melia azedarach in North-Western Plains of India
    (Springer Verlag, 2016) Thakur, Sapna; Choudhary, Shruti; Singh, Amandeep; Ahmad, Kamal; Sharma, Gagan; Majeed, Aasim; Bhardwaj, Pankaj
    Key message: Genetic structure amongM. azedarachpopulations was detected and two subpopulations were present among them. A significant ?isolation by distance? was found inM. azedarachpopulation in North-Western Plains of India. Abstract: Melia azedarach is an important forest tree with pharmaceutical, insecticidal, pesticidal, and commercial significance. It is a good reforestation tree because of its fast growth and drought hardy nature. Genetic variation in a species allows itself to adapt, evolve and respond to environmental stress. It provides the basis for survival of a species and critically influences its evolutionary potential. Assessment of genetic diversity is necessary for improvement and conservation of a species. For this, microsatellite markers are of particular interest given the attributes like co-dominance, reproducibility, hyper variability and abundance throughout the genome. In the present study, we analyzed the genetic diversity and population structure of M. azedarach, an ecologically imperative species growing in the North-Western Plains of India. We developed 43 microsatellite markers, of which 20 were subsequently employed for analysis of diversity and population structure among 33 populations encompassing 318 genotypes representing North-Western Plains of India. A moderate level of diversity (Na?=?5.1, Ho?=?0.506, He?=?0.712, I?=?1.386) was assessed. The highest value of ?K estimated using STRUCTURE indicated 2 subpopulations (K?=?2). AMOVA exhibited 73?% variation within populations and 12?% variation was found among regions. Significant positive correlation between geographical and genetic distance was found (Rxy?=?0.365, P?=?0.010). The present study lays a foundation on a better understanding of genetic dynamics of the species and reveals its diversity and population structure in North-Western Plains of India. ? 2016, Springer-Verlag Berlin Heidelberg.
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    Development and characterization of genomic microsatellite markers in Tinospora cordifolia
    (Springer India, 2017) Gargi, Madhuranjana; Thakur, Sapna; Anand, Shashi Shekhar; Choudhary, Shruti; Bhardwaj, Pankaj; Gargi, M.; Thakur, S.; Anand, S.S.; Choudhary, S.; Bhardwaj, P.
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    Development and characterization of genomic microsatellite markers in Prosopis cineraria
    (Elsevier B.V., 2017) Anand, Shashi Shekhar; Thakur, Sapna; Gargi, Madhuranjana; Choudhary, Shruti; Bhardwaj, Pankaj; Anand, S.S.; Thakur, S.; Gargi, M.; Choudhary, S.; Bhardwaj, P.
    Characterization of genetic diversity is a must for exploring the genetic resources for plant development and improvement. Prosopis cineraria is ecologically imperative species known for its innumerable biological benefits. Since there is a lack of genetic resources for the species, so it is crucial to unravel the population dynamics which will be very effective in plant improvement and conservation strategies. Of the 41 genomic microsatellite markers designed from (AG)n enriched library, 24 were subsequently employed for characterization on 30 genotypes of Indian arid region. A total of 93 alleles with an average 3.875 could be amplified by tested primer pairs. The average observed and expected heterozygosity was 0.5139 and 0.5786, respectively with 23 primer pairs showing significant deviations from Hardy-Weinberg equilibrium. Polymorphic information content average to 0.5102 and the overall polymorphism level was found to be 93.27%. STRUCTURE analysis and DARwin exhibited the presence of 4 clusters among 30 genotypes. ? 2017 The Authors
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    Development and characterization of genomic microsatellite markers in Rhododendron arboreum
    (Kluwer Academic Publishers, 2014) Choudhary, Shruti; Thakur, Sapna; Saini, Ram Gopal; Bhardwaj, Pankaj; Choudhary, S.; Thakur, S.; Saini, R.G.; Bhardwaj, P.
    Population genetics characteristics are the fundamentals of conservation and management practices. Rhododendronarboreum, a key biodiversity component inhabiting Indian Himalayas, suffers from overexploitation and global warming. Using biotin?streptavidin hybridization technique, 41 microsatellite markers were designed from an enriched DNA library to provide a genetic background and an insight into the population structure of the species. With a range of 2?14 alleles amplified from 38 loci, the populations were reported with observed and expected heterozygosity of 0.167?0.933 and 0.422?0.917 respectively. Some of the loci showed significant deviations from Hardy?Weinberg equilibrium and overall no linkage disequilibrium was detected. These markers will support genetic diversity and further genotyping studies in R. arboreum. ? 2014, Springer Science+Business Media Dordrecht.