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Article ; Online: A helping hand when drowning: The versatile role of ethylene in root flooding resilience

Leeggangers, Hendrika A.C.F. / Rodriguez-Granados, Natalia Yaneth / Macias-Honti, Monika Gyöngyi / Sasidharan, Rashmi

Environmental and Experimental Botany. 2023 Sept., v. 213 p.105422-

2023

Abstract: Ethylene plays a very important role as a stress signal for flooded plants, triggering a range of morphological and metabolic changes that help plants acclimate and survive these conditions. The present review surveys the current knowledge on the ... ...

Abstract	Ethylene plays a very important role as a stress signal for flooded plants, triggering a range of morphological and metabolic changes that help plants acclimate and survive these conditions. The present review surveys the current knowledge on the mechanisms underlying ethylene-dependent survival responses to waterlogging. We untangle the complexity of waterlogging signaling and response, focusing on root and shoot acclimation strategies mediated by ethylene. We describe how ethylene can have versatile roles in waterlogging tolerance, acting both as a local and long-distance signal during soil flooding and reoxygenation. We discuss the internal and external factors contributing to ethylene versatility in waterlogging responses. Finally, we highlight the current challenges and future research directions in the field, focusing not only on ethylene-mediated responses but also on flooding research applications in crop improvement.
Keywords	acclimation ; ethylene ; soil ; Waterlogging ; Systemic signaling ; Roots ; Hypoxia
Language	English
Dates of publication	2023-09
Publishing place	Elsevier B.V.
Document type	Article ; Online
ZDB-ID	195968-2
ISSN	0098-8472
ISSN	0098-8472
DOI	10.1016/j.envexpbot.2023.105422
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: The matrix revolutions: towards the decoding of the plant chromatin three-dimensional reality.

Huang, Ying / Rodriguez-Granados, Natalia Yaneth / Latrasse, David / Raynaud, Cecile / Benhamed, Moussa / Ramirez-Prado, Juan Sebastian

Journal of experimental botany

2020 Volume 71, Issue 17, Page(s) 5129–5147

Abstract: In recent years, we have witnessed a significant increase in studies addressing the three-dimensional (3D) chromatin organization of the plant nucleus. Important advances in chromatin conformation capture (3C)-derived and related techniques have allowed ... ...

Abstract	In recent years, we have witnessed a significant increase in studies addressing the three-dimensional (3D) chromatin organization of the plant nucleus. Important advances in chromatin conformation capture (3C)-derived and related techniques have allowed the exploration of the nuclear topology of plants with large and complex genomes, including various crops. In addition, the increase in their resolution has permitted the depiction of chromatin compartmentalization and interactions at the gene scale. These studies have revealed the highly complex mechanisms governing plant nuclear architecture and the remarkable knowledge gaps in this field. Here we discuss the state-of-the-art in plant chromosome architecture, including our knowledge of the hierarchical organization of the genome in 3D space and regarding other nuclear components. Furthermore, we highlight the existence in plants of topologically associated domain (TAD)-like structures that display striking differences from their mammalian counterparts, proposing the concept of ICONS-intergenic condensed spacers. Similarly, we explore recent advances in the study of chromatin loops and R-loops, and their implication in the regulation of gene activity. Finally, we address the impact that polyploidization has had on the chromatin topology of modern crops, and how this is related to phenomena such as subgenome dominance and biased gene retention in these organisms.
MeSH term(s)	Animals ; Cell Nucleus/genetics ; Chromatin/genetics ; Chromosomes, Plant ; Genome ; Plants/genetics
Chemical Substances	Chromatin
Language	English
Publishing date	2020-07-27
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2976-2
ISSN	1460-2431 ; 0022-0957
ISSN (online)	1460-2431
ISSN	0022-0957
DOI	10.1093/jxb/eraa322
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Article ; Online: Ethylene produced in carpel primordia controls CmHB40 expression to inhibit stamen development.

Rashid, Dali / Devani, Ravi Sureshbhai / Rodriguez-Granados, Natalia Yaneth / Abou-Choucha, Fadi / Troadec, Christelle / Morin, Halima / Tan, Feng-Quan / Marcel, Fabien / Huang, Hsin-Ya / Hanique, Melissa / Zhang, Siqi / Verdenaud, Marion / Pichot, Clement / Rittener, Vincent / Huang, Ying / Benhamed, Moussa / Dogimont, Catherine / Boualem, Adnane / Bendahmane, Abdelhafid

Nature plants

2023 Volume 9, Issue 10, Page(s) 1675–1687

Abstract: Sex determination evolved to control the development of unisexual flowers. In agriculture, it conditions how plants are cultivated and bred. We investigated how female flowers develop in monoecious cucurbits. We discovered in melon, Cucumis melo, a ... ...

Abstract	Sex determination evolved to control the development of unisexual flowers. In agriculture, it conditions how plants are cultivated and bred. We investigated how female flowers develop in monoecious cucurbits. We discovered in melon, Cucumis melo, a mechanism in which ethylene produced in the carpel is perceived in the stamen primordia through spatially differentially expressed ethylene receptors. Subsequently, the CmEIN3/CmEIL1 ethylene signalling module, in stamen primordia, activates the expression of CmHB40, a transcription factor that downregulates genes required for stamen development and upregulates genes associated with organ senescence. Investigation of melon genetic biodiversity revealed a haplotype, originating in Africa, altered in EIN3/EIL1 binding to CmHB40 promoter and associated with bisexual flower development. In contrast to other bisexual mutants in cucurbits, CmHB40 mutations do not alter fruit shape. By disentangling fruit shape and sex-determination pathways, our work opens up new avenues in plant breeding.
MeSH term(s)	Plant Proteins/genetics ; Plant Proteins/metabolism ; Plant Breeding ; Ethylenes/metabolism ; Cucurbitaceae/genetics ; Flowers ; Gene Expression Regulation, Plant
Chemical Substances	Plant Proteins ; ethylene (91GW059KN7) ; Ethylenes
Language	English
Publishing date	2023-08-31
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	2055-0278
ISSN (online)	2055-0278
DOI	10.1038/s41477-023-01511-z
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Article: CmLHP1 proteins play a key role in plant development and sex determination in melon (Cucumis melo)

Rodriguez‐Granados, Natalia Yaneth / Ramirez‐Prado, Juan Sebastian / Brik‐Chaouche, Rim / An, Jing / Manza‐Mianza, Deborah / Sircar, Sanchari / Troadec, Christelle / Hanique, Melissa / Soulard, Camille / Costa, Rafael / Dogimont, Catherine / Latrasse, David / Raynaud, Cécile / Boualem, Adnane / Benhamed, Moussa / Bendahmane, Abdelhafid

plant journal. 2022 Mar., v. 109, no. 5

2022

Abstract: In monoecious melon (Cucumis melo), sex is determined by the differential expression of sex determination genes (SDGs) and adoption of sex‐specific transcriptional programs. Histone modifications such as H3K27me3 have been previously shown to be a ... ...

Abstract	In monoecious melon (Cucumis melo), sex is determined by the differential expression of sex determination genes (SDGs) and adoption of sex‐specific transcriptional programs. Histone modifications such as H3K27me3 have been previously shown to be a hallmark associated to unisexual flower development in melon; yet, no genetic approaches have been conducted for elucidating the roles of H3K27me3 writers, readers, and erasers in this process. Here we show that melon homologs to Arabidopsis LHP1, CmLHP1A and B, redundantly control several aspects of plant development, including sex expression. Cmlhp1ab double mutants displayed an overall loss and redistribution of H3K27me3, leading to a deregulation of genes involved in hormone responses, plant architecture, and flower development. Consequently, double mutants display pleiotropic phenotypes and, interestingly, a general increase of the male:female ratio. We associated this phenomenon with a general deregulation of some hormonal response genes and a local activation of male‐promoting SDGs and MADS‐box transcription factors. Altogether, these results reveal a novel function for CmLHP1 proteins in maintenance of monoecy and provide novel insights into the polycomb‐mediated epigenomic regulation of sex lability in plants.
Keywords	Arabidopsis ; Cucumis melo ; epigenome ; flowering ; gene expression regulation ; histones ; melons ; monoecy ; plant architecture ; sex determination ; transcription (genetics)
Language	English
Dates of publication	2022-03
Size	p. 1213-1228.
Publishing place	John Wiley & Sons, Ltd
Document type	Article
Note	JOURNAL ARTICLE
ZDB-ID	1088037-9
ISSN	1365-313X ; 0960-7412
ISSN (online)	1365-313X
ISSN	0960-7412
DOI	10.1111/tpj.15627
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Chromatin architecture: A new dimension in the dynamic control of gene expression.

Ramirez-Prado, Juan Sebastian / Rodriguez-Granados, Natalia Yaneth / Ariel, Federico / Raynaud, Cécile / Benhamed, Moussa

Plant signaling & behavior

2016 Volume 11, Issue 10, Page(s) e1232224

Abstract: As the most recent evidence of eukaryotic cell complexity, genome architecture has astounded the scientific community and prompted a variety of technical and cognitive challenges. Several technologies have emerged and evidenced the integration of ... ...

Abstract	As the most recent evidence of eukaryotic cell complexity, genome architecture has astounded the scientific community and prompted a variety of technical and cognitive challenges. Several technologies have emerged and evidenced the integration of chromatin packaging and topology, epigenetic processes, and transcription for the pertinent regulation of gene expression. In the present addendum we present and discuss some of our recent research, directed toward the holistic comprehension of the processes by which plants respond to environmental and developmental stimuli. We propose that the study of genome topology and genomic interactions is essential for the understanding of the molecular mechanisms behind a phenotype. Even though our knowledge and understanding of genome architecture and hierarchy has improved substantially in the last few years -in Arabidopsis and other eukaryotes -, there is still a long way ahead in this relatively new field of study. For this, it is necessary to take advantage of the high resolution of the emerging available techniques, and perform integrative approaches with which it will be possible to depict the role of chromatin architecture in the regulation of transcription and ultimately, physiological processes.
MeSH term(s)	Arabidopsis/genetics ; Arabidopsis/metabolism ; Chromatin/genetics ; Chromatin/metabolism ; Gene Expression/genetics ; RNA, Long Noncoding/genetics
Chemical Substances	Chromatin ; RNA, Long Noncoding
Language	English
Publishing date	2016-10-02
Publishing country	United States
Document type	Journal Article
ISSN	1559-2324
ISSN (online)	1559-2324
DOI	10.1080/15592324.2016.1232224
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: CmLHP1 proteins play a key role in plant development and sex determination in melon (Cucumis melo).

Rodriguez-Granados, Natalia Yaneth / Ramirez-Prado, Juan Sebastian / Brik-Chaouche, Rim / An, Jing / Manza-Mianza, Deborah / Sircar, Sanchari / Troadec, Christelle / Hanique, Melissa / Soulard, Camille / Costa, Rafael / Dogimont, Catherine / Latrasse, David / Raynaud, Cécile / Boualem, Adnane / Benhamed, Moussa / Bendahmane, Abdelhafid

The Plant journal : for cell and molecular biology

2021 Volume 109, Issue 5, Page(s) 1213–1228

Abstract: In monoecious melon (Cucumis melo), sex is determined by the differential expression of sex determination genes (SDGs) and adoption of sex-specific transcriptional programs. Histone modifications such as H3K27me3 have been previously shown to be a ... ...

Abstract	In monoecious melon (Cucumis melo), sex is determined by the differential expression of sex determination genes (SDGs) and adoption of sex-specific transcriptional programs. Histone modifications such as H3K27me3 have been previously shown to be a hallmark associated to unisexual flower development in melon; yet, no genetic approaches have been conducted for elucidating the roles of H3K27me3 writers, readers, and erasers in this process. Here we show that melon homologs to Arabidopsis LHP1, CmLHP1A and B, redundantly control several aspects of plant development, including sex expression. Cmlhp1ab double mutants displayed an overall loss and redistribution of H3K27me3, leading to a deregulation of genes involved in hormone responses, plant architecture, and flower development. Consequently, double mutants display pleiotropic phenotypes and, interestingly, a general increase of the male:female ratio. We associated this phenomenon with a general deregulation of some hormonal response genes and a local activation of male-promoting SDGs and MADS-box transcription factors. Altogether, these results reveal a novel function for CmLHP1 proteins in maintenance of monoecy and provide novel insights into the polycomb-mediated epigenomic regulation of sex lability in plants.
MeSH term(s)	Arabidopsis/genetics ; Cucumis melo/genetics ; Cucumis melo/metabolism ; Cucurbitaceae/genetics ; Gene Expression Regulation, Plant/genetics ; Histones/metabolism ; Plant Development ; Plant Proteins/genetics ; Plant Proteins/metabolism
Chemical Substances	Histones ; Plant Proteins
Language	English
Publishing date	2021-12-21
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1088037-9
ISSN	1365-313X ; 0960-7412
ISSN (online)	1365-313X
ISSN	0960-7412
DOI	10.1111/tpj.15627
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: The Polycomb protein LHP1 regulates Arabidopsis thaliana stress responses through the repression of the MYC2‐dependent branch of immunity

Ramirez‐Prado, Juan Sebastian / Latrasse, David / Rodriguez‐Granados, Natalia Yaneth / Huang, Ying / Manza‐Mianza, Deborah / Brik‐Chaouche, Rim / Jaouannet, Maelle / Citerne, Sylvie / Bendahmane, Abdelhafid / Hirt, Heribert / Raynaud, Cecile / Benhamed, Moussa

plant journal. 2019 Dec., v. 100, no. 6

2019

Abstract: Polycomb repressive complexes (PRCs) have been traditionally associated with the regulation of developmental processes in various organisms, including higher plants. However, similar to other epigenetic regulators, there is accumulating evidence for ... ...

Abstract	Polycomb repressive complexes (PRCs) have been traditionally associated with the regulation of developmental processes in various organisms, including higher plants. However, similar to other epigenetic regulators, there is accumulating evidence for their role in the regulation of stress and immune‐related pathways. In the current study we show that the PRC1 protein LHP1 is required for the repression of the MYC2 branch of jasmonic acid (JA)/ethylene (ET) pathway of immunity. Loss of LHP1 induces the reduction in H3K27me3 levels in the gene bodies of ANAC019 and ANAC055, as well as some of their targets, leading to their transcriptional upregulation. Consistently, increased expression of these two transcription factors leads to the misregulation of several of their genomic targets. The lhp1 mutant mimics the MYC2, ANAC019, and ANAC055 overexpressers in several of their phenotypes, including increased aphid resistance, abscisic acid (ABA) sensitivity and drought tolerance. In addition, like the MYC2 and ANAC overexpressers, lhp1 displays reduced salicylic acid (SA) content caused by a deregulation of ICS1 and BSMT1, as well as increased susceptibility to the hemibiotrophic pathogen Pseudomonas syringae pv. tomato DC3000. Together, our results indicate that LHP1 regulates the expression of stress‐responsive genes as well as the homeostasis and responses to the stress hormones SA and ABA. This protein emerges as a key chromatin player fine tuning the complex balance between developmental and stress‐responsive processes.
Keywords	Aphidoidea ; Arabidopsis thaliana ; Pseudomonas syringae pv. tomato ; abscisic acid ; chromatin ; disease susceptibility ; drought tolerance ; epigenetics ; ethylene ; gene expression regulation ; gene overexpression ; genes ; genomics ; homeostasis ; hormones ; immunity ; jasmonic acid ; mutants ; pathogens ; phenotype ; salicylic acid ; stress response ; transcription (genetics) ; transcription factors
Language	English
Dates of publication	2019-12
Size	p. 1118-1131.
Publishing place	John Wiley & Sons, Ltd
Document type	Article
Note	JOURNAL ARTICLE
ZDB-ID	1088037-9
ISSN	1365-313X ; 0960-7412
ISSN (online)	1365-313X
ISSN	0960-7412
DOI	10.1111/tpj.14502
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: The Polycomb protein LHP1 regulates Arabidopsis thaliana stress responses through the repression of the MYC2-dependent branch of immunity.

Ramirez-Prado, Juan Sebastian / Latrasse, David / Rodriguez-Granados, Natalia Yaneth / Huang, Ying / Manza-Mianza, Deborah / Brik-Chaouche, Rim / Jaouannet, Maelle / Citerne, Sylvie / Bendahmane, Abdelhafid / Hirt, Heribert / Raynaud, Cecile / Benhamed, Moussa

The Plant journal : for cell and molecular biology

2019 Volume 100, Issue 6, Page(s) 1118–1131

Abstract	Polycomb repressive complexes (PRCs) have been traditionally associated with the regulation of developmental processes in various organisms, including higher plants. However, similar to other epigenetic regulators, there is accumulating evidence for their role in the regulation of stress and immune-related pathways. In the current study we show that the PRC1 protein LHP1 is required for the repression of the MYC2 branch of jasmonic acid (JA)/ethylene (ET) pathway of immunity. Loss of LHP1 induces the reduction in H3K27me3 levels in the gene bodies of ANAC019 and ANAC055, as well as some of their targets, leading to their transcriptional upregulation. Consistently, increased expression of these two transcription factors leads to the misregulation of several of their genomic targets. The lhp1 mutant mimics the MYC2, ANAC019, and ANAC055 overexpressers in several of their phenotypes, including increased aphid resistance, abscisic acid (ABA) sensitivity and drought tolerance. In addition, like the MYC2 and ANAC overexpressers, lhp1 displays reduced salicylic acid (SA) content caused by a deregulation of ICS1 and BSMT1, as well as increased susceptibility to the hemibiotrophic pathogen Pseudomonas syringae pv. tomato DC3000. Together, our results indicate that LHP1 regulates the expression of stress-responsive genes as well as the homeostasis and responses to the stress hormones SA and ABA. This protein emerges as a key chromatin player fine tuning the complex balance between developmental and stress-responsive processes.
MeSH term(s)	Abscisic Acid/metabolism ; Animals ; Aphids ; Arabidopsis/genetics ; Arabidopsis/metabolism ; Arabidopsis Proteins/genetics ; Arabidopsis Proteins/metabolism ; Basic Helix-Loop-Helix Leucine Zipper Transcription Factors/metabolism ; Cyclopentanes ; Ethylenes/metabolism ; Gene Expression Regulation, Plant ; Oxylipins ; Plant Diseases/immunology ; Plant Immunity/immunology ; Plant Immunity/physiology ; Polycomb-Group Proteins ; Pseudomonas syringae/metabolism ; Pseudomonas syringae/pathogenicity ; Salicylic Acid/metabolism ; Transcription Factors/genetics ; Transcription Factors/metabolism ; Transcriptome
Chemical Substances	ANAC019 protein, Arabidopsis ; ANAC055 protein, Arabidopsis ; Arabidopsis Proteins ; Basic Helix-Loop-Helix Leucine Zipper Transcription Factors ; Cyclopentanes ; Ethylenes ; LHP1 protein, Arabidopsis ; MYC2 protein, Arabidopsis ; Oxylipins ; Polycomb-Group Proteins ; Transcription Factors ; jasmonic acid (6RI5N05OWW) ; Abscisic Acid (72S9A8J5GW) ; ethylene (91GW059KN7) ; Salicylic Acid (O414PZ4LPZ)
Language	English
Publishing date	2019-10-15
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1088037-9
ISSN	1365-313X ; 0960-7412
ISSN (online)	1365-313X
ISSN	0960-7412
DOI	10.1111/tpj.14502
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