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Introduction
Current institution
Additional affiliations
September 2002 - September 2004
August 1999 - February 2010
February 2010 - April 2021
Education
June 1992 - October 1999
University of Delhi and Hamdard University
Field of study
- Botany
Publications
Publications (168)
Delineating relative contribution of homologs of regulatory genes is a major challenge in polyploid Brassicas. Homeostasis of multiple copies of MIR160 and target ARF10/16/17 regulatory module is plausibly achieved by intricate feedback loops underlying biological processes. Despite centrality of promoters in gene regulation, amplification and homo...
Ovate family proteins (OFPs) are plant-specific, transcriptional repressors characterized by an OVATE domain. The OFP family has been analyzed only from a handful and functionally characterized from even fewer species. There is a gap in cataloging the complete compendium of OFP family across Gramineae although the complete genome sequence for sever...
Ovate Family Proteins (OFPs) are plant-specific, transcriptional repressors characterized by the presence of an OVATE domain. The OFP gene family has been analysed only from a handful of species, and functionally characterized from even fewer plants. Members of Gramineae have been subject of several investigations, and now has complete genome seque...
Several MICRORNA genes belonging to same family or different families are often found in homologous or non-homologous clusters. Among the various classes, head-to-head arranged genes form one of the largest categories of non-canonically organized genes. Such head-to-head arranged, non-canonically organized genes possibly share cis-regulatory region...
The regulation of secondary cell wall formation in Arabidopsis thaliana has been extensively studied with NST1, NST2, and NST3 playing key roles in secondary cell wall development in stem, anther, and silique. However, their broader impact on plant growth and development is less understood. This study investigates the phenotypes of T-DNA insertiona...
The present study was designed to functionally characterize the promoters associated with AtMYB42, AtMYB85, and BjuMYB85. These genes are well known to be involved in lignin synthesis via phenylpropanoids, which are crucial for secondary cell wall development. We previously reported the complete absence of homologs of MYB42 from Brassica species. I...
Unravelling genetic networks regulating developmental programs are key to devising and implementing genomics assisted trait modification strategies. It is crucial to understand the role of small RNAs, and the basis of their ability to modify traits. MIR159 has been previously reported to cause defects in anther development in Arabidopsis; however,...
Any unfavorable condition that affects the metabolism, growth, or development of plants is considered plant stress. The molecular response of plants towards abiotic stresses involves signaling to cellular components, repressing transcription factors, and subsequently induced metabolic changes. Most valine-glutamine (VQ) motif-containing genes in pl...
Ovate Family Proteins (OFP) is a plant-specific gene family of negative transcriptional regulators. Till-date, a handful of in-silico studies have provided glimpses into family size, expansion patterns, and genic features across all major plant lineages. A major lacuna exists in understanding origin of organisation complexity of members such as tho...
KCS (β-ketoacyl-CoA synthases) proteins are known to play a role in the elongation of very long-chain fatty acid (VLCFA) by iterative addition of 2 carbon from malonyl-CoA and catalyzing multiple elongation steps from C18 to C34 (Blacklock and Jaworski 2006). KCS genes encoding elongase as condensing enzymes constitute a large gene family with indi...
Origin and evolution of secondary cell wall is considered key to colonization of terrestrial habitat by plants. The primary component of secondary cell wall, lignin, imparts strength and rigidity and enables plants to endure negative pressure created during transpiration. Members of the MYB transcription family, AtMYB42 and AtMYB85, play critical r...
All growth and development processes are highly complex events and governed by interaction between genetic and environmental factors. Plants being sessile in nature have evolved elegant and effective response mechanisms to optimize growth and evade stress through developmental and phenotypic plasticity. In contrast to the determinate nature of grow...
The transformational agenda of the United Nations (UN) on Sustainable Development recognizes the crucial role of agriculture in mitigation and adaptation to climate change for safeguarding food security and alleviating hunger. Widespread crop losses are foretold in climate-change-induced disrupted agro-ecosystems meriting urgent intervention. The d...
Myeloblastosis (MYB) family, the largest plant transcription factor family, has been subcategorised based on the number and type of repeats in the MYB domain. In spite of several reports, evolution of MYB genes and repeats remains enigmatic. Brassicaceae members are endowed with complex genomes, including dysploidy because of its unique history wit...
MYB transcription factor are one of the most diverse superfamily of transcription factors with 196 members in Arabidopsis thaliana. We aim to characterize MYB85. Phylogenetic analysis of MYB85 across land plants shows that MYB85 and its sister clade MYB42 may have arisen independently in several taxa. In Brassicaceae, the paralogy between MYB85 and...
Plant-specific Ovate Family Proteins (OFP), containing OVATE domain were identified as regulators of fruit shape. OFP homologs have been detected across plant kingdom as negative regulators of growth and adaptation, albeit with fragmentary information about evolutionary history, diversification, and functional significance. Phylogenetic position, e...
Key message
Extensive regulatory divergence during development, abiotic stress and ABA regime observed amongst promoter homologs and homeologs of MIR319 from Brassica juncea.
Abstract
Gene duplication followed by sub-functionalization, neo-functionalization, and pseudogenization are routes to functional and adaptive diversification. The influence...
Evolutionary history of angiosperms illustrates extensive and recurrent whole genome duplication (WGD) events. A direct consequence of WGD is establishment of multiple notional sub-genomes within the polyploid cytotypes accompanied with an overall increase in gene copies known as homeologs. Even in diploids, prevalence of multiple, redundantly func...
MYB genes, characterized by the presence of a conserved N-terminal MYB domain, constitute one of the largest family of transcription factors in plants. In plants, MYB family is further categorized into four subfamilies based on the number (1-4) and type of repeats (R1, R2 and R3) in the MYB domain. Two-repeat (R2R3-MYB / 2R-MYB) containing MYBs con...
Intra- and epicuticular- waxes primarily comprising of very long chain aliphatic lipid (VLCFA), terpenoids and secondary metabolites such as sterol and flavonoids played a major role in successful colonization of terrestrial ecosystem by aquatic plants and are thus considered as a key evolutionary innovation. The key rate limiting step of Fatty Aci...
The relationship between evolutionary history, organisation and transcriptional regulation of genes are intrinsically linked. These have been well studied in canonically organised protein-coding genes but not of MIRNAs. In the present study, we investigated the non-canonical arrangement of MIRNAs across taxonomic boundaries from
algae to angiosperm...
Rapid progress in genetic engineering of plants has opened vistas for manipulation of traits to not only meet the ever-increasing need of food, feed, and fuel but also produce novel compounds in transgenic plants (genetically modified crops or GM crops). The widespread global adoption of transgenic plants has raised doubts and fears about its ill-i...
CRABS CLAW (CRC), a member of YABBY transcription factor family, has been previously reported to be principally involved in carpel development across angiosperms, and nectary development in core eudicots. Most of the studies suggest that CRC exists as a single copy gene, except in the Solanaceae where CRC occurs as paralogous pairs—CRCa–CRCb in Sol...
Identification and functional analysis of promoters is critical towards gaining insights into transcriptional regulation, and helps in identifying interacting trans-factors. Analysis of MIRNA promoter can differentiate the function of paralogs and homeologs where identifying the role of members of MIRNA family is difficult based on small RNA blots...
Health, productivity, and reproductive success of plants as primary producer are dependent on soil mineral nutrients, among many other biotic and abiotic factors. Mineral nutrients have been categorized into major and minor nutrients. Both deficiency and excess of nutrient availability cause deficiency stress and nutrient toxicity, respectively; “s...
Whole-genome and segmental duplications coupled with sequence and functional diversification are responsible for gene family expansion, and morphological and adaptive diversity. Although broad contours of such processes are understood, detailed investigations on regulatory elements, such as miRNA-transcription factor modules, especially in non-mode...
Mosses, liverworts, hornworts and lycophytes represent transition stages between the aquatic to terrestrial/land plants. Several morphological and adaptive novelties driven by genomic components including emergence and expansion of new or existing gene families have played a critical role during and after the transition, and contributed towards suc...
The availability of a large number of whole-genome sequences allows comparative genomic analysis to reveal and understand evolution of regulatory regions and elements. The role played by events such as whole-genome and segmental duplications followed by genome fractionation in shaping genomic landscape and in expansion of gene families is crucial t...
Natural structural variants of regulatory proteins causing quantitative phenotypic consequences have not been reported in plants. Herein, we show that 28 natural structural variants of FT homeologs, isolated from 6 species of Brassica, differ with respect to amino-acid substitutions in regions critical for interactions with FD and represent two evo...
The impact of polyploidy on functional diversification of cis-regulatory elements is poorly understood. This is primarily on account of lack of well-defined structure of cis-elements and a universal regulatory code. To the best of our knowledge, this is the first report on characterization of sequence and functional diversification of paralogous an...
We present here a modified, sonication-assisted transient transformation assay for rapid analysis of cis-regulatory elements. We tested promoter elements from MIR159B locus of Brassica juncea by generating stable transgenic lines and compared the transcriptional activity of GUS reporter with that of the transient assay method. To obtain reliable an...
Novel morphological structures allowed adaptation to dry conditions in early land plants. The cuticle, one such novelty, plays diverse roles in tolerance to abiotic and biotic stresses and plant development. Cuticular waxes represent a major constituent of the cuticle and are comprised of an assortment of chemicals that include, among others, very...
The growth and development of plant are adversely affected due to various abiotic stresses such as cold, heat, drought, salinity, heavy metal, hypoxia, etc. Plant adaptation to the stress conditions is brought out by changes in its physiological parameters which have underlying molecular basis. Multiple signalling pathways are activated in response...
Environmental stresses have a major influence on growth and development of plant. In order to counteract these stresses, plants have evolved various physiological and morphological adaptations. Evolution of the cuticle was one of the major adaptive morphological novelties in the transition of plants from aquatic to terrestrial habitat. One adaptive...
MYB transcription factors are characterized by a conserved “MYB” domain at N-terminal. Plant MYB proteins have been classified into four groups based on number and type of imperfect repeat units in MYB domain. Of the four groups, the two repeat (R2R3) MYBs, with over 120 members in Arabidopsis thaliana, constitute the largest sub-family characteriz...
Reproductive success of a plant species is largely influenced by the outcome of mating pattern in a population. It is believed that a significantly larger proportion of animal‐pollinated plants have evolved a mixed‐mating strategy, the extent of which may vary among species. It is thus pertinent to investigate the key contributors to mating success...
Key message
Conserved genome organization and function of miR165a between Brassica juncea, Brassica rapa and Arabidopsis thaliana were revealed through synteny analysis and characterization of gain-of-function mutants.
Abstract
MicroRNA-mediated regulation of target genes is critical for development and adaptation. A handful of plant miRNAs along...
Comparative genomics-based synteny analysis has proved to be an effective strategy to understand evolution of genomic regions spanning a single gene (micro-unit) to large segments encompassing hundreds of kilobases to megabases. Brassicaceae is in a unique position to contribute to understanding genome and trait evolution through comparative genomi...
The recent availability of genome sequences together with syntenic block information for Brassicaceae offers an opportunity to study microRNA (miRNA) evolution across this family. We employed a synteny-based comparative genomics strategy to unambiguously identify miRNA homologs from the genome sequence of members of Brassicaceae. Such an analysis o...
Plant genomes are characterized by the presence of large miRNA gene families which are few in number. The expansion of miRNA families is thought to be driven by gene and genome duplication. Some members of these miRNA gene families are tandemly arranged and their analysis is of interest because such organisation may indicate origin through tandem d...
Transcriptional factors (TF) are vital regulatory elements of the transcriptional processes and they do so by specifically interacting with DNA or other transcription factors (Latchman 1993). These master regulators of cellular processes, therefore, act as candidates for modification of complex traits in crop plants (Rabara et al. 2014). MYB transc...
Medicinal plants have been used worldwide for centuries to maintain health and to treat diseases, more so chronic diseases. However, adulteration and use of spurious materials as substitutes have become a major concern for users and industry for reasons of safety and efficacy. Therefore, authentication of medicinal plants is of utmost importance. M...
Despite a large and multifaceted effort to understand the vast landscape of phenotypic data, their current form inhibits productive data analysis. The lack of a community-wide, consensus-based, human-and machine-inter-pretable language for describing phenotypes and their genomic and environmental contexts is perhaps the most pressing scientific bot...
Despite a large and multifaceted effort to understand the vast landscape of phenotypic data, their current form inhibits productive data analysis. The lack of a community-wide, consensus-based, human- and machine-interpretable language for describing phenotypes and their genomic and environmental contexts is perhaps the most pressing scientific bot...
Convolvulus pluricaulis Choisy, commonly known as ''Shankhpushpi'', is an ayurvedic medicinal plant recommended as a brain tonic to promote intellect and memory, eliminate nervous disorders and to treat hyper-tension. Because of increasing demand of the drug, this plant species has been over-exploited. As a consequence, many unrelated plants are be...
For conservation and genetic transformation, a successful in vitro micropropagation protocol for Ajuga bracteosa, a medicinal herb has been established for the first time. MS medium supplemented with IAA (2 mg/L) and BA (5 mg/L) induced 100 % shoot regeneration with an average of 41.4 shoots of 8.4 cm per culture. Excised in vitro shoots when trans...
Capsella rubella is an inbreeding annual forb closely related to Arabidopsis thaliana, a model species widely used for studying natural variation in adaptive traits such as flowering time. Although mutations in dozens of genes can affect flowering of A. thaliana in the laboratory, only a handful of such genes vary in natural populations. Chief amon...
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##Assembly-Data-START## Assembly Method :: Lasergene Seqman v. DNASTAR Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
##Assembly-Data-START## Assembly Method :: Lasergene Seqman v. DNASTAR Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
##Assembly-Data-START## Assembly Method :: Lasergene Seqman v. DNASTAR Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
##Assembly-Data-START## Assembly Method :: Lasergene Seqman v. DNASTAR Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
##Assembly-Data-START## Assembly Method :: Lasergene Seqman v. DNASTAR Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
##Assembly-Data-START## Assembly Method :: Lasergene Seqman v. DNASTAR Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
##Assembly-Data-START## Assembly Method :: Lasergene Seqman v. DNASTAR Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END##
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Questions
Questions (2)
The transgene (transcription activator) is under the control of 35SCaMV promoter, insertion lines display a decent phenotype, yet the increase in expression levels though qRT range from 1.5 fold to 5 fold only. Is this normal?
