33 results on '"Shukla, Rakesh Kumar"'
Search Results
2. Transcriptome analysis of waterlogging-induced adventitious root and control taproot of Mentha arvensis
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Shikha, Pandey, Durgesh Kumar, Upadhyay, Swati, Phukan, Ujjal J., and Shukla, Rakesh Kumar
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- 2024
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3. Bioenhancer potential of Aegle marmelos (L.) Corrêa essential oil with antifungal drugs and its mode of action against Candida albicans
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Bhattacharya, Riya, Sourirajan, Anuradha, Sharma, Prashant, Kumar, Anil, Upadhyay, Navneet Kumar, Shukla, Rakesh Kumar, Dev, Kamal, Krishnakumar, Balaji, Singh, Manish, and Bose, Debajyoti
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- 2023
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4. Ocimum sanctum, OscWRKY1, regulates phenylpropanoid pathway genes and promotes resistance to pathogen infection in Arabidopsis
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Joshi, Ashutosh, Jeena, Gajendra Singh, Shikha, Kumar, Ravi Shankar, Pandey, Alok, and Shukla, Rakesh Kumar
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- 2022
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5. An insight into microRNA biogenesis and its regulatory role in plant secondary metabolism
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Jeena, Gajendra Singh, Singh, Neeti, Shikha, and Shukla, Rakesh Kumar
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- 2022
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6. Effect of altitude and harvest year on nutraceutical characteristics of Rubus ellipticus fruits.
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Dhatwalia, Jyoti, Kumari, Amita, Guleria, Ishita, Shukla, Rakesh Kumar, Saleh, Na'il, El-Nashar, Heba A. S., and El-Shazly, Mohamed
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- 2024
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7. Characterization of MYB35 regulated methyl jasmonate and wound responsive Geraniol 10-hydroxylase-1 gene from Bacopa monnieri
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Jeena, Gajendra Singh, Kumar, Sunil, and Shukla, Rakesh Kumar
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- 2021
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8. Methyl jasmonate inducible UGT79A18 is a novel glycosyltransferase involved in the bacoside biosynthetic pathway in Bacopa monnieri.
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Kumar, Sunil, Singh, Neeti, Lahane, Vaibhavi, Tripathi, Vineeta, Yadav, Akhilesh Kumar, and Shukla, Rakesh Kumar
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BACOPA monnieri ,VECTOR control ,ISOMERS ,TRITERPENES ,SECONDARY analysis - Abstract
Bacosides are dammarane-type triterpenoidal saponins in Bacopa monnieri and have various pharmacological applications. All the bacosides are diversified from two isomers, i.e., jujubogenin and pseudojujubogenin. The biosynthetic pathway of bacoside is not well elucidated. In the present study, we characterized a UDP-glycosyltransferase, UGT79A18, involved in the glycosylation of pseudojujubogenin. UGT79A18 shows higher expression in response to 5 h of wounding, and 3 h of MeJA treatment. The recombinant UGT79A18 shows in vitro activity against a wide range of flavonoids and triterpenes and has a substrate preference for protopanaxadiol, a dammarane-type triterpene. Secondary metabolite analysis of overexpression and knockdown lines of UGT79A18 in B. monnieri identify bacopasaponin D, bacopaside II, bacopaside N2 and pseudojujubogenin glucosyl rhamnoside as the major bacosides that were differentially accumulated. In the overexpression lines of UGT79A18, we found 1.7-fold enhanced bacopaside II, 8-fold enhanced bacopasaponin D, 3-fold enhanced pseudojujubogenin glucosyl rhamnoside, and 1.6-fold enhanced bacopaside N2 content in comparison with vector control plant, whereas in the knockdown lines of UGT79A18, we found 1.4-fold reduction in bacopaside II content, 3-fold reduction in the bacopasaponin D content, 2-fold reduction in the pseudojujubogenin glucosyl rhamnoside content, and 1.5-fold reduction in bacopaside N2 content in comparison with vector control. These results suggest that UGT79A18 is a significant UDP glycosyltransferase involved in glycosylating pseudojujubogenin and enhancing the pseudojujubogenin-derived bacosides. [ABSTRACT FROM AUTHOR]
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- 2024
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9. Recent advances in steroidal saponins biosynthesis and in vitro production
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Upadhyay, Swati, Jeena, Gajendra Singh, Shikha, and Shukla, Rakesh Kumar
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- 2018
10. Structure, evolution and diverse physiological roles of SWEET sugar transporters in plants
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Jeena, Gajendra Singh, Kumar, Sunil, and Shukla, Rakesh Kumar
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- 2019
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11. Fluid structure interaction studies of human airways
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SHUKLA, RAKESH KUMAR, SRIVASTAV, VIVEK KUMAR, PAUL, AKSHOY RANJAN, and JAIN, ANUJ
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- 2020
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12. Histo pathological changes in the placenta of women with gestational diabetes mellitus.
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Shukla, Rakesh Kumar, Pandey, Suniti, Beg, Mirza R. U., and Mishra, Archana
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GESTATIONAL diabetes , *PATHOLOGICAL physiology , *PLACENTA , *PREGNANCY complications , *PLACENTA praevia , *ETIOLOGY of diabetes - Abstract
Background: - Gestational diabetes mellitus (GDM) is a common metabolic complication in pregnancy affecting the maternal and foetal wellbeing. Aim: - The aim of this original research article is to investigate the histological changes in placenta of GDM and control women. Method: - This study was done in Rama Medical College & Hospital Kanpur. Placenta sample from 100 cases of GDM and 150 of control women collected and histological changes studied. Result: - In this study, the histological changes revealed that Fibrin was in 78% of GDM. Calcification was seen in 42% of GDM. Infarction was found in 4% of GDM, but in control the histological changes revealed Fibrin in 40%, Calcification was 25.3% and Infarction was 4%. Conclusion: - Gestational diabetes mellitus causes significant histological changes. [ABSTRACT FROM AUTHOR]
- Published
- 2023
13. PsAP2 an AP2/ERF family transcription factor from Papaver somniferum enhances abiotic and biotic stress tolerance in transgenic tobacco
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Mishra, Sonal, Phukan, Ujjal J., Tripathi, Vineeta, Singh, Dhananjay K., Luqman, Suaib, and Shukla, Rakesh Kumar
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- 2015
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14. Statistical analysis of randomized prospective trial of two fractionation schedules in HDR brachytherapy.
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Parihar, Neeraj, Gupta, Manish, Watts, Ankit, Shukla, Rakesh Kumar, Singh, Baljinder, and Rai, D. V.
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HIGH dose rate brachytherapy ,STATISTICS ,PROGRESSION-free survival ,SCHEDULING ,BLADDER - Abstract
The statistical analysis of a randomized prospective trial to compare the loco regional control and disease-free survival of two fractionation schedules used in Intracavitary Brachy therapy (ICBT) doses for treatment of locally advanced Ca. Cervix and standardize the fractionation Schedule of the two regimes, 9 Gray in 2 and 7 Gray in 3 fractions post CRT. In this study 82 Patients of carcinoma cervix stage II A & III B were enrolled and the median follow up was 24 months. Study reveals that there was no significant difference for late rectal and bladder toxicities of two arms. [ABSTRACT FROM AUTHOR]
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- 2022
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15. Mentha arvensis exhibit better adaptive characters in contrast to Mentha piperita when subjugated to sustained waterlogging stress
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Phukan, Ujjal J., Mishra, Sonal, Timbre, Khilesh, Luqman, Suaib, and Shukla, Rakesh Kumar
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- 2014
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16. Socio-Demographic Factors of Tubectomy in North Indian Population.
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Gupta, Prabhu Dayal, Shukla, Rakesh Kumar, Mishra, Archana, and Pandey, Sanjay
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TUBAL sterilization , *SOCIODEMOGRAPHIC factors , *FAMILY planning services , *MUSLIM women , *AGE groups - Abstract
Aim: - The ideal of this original exploration composition is to find Socio-Demographic Factors of Tubectomy in the North Indian Population. Material & System: - A cross-sectional study was conducted in the Department of Obs and Gyne, SSPG District Hospital (Female) Varanasi, Uttar Pradesh, India from January 2017-January 2019. The sample size for the study was calculated using the couple protection rate of Uttar Pradesh, which were around 38%. The estimated sample size determined for the study was 750. Women under the age group 15-50 years reported to the SSPG District Hospital Varanasi were assessed by structured interview and data recorded. Result: - maturity of the women 367(49) were in the age group of 21 - 30 years with a mean age of 25-26 yrs. Among the study group 645(86%) were Hindu, 101(13.5%) were Muslims and 04(0.5%) were Christians. The number of children the couples had at the time of tubectomy. The maximum number of couples (47%) had 3 children before concluding for tubectomy. The coming predominant group was the couple who had 1-2 children (24%). Among Hindus 119(28%) were tubectomized and only 07(15%) were tubectomized in Muslims. Conclusion: - It has been concluded that further of the youthful population in India is concluding for tubectomy. Still, women with 3 children are predominating the tubectomy group. Muslim women are less likely to be castrated than non-Muslim women so junking of the religious taboos is essential for the wide perpetration of family planning programs. [ABSTRACT FROM AUTHOR]
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- 2022
17. A Cross Sectional Study of Oral Submucous Fibrosis in Central India and the Effect of Local Triamcinolone Therapy
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Ameer, N. T. and Shukla, Rakesh Kumar
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- 2012
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18. Determination of the Physicochemical Quality of Groundwater and its Potential Health Risk for Drinking in Oromia, Ethiopia.
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Gintamo, Binyam, Khan, Mohammed Azhar, Gulilat, Henok, Shukla, Rakesh Kumar, and Mekonnen, Zeleke
- Abstract
This study aimed to determine the physicochemical quality of groundwater and its potential health risk for drinking in Oromia, Ethiopia. The groundwater samples were collected from 17 sampling stations in the dry and wet season in the Sebeta zone, Oromia, from March to August 2020. Metals and physicochemical parameters, and selected heavy metals, such as iron (Fe), copper (Cu), manganese (Mn), chromium (Cr), zinc (Zn), and lead (Pb) were monitored. The data were analyzed using multivariate statistical methods (Pearson's Correlation and T-test). The means seasonal variations were higher in the dry season than in the wet season except for pH and Turbidity. The variation was significant for most parameters except Pb, Zn, chlorine, Total Alkaline, Magnesium Hardness, Calcium Hardness), and Turbidity. There was a strong and positive correlation between Total dissolved solids (TDS) and Conductivity), (pH and Cr), (T.H. and Magnesium (Mg)), (bicarbonate and Calcium (Ca), (Zn and Turbidity) in the dry season; and (T.H. with Potassium (K), (Pb and Fe); (bicarbonate and T.H.); (Ca and Mg); (Na and T.A.,) in the wet season. The hazard index (H.I.) values in the dry season (HI = 1.331) were higher than in the wet season (HI
adults = 0.075). Likewise, the H.I. (dry season) was higher (HIchildren = 1.861) than in the wet season (HIchildren = 0.105). Chronic groundwater exposure at drinking sources in the dry season is a potential health risk to humans in general and is relatively high for children. Urgent management and close monitoring are required for drinking groundwater sources and other nearby residents' safety areas. [ABSTRACT FROM AUTHOR]- Published
- 2022
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19. CAP2 enhances germination of transgenic tobacco seeds at high temperature and promotes heat stress tolerance in yeast
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Shukla, Rakesh Kumar, Tripathi, Vineeta, Jain, Deepti, Yadav, Rajiv Kumar, and Chattopadhyay, Debasis
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- 2009
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20. Bm-miR172c-5p Regulates Lignin Biosynthesis and Secondary Xylem Thickness by Altering the Ferulate 5 Hydroxylase Gene in Bacopa monnieri.
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Jeena, Gajendra Singh, Joshi, Ashutosh, and Shukla, Rakesh Kumar
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BACOPA monnieri ,NON-coding RNA ,XYLEM ,BIOSYNTHESIS ,MICRORNA ,DROUGHT tolerance - Abstract
MicroRNAs (miRNAs) are small non-coding, endogenous RNAs containing 20–24 nucleotides that regulate the expression of target genes involved in various plant processes. A total of 1,429 conserved miRNAs belonging to 95 conserved miRNA families and 12 novel miRNAs were identified from Bacopa monnieri using small RNA sequencing. The Bm-miRNA target transcripts related to the secondary metabolism were further selected for validation. The Bm-miRNA expression in shoot and root tissues was negatively correlated with their target transcripts. The Bm-miRNA cleavage sites were mapped within the coding or untranslated region as depicted by the modified RLM-RACE. In the present study, we validate three miRNA targets, including asparagine synthetase, cycloartenol synthase and ferulate 5 hydroxylase (F5H) and elucidate the regulatory role of Bm-miR172c-5p, which cleaves the F5H gene involved in the lignin biosynthesis. Overexpression (OE) of Bm-miR172c-5p precursor in B. monnieri suppresses F5H gene, leading to reduced lignification and secondary xylem thickness under control and drought stress. By contrast, OE of endogenous target mimics (eTMs) showed enhanced lignification and secondary xylem thickness leading to better physiological response under drought stress. Taken together, we suggest that Bm-miRNA172c-5p might be a key player in maintaining the native phenotype of B. monnieri under control and different environmental conditions. [ABSTRACT FROM AUTHOR]
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- 2021
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21. MaRAP2‐4, a waterlogging‐responsive ERF from <italic>Mentha,</italic> regulates bidirectional sugar transporter <italic>AtSWEET10</italic> to modulate stress response in <italic>Arabidopsis</italic>.
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Phukan, Ujjal J., Jeena, Gajendra Singh, Tripathi, Vineeta, and Shukla, Rakesh Kumar
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ARABIDOPSIS ,WATERLOGGING (Soils) ,JASMONIC acid ,OXIDATIVE stress ,PLANT translocation ,ABIOTIC stress - Abstract
Summary: As waterlogging and successive events severely influence growth and development of economically important plants, we attempted to characterize the role of a waterlogging‐responsive group I (A‐6) ethylene response factor (MaRAP2‐4) from
Mentha arvensis . Waterlogging, ethylene and methyl jasmonate rapidly induced the expression ofMaRAP2‐4 . MaRAP2‐4 interacted with multiplecis ‐elements like dehydration response elements (DRE1/2), anoxia/jasmonic acid response element (JARE) and GCC box showing its involvement in multiple responses. MaRAP2‐4 localizes in the nucleus and acts as a transcriptional activator. Truncation and internal deletion identified a 20 amino acids potential transactivation domain (PLPSSVDAKLEAICQSLAIN) in MaRAP2‐4. MaRAP2‐4 transgenicArabidopsis showed enhanced waterlogging and subsequent oxidative stress tolerance. Microarray analysis revealed that within up‐regulated genes 483, 212 and 132 promoters carry either single or multiple copies of DRE, JARE and GCCcis ‐element/s, respectively. Within these promoters, a large section belongs to carbohydrate metabolism/transport, including many SWEET transporters. Further analysis showed MaRAP2‐4 specifically targets two positions inAtSWEEET10 promoter carrying DRE and/or GCC box that might regulate carbohydrate availability and waterlogging tolerance. These results demonstrate that MaRAP2‐4 is a positive regulator of waterlogging tolerance, and as energy‐consuming processes such as carbohydrate biosynthesis are reduced under waterlogging‐induced hypoxia, sugar transport through SWEETs may be the primary option to make sugar available to the required tissue. [ABSTRACT FROM AUTHOR]- Published
- 2018
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22. Comparative transcriptome analysis reveals candidate genes for the biosynthesis of natural insecticide in Tanacetum cinerariifolium.
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Khan, Sana, Upadhyay, Swati, Khan, Feroz, Tandon, Sudeep, Shukla, Rakesh Kumar, Ghosh, Sumit, Gupta, Vikrant, Banerjee, Suchitra, and Rahman, Laiq ur
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PYRETHRUM (Insecticide) ,GENETIC transcription ,BIOSYNTHESIS ,OXYLIPINS ,COMPARATIVE studies - Abstract
Background: Pyrethrins are monoterpenoids and consist of either a chrysanthemic acid or pyrethric acid with a rethrolone moiety. Natural pyrethrins are safe and eco-friendly while possessing strong insecticidal properties. Despite such advantages of commercial value coming with the eco-friendly tag, most enzymes/genes involved in the pyrethrin biosynthesis pathway remain unidentified and uncharacterized. Since the flowers of Tanacetum cinerariifolium are rich in major pyrethrins, next generation transcriptome sequencing was undertaken to compare the flowers and the leaves of the plant de novo to identify differentially expressed transcripts and ascertain which among them might be involved in and responsible for the differential accumulation of pyrethrins in T. cinerariifolium flowers. Results: In this first tissue specific transcriptome analysis of the non-model plant T. cinerariifolium, a total of 23,200,000 and 28,500,110 high quality Illumina next generation sequence reads, with a length of 101 bp, were generated for the flower and leaf tissue respectively. After functional enrichment analysis and GO based annotation using public protein databases such as UniRef, PFAM, SMART, KEGG and NR, 4443 and 8901 unigenes were identified in the flower and leaf tissue respectively. These could be assigned to 13344 KEGG pathways and the pyrethrin biosynthesis contextualized. The 2-C-methyl-D-erythritol 4-phosphate (MEP) pathway was involved in the biosynthesis of acid moiety of pyrethrin and this pathway predominated in the flowers as compared to the leaves. However, enzymes related to oxylipin biosynthesis were found predominantly in the leaf tissue, which suggested that major steps of pyrethrin biosynthesis occurred in the flowers. Conclusions: Transcriptome comparison between the flower and leaf tissue of T. cinerariifolium provided an elaborate list of tissue specific transcripts that was useful in elucidating the differences in the expression of the biosynthetic pathways leading to differential presence of pyrethrin in the flowers. The information generated on genes, pathways and markers related to pyrethrin biosynthesis in this study will be helpful in enhancing the production of these useful compounds for value added breeding programs. Related proteome comparison to overlay our transcriptome comparison can generate more relevant information to better understand flower specific accumulation of secondary metabolites in general and pyrethrin accumulation in particular. [ABSTRACT FROM AUTHOR]
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- 2017
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23. Waterlogging and submergence stress: affects and acclimation.
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Phukan, Ujjal J., Mishra, Sonal, and Shukla, Rakesh Kumar
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WATERLOGGING (Soils) ,ACCLIMATIZATION ,HYPOXEMIA ,TRANSCRIPTION factors ,STARCH metabolism ,GIBBERELLIC acid - Abstract
Submergence, whether partial or complete, imparts some serious consequences on plants grown in flood prone ecosystems. Some plants can endure these conditions by embracing various survival strategies, including morphological adaptations and physiological adjustments. This review summarizes recent progress made in understanding of the stress and the acclimation responses of plants under waterlogged or submerged conditions. Waterlogging and submergence are often associated with hypoxia development, which may trigger various morphological traits and cellular acclimation responses. Ethylene, abscisic acid, gibberellic acid and other hormones play a crucial role in the survival process which is controlled genetically. Effects at the cellular level, including ATP management, starch metabolism, elemental toxicity, role of transporters and redox status have been explained. Transcriptional and hormonal interplay during this stress may provide some key aspects in understanding waterlogging and submergence tolerance. The level and degree of tolerance may vary depending on species or climatic variations which need to be studied for a proper understanding of waterlogging stress at the global level. The exploration of regulatory pathways and interplay in model organisms such asArabidopsisand rice would provide valuable resources for improvement of economically and agriculturally important plants in waterlogging affected areas. [ABSTRACT FROM AUTHOR]
- Published
- 2016
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24. De novo leaf and root transcriptome analysis identified novel genes involved in Steroidal sapogenin biosynthesis in Asparagus racemosus.
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Upadhyay, Swati, Phukan, Ujjal J, Mishra, Sonal, and Shukla, Rakesh Kumar
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Background: Saponins are mainly amphipathic glycosides that posses many biological activities and confer potential health benefits to humans. Inspite of its medicinal attributes most of the triterpenes and enzymes involved in the saponin biosynthesis remains uncharacterized at the molecular level. Since the major steroidal components are present in the roots of A. racemosus our study is focussed on the comparative denovo transcriptome analysis of root versus leaf tissue and identifying some root specific transcripts involved in saponin biosynthesis using high-throughput next generation transcriptome sequencing. Results: After sequencing, de novo assembly and quantitative assessment, 126861 unigenes were finally generated with an average length of 1200 bp. Then functional annotation and GO enrichment analysis was performed by aligning all-unigenes with public protein databases including NR, SwissProt, and KEGG. Differentially expressed genes in root were initially identified using the RPKM method using digital subtraction between root and leaf. Twenty seven putative secondary metabolite related transcripts were experimentally validated for their expression in root or leaf tissue using q-RT PCR analysis. Most of the above selected transcripts showed preferential expression in root as compared to leaf supporting the digitally subtracted result obtained. The methyl jasmonate application induces the secondary metabolite related gene transcripts leading to their increased accumulation in plants. Therefore, the identified transcripts related to saponin biosynthesis were further analyzed for their induced expression after 3, 5 and 12 hours of exogenous application of Methyl Jasmonate in tissue specific manner. Conclusions: In this study, we have identified a large set of cDNA unigenes from A. racemosus leaf and root tissue. This is the first transcriptome sequencing of this non-model species using Illumina, a next generation sequencing technology. The present study has also identified number of root specific transcripts showing homology with saponin biosynthetic pathway. An integrated pathway of identified saponin biosynthesis transcripts their tissue specific expression and induced accumulation after methyl jasmonate treatment was discussed. [ABSTRACT FROM AUTHOR]
- Published
- 2014
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25. De novo sequencing and comparative analysis of holy and sweet basil transcriptomes
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Rastogi, Shubhra, Meena, Seema, Bhattacharya, Ankita, Ghosh, Sumit, Shukla, Rakesh Kumar, Sangwan, Neelam Singh, Lal, Raj Kishori, Gupta, Madan Mohan, Lavania, Umesh Chandra, Gupta, Vikrant, Nagegowda, Dinesh A, and Shasany, Ajit Kumar
- Abstract
Background: Ocimum L. of family Lamiaceae is a well known genus for its ethnobotanical, medicinal and aromatic properties, which are attributed to innumerable phenylpropanoid and terpenoid compounds produced by the plant. To enrich genomic resources for understanding various pathways, de novo transcriptome sequencing of two important species, O. sanctum and O. basilicum, was carried out by Illumina paired-end sequencing. Results: The sequence assembly resulted in 69117 and 130043 transcripts with an average length of 1646 ± 1210.1 bp and 1363 ± 1139.3 bp for O. sanctum and O. basilicum, respectively. Out of the total transcripts, 59648 (86.30%) and 105470 (81.10%) from O. sanctum and O. basilicum, and respectively were annotated by uniprot blastx against Arabidopsis, rice and lamiaceae. KEGG analysis identified 501 and 952 transcripts from O. sanctum and O. basilicum, respectively, related to secondary metabolism with higher percentage of transcripts for biosynthesis of terpenoids in O. sanctum and phenylpropanoids in O. basilicum. Higher digital gene expression in O. basilicum was validated through qPCR and correlated to higher essential oil content and chromosome number (O. sanctum, 2n = 16; and O. basilicum, 2n = 48). Several CYP450 (26) and TF (40) families were identified having probable roles in primary and secondary metabolism. Also SSR and SNP markers were identified in the transcriptomes of both species with many SSRs linked to phenylpropanoid and terpenoid pathway genes. Conclusion: This is the first report of a comparative transcriptome analysis of Ocimum species and can be utilized to characterize genes related to secondary metabolism, their regulation, and breeding special chemotypes with unique essential oil composition in Ocimum. [ABSTRACT FROM AUTHOR]
- Published
- 2014
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26. Identification, Occurrence, and Validation of DRE and ABRE Cis-Regulatory Motifs in the Promoter Regions of Genes of Arabidopsis thaliana.
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Mishra, Sonal, Shukla, Aparna, Upadhyay, Swati, Sanchita, Sharma, Pooja, Singh, Seema, Phukan, Ujjal J., Meena, Abha, Khan, Feroz, Tripathi, Vineeta, Shukla, Rakesh Kumar, and Shrama, Ashok
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DEHYDRATION ,ABSCISIC acid ,OSMOSIS ,PROMOTERS (Genetics) ,ARABIDOPSIS thaliana genetics ,PLANT genes ,GENE regulatory networks ,PLANTS - Abstract
Plants posses a complex co-regulatory network which helps them to elicit a response under diverse adverse conditions. We used an in silico approach to identify the genes with both DRE and ABRE motifs in their promoter regions in Arabidopsis thaliana. Our results showed that Arabidopsis contains a set of 2,052 genes with ABRE and DRE motifs in their promoter regions. Approximately 72% or more of the total predicted 2,052 genes had a gap distance of less than 400 bp between DRE and ABRE motifs. For positional orientation of the DRE and ABRE motifs, we found that the DR form (one in direct and the other one in reverse orientation) was more prevalent than other forms. These predicted 2,052 genes include 155 transcription factors. Using microarray data from The Arabidopsis Information Resource (TAIR) database, we present 44 transcription factors out of 155 which are upregulated by more than twofold in response to osmotic stress and ABA treatment. Fifty-one transcripts from the one predicted above were validated using semiquantitative expression analysis to support the microarray data in TAIR. Taken together, we report a set of genes containing both DRE and ABRE motifs in their promoter regions in A. thaliana, which can be useful to understand the role of ABA under osmotic stress condition. [ABSTRACT FROM AUTHOR]
- Published
- 2014
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27. Wound Induced Tanscriptional Regulation of Benzylisoquinoline Pathway and Characterization of Wound Inducible PsWRKY Transcription Factor from Papaver somniferum.
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Mishra, Sonal, Triptahi, Vineeta, Singh, Seema, Phukan, Ujjal J., Gupta, M. M., Shanker, Karuna, and Shukla, Rakesh Kumar
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SEED pods ,OPIUM poppy ,EXUDATION (Botany) ,LATEX ,ANTISENSE DNA ,YEAST - Abstract
Wounding is required to be made in the walls of the green seed pod of Opium poppy prior exudation of latex. To withstand this kind of trauma plants regulate expression of some metabolites through an induced transcript level. 167 unique wound-inducible ESTs were identified by a repetitive round of cDNA subtraction after 5 hours of wounding in Papaver somniferum seedlings. Further repetitive reverse northern analysis of these ESTs revealed 80 transcripts showing more than two fold induction, validated through semi-quantitative RT-PCR & real time expression analysis. One of the major classified categories among identified ESTs belonged to benzylisoquinoline transcripts. Tissue specific metabolite analysis of benzylisoquinoline alkaloids (BIAs) in response to wounding revealed increased accumulation of narcotine and papaverine. Promoter analysis of seven transcripts of BIAs pathway showed the presence of W-box cis-element with the consensus sequence of TGAC, which is the proposed binding site for WRKY type transcription factors. One of the Wound inducible 'WRKY' EST isolated from our subtracted library was made full-length and named as 'PsWRKY'. Bacterially expressed PsWRKY interacted with the W-box element having consensus sequence TTGACT/C present in the promoter region of BIAs biosynthetic pathway genes. PsWRKY further activated the TYDC promoter in yeast and transiently in tobacco BY2 cells. Preferential expression of PsWRKY in straw and capsule and its interaction with consensus W-box element present in BIAs pathway gene transcripts suggest its possible involvement in the wound induced regulation of BIAs pathway. [ABSTRACT FROM AUTHOR]
- Published
- 2013
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28. Soybean cultivar resistant to Mungbean Yellow Mosaic India Virus infection induces viral RNA degradation earlier than the susceptible cultivar
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Yadav, Rajiv Kumar, Shukla, Rakesh Kumar, and Chattopadhyay, Debasis
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SOYBEAN , *CULTIVARS , *PLANT resistance to viruses , *BEAN yellow mosaic virus , *MOLECULAR cloning , *VIRAL genomes , *AGRICULTURAL productivity , *GENE silencing , *SEEDLINGS - Abstract
Abstract: Yellow mosaic disease caused by whitefly-transmitted bipartite Geminiviruses is one of the major constraints on productivity of a number of pulse crops. We have cloned the bipartite genome of Mungbean Yellow Mosaic India Virus isolated from infected Soybean. We report here that agroinfection of Soybean seedlings with a single uncut recombinant binary plasmid containing tandem dimers of both DNA A and DNA B resulted in 100% infectivity in susceptible varieties. To understand the mechanism of natural resistance in a Soybean variety, we compared the abundance of the viral RNAs in a resistant and a susceptible variety at the early time points after agroinfection. Whilst the resistant variety displayed synthesis but rapid degradation of the early viral RNAs; the degradation in the susceptible variety was delayed resulting in accumulation of those transcripts later in infection. Accumulation of the late viral transcripts and DNA replication were detectable only in the susceptible variety. This indicates that rapid degradation of the early viral transcripts, possibly through siRNA mechanism, is one of the probable mechanisms of natural resistance against geminivirus. [Copyright &y& Elsevier]
- Published
- 2009
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29. Two divergent genes encoding L- myo-inositol 1-phosphate synthase1 ( CaMIPS1) and 2 ( CaMIPS2) are differentially expressed in chickpea.
- Author
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KAUR, HARMEET, SHUKLA, RAKESH KUMAR, YADAV, GITANJALI, CHATTOPADHYAY, DEBASIS, and MAJEE, MANOJ
- Subjects
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COMPLEMENTATION (Genetics) , *GENES , *PHOSPHATES , *CHICKPEA , *BIOSYNTHESIS , *GENE expression , *PHYSIOLOGY , *SURFACE chemistry , *BIOLOGICAL divergence - Abstract
L- myo-inositol 1-phosphate synthase (MIPS; EC5.5.1.4) catalyses the rate-limiting step in inositol biosynthetic pathway, and is extremely widespread in living organisms including plants. Several plants possess multiple copies of MIPS gene(s) indicating a possibility of differential expression of each gene to perform distinct physiological functions. To explore this, two MIPS genes ( CaMIPS1 and CaMIPS2) were isolated from a drought-tolerant plant chickpea. Both genes are extremely divergent in respect to their introns, at the same time retaining 85% identity to their exons and functionally complementing inositol auxotroph Schizosaccharomyces pombe. Expression analysis showed both genes were expressed in all organs except seed, where only CaMIPS2 transcript was detected. Under environmental stresses, only CaMIPS2 was induced whereas CaMIPS1 expression remained same, which could be explained by the divergence of their 5′ upstream regulatory sequences. Remarkably, both gene products exhibited similar biochemical characteristics; however, CaMIPS2 retained higher activity than CaMIPS1 at a high temperature and salt concentration. Furthermore, functional expression of CaMIPS2 in S. pombe results better growth response than CaMIPS1 under stress environment. Taken together, our results suggest that CaMIPS1 and CaMIPS2 are differentially expressed in chickpea to play discrete though overlapping roles in plant; however CaMIPS2 is likely to be evolved through gene duplication to function under environmental stresses. [ABSTRACT FROM AUTHOR]
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- 2008
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30. Asparagus racemosus bZIP transcription factor-regulated squalene epoxidase (ArSQE) promotes germination and abiotic stress tolerance in transgenic tobacco.
- Author
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Upadhyay, Swati, Jeena, Gajendra Singh, Kumar, Sunil, and Shukla, Rakesh Kumar
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ABSCISIC acid , *ABIOTIC stress , *GERMINATION , *ASPARAGUS , *TERBINAFINE , *TRANSCRIPTION factors , *TOBACCO - Abstract
• Squalene epoxidase gene ArSQE from Asparagus racemosus was found to complement yeast erg1 mutant. • Over-expression of ArSQE provides terbinafine resistance in yeast and transgenic tobacco. • ArSQE imparts early germination and abiotic stress tolerance in transgenic tobacco. • Two bZIP TFs ArTGA1 and ArTGA2 were identified which regulate ArSQE by interacting with methyl jasmonate-responsive TGACG element. A. racemosus is a rich source of pharmacologically active steroidal saponins. Most of the studies are related to its chemistry and pharmacology, but the pathway involved in the biosynthesis of steroidal saponin is not much emphasized. Squalene epoxidase acts as a rate-limiting enzyme in this biosynthesis. In this study, we have selected root specific squalene epoxidase ArSQE from A. racemosus for its characterization. ArSQE was able to complement ergosterol auxotrophy in erg1 yeast mutants. Mutants were sensitive to the antifungal drug terbinafine, whereas ArSQE complementation made them tolerant to the same drug. ArSQE plays a significant role in early germination in transgenic tobacco. The transgenic tobacco seedlings overexpressing ArSQE were tolerant to terbinafine and abiotic stress. Expression analysis of transcripts in ArSQE transgenic lines suggests that it mostly affects ABA, GA, stress, and sterol related functions in transgenic tobacco. Further, root specific MeJA responsive A. racemosus bZIP transcription factors (TFs), ArTGA1 and ArTGA2, were identified that bind to MeJA responsive cis -element present in the promoter region of ArSQE. Characterization of ArSQE of A. racemosus provides new information about its regulation through MeJA responsive bZIP TF along with its role in the development and abiotic stress response in transgenic tobacco. [ABSTRACT FROM AUTHOR]
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- 2020
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31. MaRAP2-4, a waterlogging-responsive ERF from Mentha, regulates bidirectional sugar transporter AtSWEET10 to modulate stress response in Arabidopsis.
- Author
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Phukan UJ, Jeena GS, Tripathi V, and Shukla RK
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- Acetates metabolism, Arabidopsis genetics, Arabidopsis Proteins genetics, Cyclopentanes metabolism, Gene Expression Regulation, Plant genetics, Gene Expression Regulation, Plant physiology, Oxylipins metabolism, Plants, Genetically Modified genetics, Promoter Regions, Genetic genetics, Arabidopsis metabolism, Arabidopsis Proteins metabolism, Mentha metabolism, Plants, Genetically Modified metabolism
- Abstract
As waterlogging and successive events severely influence growth and development of economically important plants, we attempted to characterize the role of a waterlogging-responsive group I (A-6) ethylene response factor (MaRAP2-4) from Mentha arvensis. Waterlogging, ethylene and methyl jasmonate rapidly induced the expression of MaRAP2-4. MaRAP2-4 interacted with multiple cis-elements like dehydration response elements (DRE1/2), anoxia/jasmonic acid response element (JARE) and GCC box showing its involvement in multiple responses. MaRAP2-4 localizes in the nucleus and acts as a transcriptional activator. Truncation and internal deletion identified a 20 amino acids potential transactivation domain (PLPSSVDAKLEAICQSLAIN) in MaRAP2-4. MaRAP2-4 transgenic Arabidopsis showed enhanced waterlogging and subsequent oxidative stress tolerance. Microarray analysis revealed that within up-regulated genes 483, 212 and 132 promoters carry either single or multiple copies of DRE, JARE and GCC cis-element/s, respectively. Within these promoters, a large section belongs to carbohydrate metabolism/transport, including many SWEET transporters. Further analysis showed MaRAP2-4 specifically targets two positions in AtSWEEET10 promoter carrying DRE and/or GCC box that might regulate carbohydrate availability and waterlogging tolerance. These results demonstrate that MaRAP2-4 is a positive regulator of waterlogging tolerance, and as energy-consuming processes such as carbohydrate biosynthesis are reduced under waterlogging-induced hypoxia, sugar transport through SWEETs may be the primary option to make sugar available to the required tissue., (© 2017 The Authors. Plant Biotechnology Journal published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd.)
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- 2018
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32. Comparative transcriptome analysis of shoot and root tissue of Bacopa monnieri identifies potential genes related to triterpenoid saponin biosynthesis.
- Author
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Jeena GS, Fatima S, Tripathi P, Upadhyay S, and Shukla RK
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- Gene Ontology, Propanols metabolism, Saponins chemistry, Transcription Factors metabolism, Bacopa genetics, Bacopa metabolism, Gene Expression Profiling, Plant Roots genetics, Plant Shoots genetics, Saponins biosynthesis, Triterpenes chemistry
- Abstract
Background: Bacopa monnieri commonly known as Brahmi is utilized in Ayurveda to improve memory and many other human health benefits. Bacosides enriched standardized extract of Bacopa monnieri is being marketed as a memory enhancing agent. In spite of its well known pharmacological properties it is not much studied in terms of transcripts involved in biosynthetic pathway and its regulation that controls the secondary metabolic pathway in this plant. The aim of this study was to identify the potential transcripts and provide a framework of identified transcripts involved in bacosides production through transcriptome assembly., Results: We performed comparative transcriptome analysis of shoot and root tissue of Bacopa monnieri in two independent biological replicate and obtained 22.48 million and 22.0 million high quality processed reads in shoot and root respectively. After de novo assembly and quantitative assessment total 26,412 genes got annotated in root and 18,500 genes annotated in shoot sample. Quality of raw reads was determined by using SeqQC-V2.2. Assembled sequences were annotated using BLASTX against public database such as NR or UniProt. Searching against the KEGG pathway database indicated that 37,918 unigenes from root and 35,130 unigenes from shoot were mapped to 133 KEGG pathways. Based on the DGE data we found that most of the transcript related to CYP450s and UDP-glucosyltransferases were specifically upregulated in shoot tissue as compared to root tissue. Finally, we have selected 43 transcripts related to secondary metabolism including transcription factor families which are differentially expressed in shoot and root tissues were validated by qRT-PCR and their expression level were monitored after MeJA treatment and wounding for 1, 3 and 5 h., Conclusions: This study not only represents the first de novo transcriptome analysis of Bacopa monnieri but also provides information about the identification, expression and differential tissues specific distribution of transcripts related to triterpenoid sapogenin which is one of the most important pharmacologically active secondary metabolite present in Bacopa monnieri. The identified transcripts in this study will establish a foundation for future studies related to carrying out the metabolic engineering for increasing the bacosides biosynthesis and its regulation for human health benefits.
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- 2017
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33. Antimalarial drug targets and drugs targeting dolichol metabolic pathway of Plasmodium falciparum.
- Author
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Qidwai T, Priya A, Khan NA, Tripathi H, Khan F, Darokar MP, Pal A, Bawankule DU, Shukla RK, and Bhakuni RS
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- Cell Cycle drug effects, DNA Replication drug effects, Dolichols genetics, Dolichols metabolism, Drug Design, Genes, Protozoan, Genetic Variation, Humans, Malaria, Falciparum metabolism, Malaria, Falciparum pathology, Phosphorylation, Plasmodium falciparum drug effects, Plasmodium falciparum pathogenicity, Polymorphism, Single Nucleotide, Protozoan Proteins chemistry, Protozoan Proteins metabolism, Signal Transduction drug effects, Antimalarials pharmacology, Apicoplasts metabolism, Dolichols analogs & derivatives, Malaria, Falciparum drug therapy, Plasmodium falciparum metabolism, Protozoan Proteins genetics
- Abstract
Because of mutation and natural selection, development of drug resistance to the existing antimalarial is the major problem in malaria treatment. This problem has created an urgent need of novel antimalarial drug targets as well as lead compounds. The important characteristic of malaria is that it shows the phenomenon of balanced polymorphisms. Several traits have been selected in response to disease pressure. Therefore such factors must be explored to understand the pathogenesis of malaria infection in human host. Apicoplast, hub of metabolism is present in Plasmodium falciparum (causative agent of falciparum malaria) having similarities with plant plastid. Among several pathways in apicoplast, Dolichol metabolic pathway is one of the most important pathway and has been known to play role in parasite survival in the human host. In P.falciparum, a phosphorylated derivative of Dolichol participates in biosynthesis of glycoproteins. Several proteins of this pathway play role in post translational modifications of proteins involved in the signal transduction pathways, regulation of DNA replication and cell cycle. This pathway can be used as antimalarial drug target. This report has explored progress towards the study of proteins and inhibitors of Dolichol metabolic pathway. For more comprehensive analysis, the host genetic factors and drug-protein interaction have been covered.
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- 2014
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