sourobh maji - Academia.edu (original) (raw)
Papers by sourobh maji
Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, 2019
This is a PDF file of an article that has undergone enhancements after acceptance, such as the ad... more This is a PDF file of an article that has undergone enhancements after acceptance, such as the addition of a cover page and metadata, and formatting for readability, but it is not yet the definitive version of record. This version will undergo additional copyediting, typesetting and review before it is published in its final form, but we are providing this version to give early visibility of the article. Please note that, during the production process, errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain.
Scientific reports, Jan 7, 2018
Mediator complex has been extensively shown to regulate the levels of several protein-coding gene... more Mediator complex has been extensively shown to regulate the levels of several protein-coding genes; however, its role in the regulation of miRNAs in humans remains unstudied so far. Here we show that MED1, a Mediator subunit in the Middle module of Mediator complex, is overexpressed in breast cancer and is a negative prognostic factor. The levels of several miRNAs (miR-100-5p, -191-5p, -193b-3p, -205-5p, -326, -422a and -425-5p) were found to be regulated by MED1. MED1 induces miR-191/425 cluster in an estrogen receptor-alpha (ER-α) dependent manner. Occupancy of MED1 on estrogen response elements (EREs) upstream of miR-191/425 cluster is estrogen and ER-α-dependent and ER-α-induced expression of these miRNAs is MED1-dependent. MED1 mediates induction of cell proliferation and migration and the genes associated with it (JUN, FOS, EGFR, VEGF, MMP1, and ERBB4) in breast cancer, which is abrogated when used together with miR-191-inhibition. Additionally, we show that MED1 also regulate...
Nucleic Acids Research, 2015
Mediator, an important component of eukaryotic transcriptional machinery, is a huge multisubunit ... more Mediator, an important component of eukaryotic transcriptional machinery, is a huge multisubunit complex. Though the complex is known to be conserved across all the eukaryotic kingdoms, the evolutionary topology of its subunits has never been studied. In this study, we profiled disorder in the Mediator subunits of 146 eukaryotes belonging to three kingdoms viz., metazoans, plants and fungi, and attempted to find correlation between the evolution of Mediator complex and its disorder. Our analysis suggests that disorder in Mediator complex have played a crucial role in the evolutionary diversification of complexity of eukaryotic organisms. Conserved intrinsic disordered regions (IDRs) were identified in only six subunits in the three kingdoms whereas unique patterns of IDRs were identified in other Mediator subunits. Acquisition of novel molecular recognition features (MoRFs) through evolution of new subunits or through elongation of the existing subunits was evident in metazoans and plants. A new concept of 'junction-MoRF' has been introduced. Evolutionary link between CBP and Med15 has been provided which explain the evolution of extended-IDR in CBP from Med15 KIX-IDR junction-MoRF suggesting role of junction-MoRF in evolution and modulation of protein-protein interaction repertoire. This study can be informative and helpful in understanding the conserved and flexible nature of Mediator complex across eukaryotic kingdoms.
Plant Physiology
Plant adjustment to environmental changes involves complex crosstalk between extrinsic and intrin... more Plant adjustment to environmental changes involves complex crosstalk between extrinsic and intrinsic cues. In the past two decades, extensive research has elucidated the key roles of PHYTOCHROME INTERACTING FACTOR4 (PIF4) and the phytohormone auxin in thermomorphogenesis. In this study, we identified a previously unexplored role of jasmonate (JA) signaling components, the Mediator complex, and their integration with auxin signaling during thermomorphogenesis in Arabidopsis (Arabidopsis thaliana). Warm temperature induces expression of JA signaling genes including MYC2, but, surprisingly, this transcriptional activation is not JA dependent. Warm temperature also promotes accumulation of the JA-signaling receptor CORONATINE INSENSITIVE1 (COI1) and degradation of the JA-signaling repressor JASMONATE-ZIM-DOMAIN PROTEIN9 (JAZ9), which probably leads to de-repression of MYC2, enabling it to contribute to the expression of MEDIATOR SUBUNIT17 (MED17). In response to warm temperature, MED17 ...
Plant signaling & behavior, Feb 17, 2018
Med15 is an important subunit of Mediator tail module and is characterized by a KIX domain presen... more Med15 is an important subunit of Mediator tail module and is characterized by a KIX domain present in the amino terminal. In yeast and metazoans, Med15 KIX domain has been found to interact with various transcription factors, regulating several processes including carbohydrate metabolism, lipogenesis, stress response and multidrug resistance. Mechanism of Med15 functioning in Arabidopsis is largely unknown. In this study, interactome of Arabidopsis Med15, AtMed15a, was characterized. We found 45 proteins that interact with AtMed15a KIX domain, including 11 transcription factors, 3 single strand nucleic acid-binding proteins and 1 splicing factor. The third helix of the KIX domain was found to be involved in most of the interactions. Mapping of the regions participating in the interactions revealed that the activation domain of a transcription factor, UKTF1 interacted with AtMed15a KIX domain. Thus, our results suggest that in Arabidopsis, activation domain of transcription factors t...
Mediator, an important component of eukaryotic transcriptional machinery, is a huge multisubunit ... more Mediator, an important component of eukaryotic transcriptional
machinery, is a huge multisubunit complex.
Though the complex is known to be conserved
across all the eukaryotic kingdoms, the evolutionary
topology of its subunits has never been studied. In
this study, we profiled disorder in the Mediator subunits
of 146 eukaryotes belonging to three kingdoms
viz., metazoans, plants and fungi, and attempted to
find correlation between the evolution of Mediator
complex and its disorder. Our analysis suggests that
disorder in Mediator complex have played a crucial
role in the evolutionary diversification of complexity
of eukaryotic organisms. Conserved intrinsic
disordered regions (IDRs) were identified in only
six subunits in the three kingdoms whereas unique
patterns of IDRs were identified in other Mediator
subunits. Acquisition of novel molecular recognition
features (MoRFs) through evolution of new subunits
or through elongation of the existing subunits
was evident in metazoans and plants. A new concept
of ‘junction-MoRF’ has been introduced. Evolutionary
link between CBP and Med15 has been provided
which explain the evolution of extended-IDR in
CBP from Med15 KIX-IDR junction-MoRF suggesting
role of junction-MoRF in evolution and modulation
of protein–protein interaction repertoire. This study
can be informative and helpful in understanding the
conserved and flexible nature of Mediator complex
across eukaryotic kingdoms.
Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, 2019
This is a PDF file of an article that has undergone enhancements after acceptance, such as the ad... more This is a PDF file of an article that has undergone enhancements after acceptance, such as the addition of a cover page and metadata, and formatting for readability, but it is not yet the definitive version of record. This version will undergo additional copyediting, typesetting and review before it is published in its final form, but we are providing this version to give early visibility of the article. Please note that, during the production process, errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain.
Scientific reports, Jan 7, 2018
Mediator complex has been extensively shown to regulate the levels of several protein-coding gene... more Mediator complex has been extensively shown to regulate the levels of several protein-coding genes; however, its role in the regulation of miRNAs in humans remains unstudied so far. Here we show that MED1, a Mediator subunit in the Middle module of Mediator complex, is overexpressed in breast cancer and is a negative prognostic factor. The levels of several miRNAs (miR-100-5p, -191-5p, -193b-3p, -205-5p, -326, -422a and -425-5p) were found to be regulated by MED1. MED1 induces miR-191/425 cluster in an estrogen receptor-alpha (ER-α) dependent manner. Occupancy of MED1 on estrogen response elements (EREs) upstream of miR-191/425 cluster is estrogen and ER-α-dependent and ER-α-induced expression of these miRNAs is MED1-dependent. MED1 mediates induction of cell proliferation and migration and the genes associated with it (JUN, FOS, EGFR, VEGF, MMP1, and ERBB4) in breast cancer, which is abrogated when used together with miR-191-inhibition. Additionally, we show that MED1 also regulate...
Nucleic Acids Research, 2015
Mediator, an important component of eukaryotic transcriptional machinery, is a huge multisubunit ... more Mediator, an important component of eukaryotic transcriptional machinery, is a huge multisubunit complex. Though the complex is known to be conserved across all the eukaryotic kingdoms, the evolutionary topology of its subunits has never been studied. In this study, we profiled disorder in the Mediator subunits of 146 eukaryotes belonging to three kingdoms viz., metazoans, plants and fungi, and attempted to find correlation between the evolution of Mediator complex and its disorder. Our analysis suggests that disorder in Mediator complex have played a crucial role in the evolutionary diversification of complexity of eukaryotic organisms. Conserved intrinsic disordered regions (IDRs) were identified in only six subunits in the three kingdoms whereas unique patterns of IDRs were identified in other Mediator subunits. Acquisition of novel molecular recognition features (MoRFs) through evolution of new subunits or through elongation of the existing subunits was evident in metazoans and plants. A new concept of 'junction-MoRF' has been introduced. Evolutionary link between CBP and Med15 has been provided which explain the evolution of extended-IDR in CBP from Med15 KIX-IDR junction-MoRF suggesting role of junction-MoRF in evolution and modulation of protein-protein interaction repertoire. This study can be informative and helpful in understanding the conserved and flexible nature of Mediator complex across eukaryotic kingdoms.
Plant Physiology
Plant adjustment to environmental changes involves complex crosstalk between extrinsic and intrin... more Plant adjustment to environmental changes involves complex crosstalk between extrinsic and intrinsic cues. In the past two decades, extensive research has elucidated the key roles of PHYTOCHROME INTERACTING FACTOR4 (PIF4) and the phytohormone auxin in thermomorphogenesis. In this study, we identified a previously unexplored role of jasmonate (JA) signaling components, the Mediator complex, and their integration with auxin signaling during thermomorphogenesis in Arabidopsis (Arabidopsis thaliana). Warm temperature induces expression of JA signaling genes including MYC2, but, surprisingly, this transcriptional activation is not JA dependent. Warm temperature also promotes accumulation of the JA-signaling receptor CORONATINE INSENSITIVE1 (COI1) and degradation of the JA-signaling repressor JASMONATE-ZIM-DOMAIN PROTEIN9 (JAZ9), which probably leads to de-repression of MYC2, enabling it to contribute to the expression of MEDIATOR SUBUNIT17 (MED17). In response to warm temperature, MED17 ...
Plant signaling & behavior, Feb 17, 2018
Med15 is an important subunit of Mediator tail module and is characterized by a KIX domain presen... more Med15 is an important subunit of Mediator tail module and is characterized by a KIX domain present in the amino terminal. In yeast and metazoans, Med15 KIX domain has been found to interact with various transcription factors, regulating several processes including carbohydrate metabolism, lipogenesis, stress response and multidrug resistance. Mechanism of Med15 functioning in Arabidopsis is largely unknown. In this study, interactome of Arabidopsis Med15, AtMed15a, was characterized. We found 45 proteins that interact with AtMed15a KIX domain, including 11 transcription factors, 3 single strand nucleic acid-binding proteins and 1 splicing factor. The third helix of the KIX domain was found to be involved in most of the interactions. Mapping of the regions participating in the interactions revealed that the activation domain of a transcription factor, UKTF1 interacted with AtMed15a KIX domain. Thus, our results suggest that in Arabidopsis, activation domain of transcription factors t...
Mediator, an important component of eukaryotic transcriptional machinery, is a huge multisubunit ... more Mediator, an important component of eukaryotic transcriptional
machinery, is a huge multisubunit complex.
Though the complex is known to be conserved
across all the eukaryotic kingdoms, the evolutionary
topology of its subunits has never been studied. In
this study, we profiled disorder in the Mediator subunits
of 146 eukaryotes belonging to three kingdoms
viz., metazoans, plants and fungi, and attempted to
find correlation between the evolution of Mediator
complex and its disorder. Our analysis suggests that
disorder in Mediator complex have played a crucial
role in the evolutionary diversification of complexity
of eukaryotic organisms. Conserved intrinsic
disordered regions (IDRs) were identified in only
six subunits in the three kingdoms whereas unique
patterns of IDRs were identified in other Mediator
subunits. Acquisition of novel molecular recognition
features (MoRFs) through evolution of new subunits
or through elongation of the existing subunits
was evident in metazoans and plants. A new concept
of ‘junction-MoRF’ has been introduced. Evolutionary
link between CBP and Med15 has been provided
which explain the evolution of extended-IDR in
CBP from Med15 KIX-IDR junction-MoRF suggesting
role of junction-MoRF in evolution and modulation
of protein–protein interaction repertoire. This study
can be informative and helpful in understanding the
conserved and flexible nature of Mediator complex
across eukaryotic kingdoms.