Browsing by Author "Sharma, Vikas"

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Identification and cross-species amplification of microsatellite markers derived from expressed sequence data of rose species
(Springer India, 2015) Sharma, Ram Kumar; Chaudhary, Anil; Sharma, Himanshu; Bhardwaj, Pankaj; Sharma, Vikas; Kumar, Rahul; Ahuja, Paramveer Singh
Genic SSR markers derived from public expressed sequence tags (ESTs) data are valuable and cost effective marker resources for genome mapping and diversity studies. Owing to their derivation from the transcribed regions which often have putative functions, these markers can be easily associated with desired trait. In the present study, 19 novel SSR markers were identified from 450 non redundant unigenes derived from 3,726 public ESTs of two rose species. Among SSRs, tri-repeats (61.3?%) were most abundant followed by di-repeat (29?%). Newly identified EST-SSR markers recorded significant homology with the known/putative proteins of Arabidopsis thaliana. The cross transferability to 12 rose species ranged from 63.2 to 100?%. Novel SSR loci found to be moderately to highly polymorphic with locus wise average number of alleles and polymorphism information content (PIC) were 4.1 and 0.33, respectively. Cloning and sequencing of EST-SSR size variant amplicons of marker locus Rches12 revealed that the variation in the number of SSR repeat-units was the main source of fragment polymorphism. The high polymorphic potential coupled with high cross-transferability rate demonstrates wider applicability of novel SSR markers in genetic diversity, genome mapping and evolutionary studies in various rose species. ? 2014, Society for Plant Biochemistry and Biotechnology.
Microbial-based inoculants in sustainable agriculture: Current perspectives and future prospects
(Elsevier, 2021-03-26T00:00:00) Dukare, Ajinath; Paul, Sangeeta; Kumar, Roshan; Sharma, Vikas
The incessant use of agrochemicals for improved soil fertility and plant productivity has caused negative environmental impacts, including contamination of soil, groundwater, and aquifers. Hence, eco-friendly methods of plant and soil nutrient management are required to maintain sustained crop productivity and ecological stability. Beneficial microbial inoculants are potential elements of such management approaches. With the latest studies, this chapter summarizes the efforts in using beneficial microbes including plant growth-promoting rhizobacteria and mycorrhizal fungi for improving plant growth and its nutritional quality in a sustained manner. Studies with many microbial inoculants have demonstrated their beneficial role in plant growth through effective root colonization and induction of plant growth support mechanisms. Direct plant growth support by root associated microbes is mediated through enhanced nutrient acquisition and hormonal activation. Numerous antifungal activities of microbes, associated with pathogen inhibition, are usually linked to providing superior plant growth. Some inoculants have been found useful in abiotic stress alleviation and nutritional fortification of edible crops. The use of modern scientific advances for improving performances of microbial inoculants under stressed agriculture is also gaining scientific attention. Overall, the exploitation of beneficial microorganisms and their useful interactions with plants offer promising and eco-friendly strategies in the development of organic agriculture globally. � 2021 Elsevier Inc. All rights reserved.
Microbial-based inoculants in sustainable agriculture: Current perspectives and future prospects
(Elsevier, 2021-03-26T00:00:00) Dukare, Ajinath; Paul, Sangeeta; Kumar, Roshan; Sharma, Vikas
The incessant use of agrochemicals for improved soil fertility and plant productivity has caused negative environmental impacts, including contamination of soil, groundwater, and aquifers. Hence, eco-friendly methods of plant and soil nutrient management are required to maintain sustained crop productivity and ecological stability. Beneficial microbial inoculants are potential elements of such management approaches. With the latest studies, this chapter summarizes the efforts in using beneficial microbes including plant growth-promoting rhizobacteria and mycorrhizal fungi for improving plant growth and its nutritional quality in a sustained manner. Studies with many microbial inoculants have demonstrated their beneficial role in plant growth through effective root colonization and induction of plant growth support mechanisms. Direct plant growth support by root associated microbes is mediated through enhanced nutrient acquisition and hormonal activation. Numerous antifungal activities of microbes, associated with pathogen inhibition, are usually linked to providing superior plant growth. Some inoculants have been found useful in abiotic stress alleviation and nutritional fortification of edible crops. The use of modern scientific advances for improving performances of microbial inoculants under stressed agriculture is also gaining scientific attention. Overall, the exploitation of beneficial microorganisms and their useful interactions with plants offer promising and eco-friendly strategies in the development of organic agriculture globally. � 2021 Elsevier Inc. All rights reserved.
Natural Compounds as Potential Anti-COVID Agents
(Bentham Science Publishers, 2022-04-05T00:00:00) Rani, Nidhi; Singh, Randhir; Kumar, Praveen; Sharma, Prerna; Sharma, Vikas
Background: Since December 2019, COVID-19 has become a new health crisis in the world and has been declared a public health emergency of international concern by WHO. In search of anti-COVID treatment regimen, we applied molecular docking approach in order to identify the natural compounds that may have potential for anti-COVID treatment with specific target and selective inhibitory mechanism. Our goal is to identify the potential anti-COVID compounds based on virtual screening of the protein of spike glycoprotein as virtual inhibition target. Methods: Molecular docking was carried out by using Molergo Virtual Docker. 35 compounds from different plant sources were selected and docked in the enzyme pocket. Results: The docking result revealed that some of the compounds exhibited good potency against the virus and can be used further for developing new drug regimen. Conclusion: The compounds of natural origin could be a good target and can be used as lead compounds for the treatment of this dreadful disease. � 2023 Bentham Science Publishers.
Transcriptome Analysis Revealed Behavior Complexity of Senescence Responses in Himalayan Tree Species Ulmus wallichiana
(Springer, 2023-05-17T00:00:00) Singh, Amandeep; Majeed, Aasim; Sharma, Vikas; Gadri, Hari Shankar; Chowdhary, Md. Asif; Bhardwaj, Pankaj
The Himalayas present a highly contrasting environment for the organisms that inhabit it, with summer and winter being the most disparate seasons. As winter approaches, the temperature drops, and deciduous plants, such as Ulmus wallichiana Planch., undergo senescence. In this study, we used the RNA-seq approach to generate a de novo transcriptome assembly of U. wallichiana, consisting of 300,067 unigenes. We investigated the differential expression pattern of these unigenes under changing climatic conditions, with a focus on the contrast between winter and summer. We observed that 2746 unigenes were differentially expressed, with a fold change of ? 2 and an FDR-adjusted p-value of ? 0.001. Among these unigenes, 37 were found to be related to senescence. We also identified nine DREB unigenes in the U. wallichiana transcriptome, which exhibited more or less contrasting patterns between summer and winter. These DREB unigenes may play an important role in regulating the plant�s tolerance to cold and/or drought stress. Our findings shed light on the complex and dynamic process of transcriptomic reprogramming that enables U. wallichiana to cope with seasonal changes. Furthermore, this study highlights the urgent need for further research on U. wallichiana, as this endangered plant species remains largely unexplored at the genomic level. � 2023, The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature.
Transcriptome Analysis Revealed Behavior Complexity of Senescence Responses in Himalayan Tree Species Ulmus wallichiana
(Springer, 2023-05-17T00:00:00) Singh, Amandeep; Majeed, Aasim; Sharma, Vikas; Gadri, Hari Shankar; Chowdhary, Md. Asif; Bhardwaj, Pankaj
The Himalayas present a highly contrasting environment for the organisms that inhabit it, with summer and winter being the most disparate seasons. As winter approaches, the temperature drops, and deciduous plants, such as Ulmus wallichiana Planch., undergo senescence. In this study, we used the RNA-seq approach to generate a de novo transcriptome assembly of U. wallichiana, consisting of 300,067 unigenes. We investigated the differential expression pattern of these unigenes under changing climatic conditions, with a focus on the contrast between winter and summer. We observed that 2746 unigenes were differentially expressed, with a fold change of ? 2 and an FDR-adjusted p-value of ? 0.001. Among these unigenes, 37 were found to be related to senescence. We also identified nine DREB unigenes in the U. wallichiana transcriptome, which exhibited more or less contrasting patterns between summer and winter. These DREB unigenes may play an important role in regulating the plant�s tolerance to cold and/or drought stress. Our findings shed light on the complex and dynamic process of transcriptomic reprogramming that enables U. wallichiana to cope with seasonal changes. Furthermore, this study highlights the urgent need for further research on U. wallichiana, as this endangered plant species remains largely unexplored at the genomic level. � 2023, The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature.