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Dr. Hatem Rouached
The Plant Resilience Institute, Department of Plant, Soil and Microbial Sciences, Michigan State University, MI 48824, USA

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0 Phytoremediation
0 Plants
0 Signalling
0 heavy metal
0 transport

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Plants
transport
mineral nutrition
Signalling
Phytoremediation
heavy metal

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Accepted manuscript
Published: 24 March 2021 in Journal of Experimental Botany
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Plants need to cope with strong variations of nitrogen availability in the soil. Although many molecular players are being discovered concerning how plants perceive NO3− provision, it is less clear how plants recognize a lack of nitrogen. Following nitrogen removal, plants activate their nitrogen starvation response (NSR), which is characterized by the activation of very high-affinity nitrate transport systems (NRT2.4 and NRT2.5) and other sentinel genes involved in N remobilization such as GDH3. Using a combination of functional genomics via transcription factor perturbation and molecular physiology studies, we show that the transcription factors belonging to the HHO subfamily are important regulators of NSR through two potential mechanisms. First, HHOs directly repress the high-affinity nitrate transporters, NRT2.4 and NRT2.5. hho mutants display increased high-affinity nitrate transport activity, opening up promising perspectives for biotechnological applications. Second, we show that reactive oxygen species (ROS) are important to control NSR in wild-type plants and that HRS1 and HHO1 overexpressors and mutants are affected in their ROS content, defining a potential feed-forward branch of the signaling pathway. Taken together, our results define the relationships of two types of molecular players controlling the NSR, namely ROS and the HHO transcription factors. This work (i) up opens perspectives on a poorly understood nutrient-related signaling pathway and (ii) defines targets for molecular breeding of plants with enhanced NO3− uptake.

ACS Style

Alaeddine Safi; Anna Medici; Wojciech Szponarski; Florence Martin; Anne Clément-Vidal; Amy Marshall-Colon; Sandrine Ruffel; Frédéric Gaymard; Hatem Rouached; Julie Leclercq; Gloria Coruzzi; Benoît Lacombe; Gabriel Krouk. GARP transcription factors repress Arabidopsis nitrogen starvation response via ROS-dependent and -independent pathways. Journal of Experimental Botany 2021, 72, 3881 -3901.

AMA Style

Alaeddine Safi, Anna Medici, Wojciech Szponarski, Florence Martin, Anne Clément-Vidal, Amy Marshall-Colon, Sandrine Ruffel, Frédéric Gaymard, Hatem Rouached, Julie Leclercq, Gloria Coruzzi, Benoît Lacombe, Gabriel Krouk. GARP transcription factors repress Arabidopsis nitrogen starvation response via ROS-dependent and -independent pathways. Journal of Experimental Botany. 2021; 72 (10):3881-3901.

Chicago/Turabian Style

Alaeddine Safi; Anna Medici; Wojciech Szponarski; Florence Martin; Anne Clément-Vidal; Amy Marshall-Colon; Sandrine Ruffel; Frédéric Gaymard; Hatem Rouached; Julie Leclercq; Gloria Coruzzi; Benoît Lacombe; Gabriel Krouk. 2021. "GARP transcription factors repress Arabidopsis nitrogen starvation response via ROS-dependent and -independent pathways." Journal of Experimental Botany 72, no. 10: 3881-3901.

Preprint content
Published: 12 February 2021
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Iron deficiency hampers photosynthesis and is associated with chlorosis. We recently showed that iron deficiency-induced chlorosis depends on phosphorus availability. How plants integrate these cues to control chlorophyll accumulation is unknown. Here, we show that iron limitation downregulates photosynthesis genes in a phosphorus-dependent manner. Using transcriptomics and genome-wide association analysis, we identify two genes, a chloroplastic ascorbate transporter (PHT4;4) and a nuclear transcription factor (bZIP58), which prevent the downregulation of photosynthesis genes leading to the stay-green phenotype under iron-phosphorus deficiency. Joint limitation of these nutrients induces ascorbate accumulation by activating expression of an ascorbate biosynthesis gene, VTC4, which requires bZIP58. Exogenous ascorbate prevents iron deficiency-induced chlorosis in vtc4 mutants, but not in bzip58 or pht4;4. Our study demonstrates chloroplastic ascorbate transport is essential for preventing the downregulation of photosynthesis genes under iron-phosphorus combined deficiency. These findings uncover a molecular pathway coordinating chloroplast-nucleus communication to adapt photosynthesis to nutrient availability.

ACS Style

Hye-In Nam; Zaigham Shahzad; Yanniv Dorone; Sophie Clowez; Kangmei Zhao; Nadia Bouain; Huikyong Cho; Seung Y. Rhee; Hatem Rouached. Interdependent Iron and Phosphorus Availability Controls Photosynthesis Through Retrograde Signaling. 2021, 1 .

AMA Style

Hye-In Nam, Zaigham Shahzad, Yanniv Dorone, Sophie Clowez, Kangmei Zhao, Nadia Bouain, Huikyong Cho, Seung Y. Rhee, Hatem Rouached. Interdependent Iron and Phosphorus Availability Controls Photosynthesis Through Retrograde Signaling. . 2021; ():1.

Chicago/Turabian Style

Hye-In Nam; Zaigham Shahzad; Yanniv Dorone; Sophie Clowez; Kangmei Zhao; Nadia Bouain; Huikyong Cho; Seung Y. Rhee; Hatem Rouached. 2021. "Interdependent Iron and Phosphorus Availability Controls Photosynthesis Through Retrograde Signaling." , no. : 1.

Journal article
Published: 11 November 2020 in Journal of Experimental Botany
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In plants, iron (Fe) transport and homeostasis are highly regulated processes. Fe deficiency or excess dramatically limits plant and algal productivity. Interestingly, complex and unexpected interconnections between Fe and various macro- and micronutrient homeostatic networks, supposedly maintaining general ionic equilibrium and balanced nutrition, are currently being uncovered. Although these interactions have profound consequences for our understanding of Fe homeostasis and its regulation, their molecular bases and biological significance remain poorly understood. Here, we review recent knowledge gained on how Fe interacts with micronutrient (e.g. zinc, manganese) and macronutrient (e.g. sulfur, phosphate) homeostasis, and on how these interactions affect Fe uptake and trafficking. Finally, we highlight the importance of developing an improved model of how Fe signaling pathways are integrated into functional networks to control plant growth and development in response to fluctuating environments.

ACS Style

Marc Hanikenne; Sara M Esteves; Steven Fanara; Hatem Rouached. Coordinated homeostasis of essential mineral nutrients: a focus on iron. Journal of Experimental Botany 2020, 72, 2136 -2153.

AMA Style

Marc Hanikenne, Sara M Esteves, Steven Fanara, Hatem Rouached. Coordinated homeostasis of essential mineral nutrients: a focus on iron. Journal of Experimental Botany. 2020; 72 (6):2136-2153.

Chicago/Turabian Style

Marc Hanikenne; Sara M Esteves; Steven Fanara; Hatem Rouached. 2020. "Coordinated homeostasis of essential mineral nutrients: a focus on iron." Journal of Experimental Botany 72, no. 6: 2136-2153.

Journal article
Published: 07 October 2020 in Critical Reviews in Biotechnology
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Phosphorus (P) is an essential macronutrient for all living organisms. Importantly, plants require a large amount of P to grow, and P deficiency causes huge losses in plant production. Although this issue can be mitigated by the appropriate use of phosphate (Pi) rock-derived P fertilizers, phosphate rock is a finite natural resource. Moreover, the increased demand for food as a result of our growing global population is another factor contributing to a prospective P crisis. While creating crops that are resilient to Pi deficiency presents great scientific challenge, the current progress in our understanding of how plants regulate Pi homeostasis offers some opportunities for further study. In this review, we present the published research supporting these opportunities, which are based on the molecular mechanisms that plants have evolved to respond to P deficiency. First, we focus on recent advances in P sensing and signaling pathways in the regulation of root system architecture. Next, we describe the mechanisms that regulate Pi transport and accumulation, in a Pi- (or other nutrient) dependent manner. Integrating these data will help to design an innovative strategy for improving Pi nutrition in plants. In addition, this will help with Pi scarcity, one of the challenges facing agriculture in the twenty first century.

ACS Style

Huikyong Cho; Nadia Bouain; Luqing Zheng; Hatem Rouached. Plant resilience to phosphate limitation: current knowledge and future challenges. Critical Reviews in Biotechnology 2020, 41, 63 -71.

AMA Style

Huikyong Cho, Nadia Bouain, Luqing Zheng, Hatem Rouached. Plant resilience to phosphate limitation: current knowledge and future challenges. Critical Reviews in Biotechnology. 2020; 41 (1):63-71.

Chicago/Turabian Style

Huikyong Cho; Nadia Bouain; Luqing Zheng; Hatem Rouached. 2020. "Plant resilience to phosphate limitation: current knowledge and future challenges." Critical Reviews in Biotechnology 41, no. 1: 63-71.

Preprint content
Published: 29 May 2020
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Iron (Fe) and phosphate (P) are essential mineral nutrients for plant growth and development. While it is known that Fe and P pathways interacts within plants however, our understanding of the molecular mechanisms regulating nutrient interaction during plant vegetative and reproductive stages remains largely unknown. Herein, we provide a comprehensive physiological and molecular analysis of hexaploid wheat response to single P/Fe and combined Fe and P deficiency. Our data showed that wheat primary root growth was inhibited in response to –Fe, and remarkably rescued by co-occurring deficiencies of Fe and P. Transcriptome analysis revealed drastic and distinct molecular rearrangements to adapt the single and combined nutrient stress with dominance of Fe responsive cis-regulatory elements. Gene-based clustering and root-specific transcriptome expression analysis identify several important unique components induced in response to combined stress –Fe–P, including UDP-glycosyltransferases and cytochrome-P450 and glutathione metabolism. These data are consistent with our metabolome data, which further reveals specific metabolite accumulation in –Fe–P those include amino-isobutyric acid, arabinonic acid and aconitic acid. Finally, at reproductive stage alleviations of the negative effect of Fe was also observed in –Fe–P (i.e. spikelet development). Collectively, the data obtained is essential for designing new strategies to improve resilience of crops to cope with the limited nutrients in soils.HighlightHexaploid wheat showed distinct physiological and molecular changes during single and combined deficiency of iron and phosphate. Alleviations of the negative effect of - Fe was observed in –Fe–P combined deficiency in the root phenotype and spike development.

ACS Style

Gazaldeep Kaur; Vishnu Shukla; Varsha Meena; Anil Kumar; Jagtar Singh; Pramod Kaitheri Kandoth; Shrikant Mantri; Hatem Raouched; Ajay Kumar Pandey. Underpinning wheat physiological and molecular responses to co-occurring iron and phosphate deficiency stress. 2020, 1 .

AMA Style

Gazaldeep Kaur, Vishnu Shukla, Varsha Meena, Anil Kumar, Jagtar Singh, Pramod Kaitheri Kandoth, Shrikant Mantri, Hatem Raouched, Ajay Kumar Pandey. Underpinning wheat physiological and molecular responses to co-occurring iron and phosphate deficiency stress. . 2020; ():1.

Chicago/Turabian Style

Gazaldeep Kaur; Vishnu Shukla; Varsha Meena; Anil Kumar; Jagtar Singh; Pramod Kaitheri Kandoth; Shrikant Mantri; Hatem Raouched; Ajay Kumar Pandey. 2020. "Underpinning wheat physiological and molecular responses to co-occurring iron and phosphate deficiency stress." , no. : 1.

Research article
Published: 06 November 2019 in PLOS Genetics
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The molecular mechanisms by which plants modulate their root growth rate (RGR) in response to nutrient deficiency are largely unknown. Using Arabidopsis thaliana accessions, we analyzed RGR variation under combinatorial mineral nutrient deficiencies involving phosphorus (P), iron (Fe), and zinc (Zn). While -P stimulated early RGR of most accessions, -Fe or -Zn reduced it. The combination of either -P-Fe or -P-Zn led to suppression of the growth inhibition exerted by -Fe or -Zn alone. Surprisingly, root growth responses of the reference accession Columbia (Col-0) were not representative of the species under -P nor -Zn. Using a systems approach that combines GWAS, network-based candidate identification, and reverse genetic screen, we identified new genes that regulate root growth in -P-Fe: VIM1, FH6, and VDAC3. Our findings provide a framework to systematically identifying favorable allelic variations to improve root growth, and to better understand how plants sense and respond to multiple environmental cues. Plants thrive in highly heterogenous soils. How they compute a multitude of contrasting stimuli and mount an adaptive response without a centralized information processing unit is an intriguing question. For instance, below ground, roots can sense and respond to the single or multiple nutrient stresses, and adjust its growth rate accordingly. Nevertheless, the genetic architecture of root growth responses under single and combined stress remains poorly understood. To fill this gap in our understanding about such crucial phenomenon for plant survival, we explored the natural variation of root growth rate (RGR) in Arabidopsis grown under single and combined nutritional stress, including deficiencies of iron (-Fe), zinc (-Zn), phosphate and iron (-P-Fe) and phosphate and zinc (-P-Zn). Our GWAS revealed distinct genetic architectures underlying root growth responses to single or combined nutrient stresses. By integrating GWAS and coexpression networks, we identified and validated genes controlling the variation of root growth to combined nutrient-deficiency, namely VARIANT IN METHYLATION 1, FORMIN-LIKE-PROTEIN-6 and VOLTAGE-DEPENDENT ANION-SELECTIVE CHANNEL PROTEIN 3. Our findings provide a framework to accelerate future research aiming at better understanding how plants sense and respond to multiple environmental inputs, and promise to help designing new agronomical and biotechnological strategies to improve root growth.

ACS Style

Nadia Bouain; Arthur Korte; Santosh B. Satbhai; Hye-In Nam; Seung Y. Rhee; Wolfgang Busch; Hatem Rouached. Systems genomics approaches provide new insights into Arabidopsis thaliana root growth regulation under combinatorial mineral nutrient limitation. PLOS Genetics 2019, 15, e1008392 .

AMA Style

Nadia Bouain, Arthur Korte, Santosh B. Satbhai, Hye-In Nam, Seung Y. Rhee, Wolfgang Busch, Hatem Rouached. Systems genomics approaches provide new insights into Arabidopsis thaliana root growth regulation under combinatorial mineral nutrient limitation. PLOS Genetics. 2019; 15 (11):e1008392.

Chicago/Turabian Style

Nadia Bouain; Arthur Korte; Santosh B. Satbhai; Hye-In Nam; Seung Y. Rhee; Wolfgang Busch; Hatem Rouached. 2019. "Systems genomics approaches provide new insights into Arabidopsis thaliana root growth regulation under combinatorial mineral nutrient limitation." PLOS Genetics 15, no. 11: e1008392.

Review
Published: 01 June 2019 in Trends in Plant Science
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In nature, plants have to handle daily fluctuations in light and temperature. In addition, plants face biotic and abiotic stresses that often come in various combinations. For instance, the availability of various nutrients in soil is heterogeneous, resulting in combined nutrient stress. Recent studies reveal that plant responses to multiple nutrient stresses are not the summation of the plant responses to each individual stress. Here, we present and discuss the interactions between phosphate, nitrogen, and zinc to illustrate the effect of macro- and micronutrient interactions on plant growth and ion homeostasis. Solving the mystery of these interactions will pave the way to the development of strategies to improve crop productivity.

ACS Style

Nadia Bouain; Gabriel Krouk; Benoit Lacombe; Hatem Rouached. Getting to the Root of Plant Mineral Nutrition: Combinatorial Nutrient Stresses Reveal Emergent Properties. Trends in Plant Science 2019, 24, 542 -552.

AMA Style

Nadia Bouain, Gabriel Krouk, Benoit Lacombe, Hatem Rouached. Getting to the Root of Plant Mineral Nutrition: Combinatorial Nutrient Stresses Reveal Emergent Properties. Trends in Plant Science. 2019; 24 (6):542-552.

Chicago/Turabian Style

Nadia Bouain; Gabriel Krouk; Benoit Lacombe; Hatem Rouached. 2019. "Getting to the Root of Plant Mineral Nutrition: Combinatorial Nutrient Stresses Reveal Emergent Properties." Trends in Plant Science 24, no. 6: 542-552.

Preprint content
Published: 04 February 2019
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Iron is one of essential micronutrient for all organisms. Its deficiency causes a severe loss in crops yield. Nevertheless, our current understanding on major crops response to Fe deficiency remains limited. Herein, we investigated the effect of Fe deprivation at both transcriptomic and metabolic levels in hexaploid wheat. A genome-wide gene expression reprogramming was observed with a total of 5854 genes showing differential expression in roots of wheat subjected to Fe-starved medium. Subsequent, analysis revealed a predominance of strategy-II mode of Fe uptake, with induced genome bias contribution from the A and B genomes. In general, the predominance of genes encoding for nicotianamine synthase, yellow stripe like transporters, metal transporters, ABC transporters and zinc-induced facilitator-like protein was noticed. Our transcriptomic data were in agreement with the GC-MS analysis that showed an enhancement of accumulation of various metabolites such as fumarate, malonate, succinate and xylofuranose, which could be linked for enhancing Fe-mobilization. Interestingly, Fe starvation causes a significant temporal increase of glutathione-S-transferase both at transcriptional and enzymatic activity, which indicate the important role of glutathione in the response to Fe starvation in wheat roots. Taken together, our result provides new insight on wheat response to Fe starvation and lays foundation to design strategies to improve Fe nutrition in crops.

ACS Style

Gazaldeep Kaur; Vishnu Shukla; Anil Kumar; Mandeep Kaur; Parul Goel; Palvinder Singh; Anuj Shukla; Jaspreet Kaur; Jagtar Singh; Shrikant Mantri; Hatem Rouached; Ajay Kumar Pandey; Varsha Meena. Genome-wide expression analysis identifies core components during iron starvation in hexaploid wheat. 2019, 539098 .

AMA Style

Gazaldeep Kaur, Vishnu Shukla, Anil Kumar, Mandeep Kaur, Parul Goel, Palvinder Singh, Anuj Shukla, Jaspreet Kaur, Jagtar Singh, Shrikant Mantri, Hatem Rouached, Ajay Kumar Pandey, Varsha Meena. Genome-wide expression analysis identifies core components during iron starvation in hexaploid wheat. . 2019; ():539098.

Chicago/Turabian Style

Gazaldeep Kaur; Vishnu Shukla; Anil Kumar; Mandeep Kaur; Parul Goel; Palvinder Singh; Anuj Shukla; Jaspreet Kaur; Jagtar Singh; Shrikant Mantri; Hatem Rouached; Ajay Kumar Pandey; Varsha Meena. 2019. "Genome-wide expression analysis identifies core components during iron starvation in hexaploid wheat." , no. : 539098.

Comment
Published: 03 December 2018 in Nature Plants
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ACS Style

Hatem Rouached. Red light means on for phosphorus. Nature Plants 2018, 4, 983 -984.

AMA Style

Hatem Rouached. Red light means on for phosphorus. Nature Plants. 2018; 4 (12):983-984.

Chicago/Turabian Style

Hatem Rouached. 2018. "Red light means on for phosphorus." Nature Plants 4, no. 12: 983-984.

Preprint
Published: 04 November 2018
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The molecular genetic mechanisms by which plants modulate their root growth rate (RGR) in response to nutrient deficiency are largely unknown. Using a panel of Arabidopsis thaliana natural accessions, we provide a comprehensive combinatorial analysis of RGR variation under macro- and micronutrient deficiency, namely phosphorus (P), iron (Fe), and zinc (Zn), which affect root growth in opposite directions. We found that while -P stimulates early RGR of most accessions, -Fe or -Zn reduces it. The combination of either -P-Fe or -P-Zn leads to suppression of the growth inhibition exerted by -Fe or -Zn alone. Surprisingly, Arabidopsis reference accession Columbia (Col-0) is not representative of the species under -P and -Zn. Using a genome wide association study, we identify candidate genes that control RGR under the assayed nutrient deficiency conditions. By using a network biology driven search using these candidate genes, we further identify a functional module enriched in regulation of cell cycle, DNA replication and chromatin modification that possibly underlies the suppression of root growth reduction in -P-Fe conditions. Collectively, our findings provide a framework for understanding the regulation of RGR under nutrient deficiency, and open new routes for the identification of both large effect genes and favorable allelic variations to improve root growth.

ACS Style

Nadia Bouain; Arthur Korte; Santosh B. Satbhai; Seung Y. Rhee; Wolfgang Busch; Hatem Rouached. Systems approaches provide new insights into Arabidopsis thaliana root growth under mineral nutrient limitation. 2018, 460360 .

AMA Style

Nadia Bouain, Arthur Korte, Santosh B. Satbhai, Seung Y. Rhee, Wolfgang Busch, Hatem Rouached. Systems approaches provide new insights into Arabidopsis thaliana root growth under mineral nutrient limitation. . 2018; ():460360.

Chicago/Turabian Style

Nadia Bouain; Arthur Korte; Santosh B. Satbhai; Seung Y. Rhee; Wolfgang Busch; Hatem Rouached. 2018. "Systems approaches provide new insights into Arabidopsis thaliana root growth under mineral nutrient limitation." , no. : 460360.

Research article
Published: 02 April 2018 in PLOS Genetics
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Zinc is an essential micronutrient for all living organisms and is involved in a plethora of processes including growth and development, and immunity. However, it is unknown if there is a common genetic and molecular basis underlying multiple facets of zinc function. Here we used natural variation in Arabidopsis thaliana to study the role of zinc in regulating growth. We identify allelic variation of the systemic immunity gene AZI1 as a key for determining root growth responses to low zinc conditions. We further demonstrate that this gene is important for modulating primary root length depending on the zinc and defence status. Finally, we show that the interaction of the immunity signal azelaic acid and zinc level to regulate root growth is conserved in rice. This work demonstrates that there is a common genetic and molecular basis for multiple zinc dependent processes and that nutrient cues can determine the balance of growth and immune responses in plants. Plants have evolved mechanisms to cope with complex environments in which resources as well as potential threats are fluctuating. Thereby, plants modulate their growth based on multiple cues from the environment. In this study, by exploring natural genetic variation in Arabidopsis to study the role of zinc in regulating primary root length, we find a major locus governing this is the AZELAIC ACID INDUCED (AZI1) locus, previously known to be involved in systemic acquired resistance. We then showed that regulatory variation at AZI1 contributes significantly to this natural variation. Importantly, the known AZI1 function led us to show that there is an interaction of zinc deficiency and the defence pathway. While the studies of the roles of the defence signal AzA and AZI1 had been restricted to the aboveground tissues, we clearly showed an important role of this pathway in the root, which is zinc-dependant. Our observations regarding the interaction of zinc and AzA-dependent defence pathways on root growth are not a fluke of evolution, but they are evolutionary conserved between dicots and monocots. Taken together, these results will serve as a basis to design new strategies for improvement agricultural crop species able to modulate growth and defence.

ACS Style

Nadia Bouain; Santosh B. Satbhai; Arthur Korte; Chorpet Saenchai; Guilhem Desbrosses; Pierre Berthomieu; Wolfgang Busch; Hatem Rouached. Natural allelic variation of the AZI1 gene controls root growth under zinc-limiting condition. PLOS Genetics 2018, 14, e1007304 .

AMA Style

Nadia Bouain, Santosh B. Satbhai, Arthur Korte, Chorpet Saenchai, Guilhem Desbrosses, Pierre Berthomieu, Wolfgang Busch, Hatem Rouached. Natural allelic variation of the AZI1 gene controls root growth under zinc-limiting condition. PLOS Genetics. 2018; 14 (4):e1007304.

Chicago/Turabian Style

Nadia Bouain; Santosh B. Satbhai; Arthur Korte; Chorpet Saenchai; Guilhem Desbrosses; Pierre Berthomieu; Wolfgang Busch; Hatem Rouached. 2018. "Natural allelic variation of the AZI1 gene controls root growth under zinc-limiting condition." PLOS Genetics 14, no. 4: e1007304.

Journal article
Published: 18 March 2018 in International Journal of Molecular Sciences
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Mineral nutrient homeostasis is essential for plant growth and development. Recent research has demonstrated that the occurrence of interactions among the mechanisms regulating the homeostasis of different nutrients in plants is a general rule rather than an exception. Therefore, it is important to understand how plants regulate the homeostasis of these elements and how multiple mineral nutrient signals are wired to influence plant growth. Silicon (Si) is not directly involved in plant metabolism but it is an essential element for a high and sustainable production of crops, especially rice, because of its high content in the total shoot dry weight. Although some mechanisms underlying the role of Si in plants responses to both abiotic and biotic stresses have been proposed, the involvement of Si in regulating plant growth in conditions where the availability of essential macro- and micronutrients changes remains poorly investigated. In this study, the existence of an interaction between Si, phosphate (Pi), and iron (Fe) availability was examined in lowland (Suphanburi 1, SPR1) and upland (Kum Hom Chiang Mai University, KH CMU) rice varieties. The effect of Si and/or Fe deficiency on plant growth, Pi accumulation, Pi transporter expression (OsPHO1;2), and Pi root-to-shoot translocation in these two rice varieties grown under individual or combinatorial nutrient stress conditions were determined. The phenotypic, physiological, and molecular data of this study revealed an interesting tripartite Pi-Fe-Si homeostasis interaction that influences plant growth in contrasting manners in the two rice varieties. These results not only reveal the involvement of Si in modulating rice growth through an interaction with essential micro- and macronutrients, but, more importantly, they opens new research avenues to uncover the molecular basis of Pi-Fe-Si signaling crosstalk in plants.

ACS Style

Nanthana Chaiwong; Chanakan Prom-U-Thai; Nadia Bouain; Benoît Lacombe; Hatem Rouached. Individual versus Combinatorial Effects of Silicon, Phosphate, and Iron Deficiency on the Growth of Lowland and Upland Rice Varieties. International Journal of Molecular Sciences 2018, 19, 899 .

AMA Style

Nanthana Chaiwong, Chanakan Prom-U-Thai, Nadia Bouain, Benoît Lacombe, Hatem Rouached. Individual versus Combinatorial Effects of Silicon, Phosphate, and Iron Deficiency on the Growth of Lowland and Upland Rice Varieties. International Journal of Molecular Sciences. 2018; 19 (3):899.

Chicago/Turabian Style

Nanthana Chaiwong; Chanakan Prom-U-Thai; Nadia Bouain; Benoît Lacombe; Hatem Rouached. 2018. "Individual versus Combinatorial Effects of Silicon, Phosphate, and Iron Deficiency on the Growth of Lowland and Upland Rice Varieties." International Journal of Molecular Sciences 19, no. 3: 899.

Journal article
Published: 17 February 2018 in eLife
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All living organisms require a variety of essential elements for their basic biological functions. While the homeostasis of nutrients is highly intertwined, the molecular and genetic mechanisms of these dependencies remain poorly understood. Here, we report a discovery of a molecular pathway that controls phosphate (Pi) accumulation in plants under Zn deficiency. Using genome-wide association studies, we first identified allelic variation of the Lyso-PhosphatidylCholine (PC) AcylTransferase 1 (LPCAT1) gene as the key determinant of shoot Pi accumulation under Zn deficiency. We then show that regulatory variation at the LPCAT1 locus contributes significantly to this natural variation and we further demonstrate that the regulation of LPCAT1 expression involves bZIP23 TF, for which we identified a new binding site sequence. Finally, we show that in Zn deficient conditions loss of function of LPCAT1 increases the phospholipid Lyso-PhosphatidylCholine/PhosphatidylCholine ratio, the expression of the Pi transporter PHT1;1, and that this leads to shoot Pi accumulation.

ACS Style

Mushtak Kisko; Nadia Bouain; Alaeddine Safi; Anna Medici; Robert C Akkers; David Secco; Gilles Fouret; Gabriel Krouk; Mark Gm Aarts; Wolfgang Busch; Hatem Rouached. LPCAT1 controls phosphate homeostasis in a zinc-dependent manner. eLife 2018, 7, e32077 .

AMA Style

Mushtak Kisko, Nadia Bouain, Alaeddine Safi, Anna Medici, Robert C Akkers, David Secco, Gilles Fouret, Gabriel Krouk, Mark Gm Aarts, Wolfgang Busch, Hatem Rouached. LPCAT1 controls phosphate homeostasis in a zinc-dependent manner. eLife. 2018; 7 ():e32077.

Chicago/Turabian Style

Mushtak Kisko; Nadia Bouain; Alaeddine Safi; Anna Medici; Robert C Akkers; David Secco; Gilles Fouret; Gabriel Krouk; Mark Gm Aarts; Wolfgang Busch; Hatem Rouached. 2018. "LPCAT1 controls phosphate homeostasis in a zinc-dependent manner." eLife 7, no. : e32077.

Review
Published: 14 February 2018 in Agriculture
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Phosphorus (P) is an essential macronutrient for plants to complete their life cycle. P taken up from the soil by the roots is transported to the rest of the plant and ultimately stored in seeds. This stored P is used during germination to sustain the nutritional demands of the growing seedling in the absence of a developed root system. Nevertheless, P deficiency, an increasing global issue, greatly decreases the vigour of afflicted seeds. To combat P deficiency, current crop production methods rely on heavy P fertilizer application, an unsustainable practice in light of a speculated decrease in worldwide P stocks. Therefore, the overall goal in optimizing P usage for agricultural purposes is both to decrease our dependency on P fertilizers and enhance the P-use efficiency in plants. Achieving this goal requires a robust understanding of how plants regulate inorganic phosphate (Pi) transport, during vegetative growth as well as the reproductive stages of development. In this short review, we present the current knowledge on Pi transport in the model plant Arabidopsis thaliana and apply the information towards the economically important cereal crop wheat. We highlight the importance of developing our knowledge on the regulation of these plants’ P transport systems and P accumulation in seeds due to its involvement in maintaining their vigour and nutritional quality. We additionally discuss further discoveries in the subjects this review discusses substantiate this importance in their practical applications for practical food security and geopolitical applications.

ACS Style

Mushtak Kisko; Vishnu Shukla; Mandeep Kaur; Nadia Bouain; Nanthana Chaiwong; Benoit Lacombe; Ajay Kumar Pandey; Hatem Rouached. Phosphorus Transport in Arabidopsis and Wheat: Emerging Strategies to Improve P Pool in Seeds. Agriculture 2018, 8, 27 .

AMA Style

Mushtak Kisko, Vishnu Shukla, Mandeep Kaur, Nadia Bouain, Nanthana Chaiwong, Benoit Lacombe, Ajay Kumar Pandey, Hatem Rouached. Phosphorus Transport in Arabidopsis and Wheat: Emerging Strategies to Improve P Pool in Seeds. Agriculture. 2018; 8 (2):27.

Chicago/Turabian Style

Mushtak Kisko; Vishnu Shukla; Mandeep Kaur; Nadia Bouain; Nanthana Chaiwong; Benoit Lacombe; Ajay Kumar Pandey; Hatem Rouached. 2018. "Phosphorus Transport in Arabidopsis and Wheat: Emerging Strategies to Improve P Pool in Seeds." Agriculture 8, no. 2: 27.

Journal article
Published: 09 February 2018 in Author response
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All living organisms require a variety of essential elements for their basic biological functions. While the homeostasis of nutrients is highly intertwined, the molecular and genetic mechanisms of these dependencies remains poorly understood. Here, we report a discovery of a molecular pathway that control phosphate (Pi) accumulation plants in Zn deficiency. Using genome-wide association studies we first identified allelic variation of the Lyso-PhosphatidylCholine (PC) AcylTransferase 1 (LPCAT1) gene as the key determinant of shoot Pi accumulation under Zn deficiency. We then show that regulatory variation at the LPCAT1 locus contributes significantly to this natural variation and we further demonstrate that the regulation of LPCAT1 expression involves bZIP23 TF, for which we identified a new binding site sequence. Finally, we show that in Zn deficient conditions loss of function of LPCAT1 increases the phospholipid Lyso-PhosphatidylCholine/PhosphatidylCholine ratio, the expression of the Pi transporter PHT1;1, and that this leads to shoot Pi accumulation.

ACS Style

Mushtak Kisko; Nadia Bouain; Alaeddine Safi; Anna Medici; Robert C Akkers; David Secco; Gilles Fouret; Gabriel Krouk; Mark Gm Aarts; Wolfgang Busch; Hatem Rouached. Author response: LPCAT1 controls phosphate homeostasis in a zinc-dependent manner. Author response 2018, 7, e32077 .

AMA Style

Mushtak Kisko, Nadia Bouain, Alaeddine Safi, Anna Medici, Robert C Akkers, David Secco, Gilles Fouret, Gabriel Krouk, Mark Gm Aarts, Wolfgang Busch, Hatem Rouached. Author response: LPCAT1 controls phosphate homeostasis in a zinc-dependent manner. Author response. 2018; 7 ():e32077.

Chicago/Turabian Style

Mushtak Kisko; Nadia Bouain; Alaeddine Safi; Anna Medici; Robert C Akkers; David Secco; Gilles Fouret; Gabriel Krouk; Mark Gm Aarts; Wolfgang Busch; Hatem Rouached. 2018. "Author response: LPCAT1 controls phosphate homeostasis in a zinc-dependent manner." Author response 7, no. : e32077.

Journal article
Published: 18 January 2018 in Scientific Reports
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Engineering osmotolerant plants is a challenge for modern agriculture. An interaction between osmotic stress response and phosphate homeostasis has been reported in plants, but the identity of molecules involved in this interaction remains unknown. In this study we assessed the role of phytic acid (PA) in response to osmotic stress and/or phosphate deficiency in Arabidopsis thaliana. For this purpose, we used Arabidopsis lines (L7 and L9) expressing a bacterial beta-propeller phytase PHY-US417, and a mutant in inositol polyphosphate kinase 1 gene (ipk1-1), which were characterized by low PA content, 40% (L7 and L9) and 83% (ipk1-1) of the wild-type (WT) plants level. We show that the PHY-overexpressor lines have higher osmotolerance and lower sensitivity to abscisic acid than ipk1-1 and WT. Furthermore, PHY-overexpressors showed an increase by more than 50% in foliar ascorbic acid levels and antioxidant enzyme activities compared to ipk1-1 and WT plants. Finally, PHY-overexpressors are more tolerant to combined mannitol stresses and phosphate deficiency than WT plants. Overall, our results demonstrate that the modulation of PA improves plant growth under osmotic stress, likely via stimulation of enzymatic and non-enzymatic antioxidant systems, and that beside its regulatory role in phosphate homeostasis, PA may be also involved in fine tuning osmotic stress response in plants.

ACS Style

Nibras Belgaroui; Benoit Lacombe; Hatem Rouached; Moez Hanin. Phytase overexpression in Arabidopsis improves plant growth under osmotic stress and in combination with phosphate deficiency. Scientific Reports 2018, 8, 1 -12.

AMA Style

Nibras Belgaroui, Benoit Lacombe, Hatem Rouached, Moez Hanin. Phytase overexpression in Arabidopsis improves plant growth under osmotic stress and in combination with phosphate deficiency. Scientific Reports. 2018; 8 (1):1-12.

Chicago/Turabian Style

Nibras Belgaroui; Benoit Lacombe; Hatem Rouached; Moez Hanin. 2018. "Phytase overexpression in Arabidopsis improves plant growth under osmotic stress and in combination with phosphate deficiency." Scientific Reports 8, no. 1: 1-12.

Journal article
Published: 30 October 2017 in Decision letter
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All living organisms require a variety of essential elements for their basic biological functions. While the homeostasis of nutrients is highly intertwined, the molecular and genetic mechanisms of these dependencies remains poorly understood. Here, we report a discovery of a molecular pathway that control phosphate (Pi) accumulation plants in Zn deficiency. Using genome-wide association studies we first identified allelic variation of the Lyso-PhosphatidylCholine (PC) AcylTransferase 1 (LPCAT1) gene as the key determinant of shoot Pi accumulation under Zn deficiency. We then show that regulatory variation at the LPCAT1 locus contributes significantly to this natural variation and we further demonstrate that the regulation of LPCAT1 expression involves bZIP23 TF, for which we identified a new binding site sequence. Finally, we show that in Zn deficient conditions loss of function of LPCAT1 increases the phospholipid Lyso-PhosphatidylCholine/PhosphatidylCholine ratio, the expression of the Pi transporter PHT1;1, and that this leads to shoot Pi accumulation.

ACS Style

Mushtak Kisko; Nadia Bouain; Alaeddine Safi; Anna Medici; Robert C Akkers; David Secco; Gilles Fouret; Gabriel Krouk; Mark Gm Aarts; Wolfgang Busch; Hatem Rouached. Decision letter: LPCAT1 controls phosphate homeostasis in a zinc-dependent manner. Decision letter 2017, 7, e32077 .

AMA Style

Mushtak Kisko, Nadia Bouain, Alaeddine Safi, Anna Medici, Robert C Akkers, David Secco, Gilles Fouret, Gabriel Krouk, Mark Gm Aarts, Wolfgang Busch, Hatem Rouached. Decision letter: LPCAT1 controls phosphate homeostasis in a zinc-dependent manner. Decision letter. 2017; 7 ():e32077.

Chicago/Turabian Style

Mushtak Kisko; Nadia Bouain; Alaeddine Safi; Anna Medici; Robert C Akkers; David Secco; Gilles Fouret; Gabriel Krouk; Mark Gm Aarts; Wolfgang Busch; Hatem Rouached. 2017. "Decision letter: LPCAT1 controls phosphate homeostasis in a zinc-dependent manner." Decision letter 7, no. : e32077.

Journal article
Published: 21 August 2017 in Plant Physiology
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Identifying transcription factors (TFs) cooperation controlling target gene expression is still an arduous challenge. The accuracy of current methods at genome scale significantly drops with the increase in number of genes, which limits their applicability to more complex genomes, like animals and plants. Here, we developed an algorithm, TransDetect, able to predict TFs combinations controlling the expression level of a given gene. TransDetect was used to identify novel TFs modules regulating the expression of Arabidopsis phosphate transporter PHO1;H3 comprising MYB15, MYB84, bHLH35 and ICE1. These TFs were confirmed to interact between themselves and with the PHO1;H3 promoter. Phenotypic and genetic analyses of TF mutants enable the organization of these four TFs and PHO1;H3 in a new gene regulatory network controlling phosphate accumulation in zinc-dependent manner. This demonstrates the reliability of TransDetect to extract directionality in non-dynamic transcriptomes and to provide blueprint to identify gene regulatory network involved in a given biological process.

ACS Style

Sikander Pal; Mushtak Kisko; Christian Dubos; Benoit Lacombe; Pierre Berthomieu; Gabriel Krouk; Hatem Rouached. TransDetect Identifies a New Regulatory Module Controlling Phosphate Accumulation. Plant Physiology 2017, 175, 916 -926.

AMA Style

Sikander Pal, Mushtak Kisko, Christian Dubos, Benoit Lacombe, Pierre Berthomieu, Gabriel Krouk, Hatem Rouached. TransDetect Identifies a New Regulatory Module Controlling Phosphate Accumulation. Plant Physiology. 2017; 175 (2):916-926.

Chicago/Turabian Style

Sikander Pal; Mushtak Kisko; Christian Dubos; Benoit Lacombe; Pierre Berthomieu; Gabriel Krouk; Hatem Rouached. 2017. "TransDetect Identifies a New Regulatory Module Controlling Phosphate Accumulation." Plant Physiology 175, no. 2: 916-926.

Other
Published: 21 July 2017
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Zinc is an essential micronutrient for all living organisms and is involved in a plethora of processes including growth and development, and immunity. However, it is unknown if there is a common genetic and molecular basis underlying multiple facets of zinc function. Here we used natural variation in Arabidopsis thaliana to study the role of zinc in regulating growth. We identify allelic variation of the systemic immunity gene AZI1 as a key for determining root growth responses to low zinc conditions. We further demonstrate that this gene is important for modulating root growth depending on the zinc and defence status. Finally, we show that the interaction of the immunity signal azelaic acid and zinc level to regulate root growth is conserved in rice. This work demonstrates that there is a common genetic and molecular basis for multiple zinc dependent processes and that nutrient cues can determine the balance of plant growth and immune responses in plants.

ACS Style

Nadia Bouain; Santosh B. Satbhai; Chorpet Saenchai; Guilhem Desbrosses; Pierre Berthomieu; Wolfgang Busch; Hatem Rouached. Zinc availability modulates plant growth and immune responses via AZI1. 2017, 166645 .

AMA Style

Nadia Bouain, Santosh B. Satbhai, Chorpet Saenchai, Guilhem Desbrosses, Pierre Berthomieu, Wolfgang Busch, Hatem Rouached. Zinc availability modulates plant growth and immune responses via AZI1. . 2017; ():166645.

Chicago/Turabian Style

Nadia Bouain; Santosh B. Satbhai; Chorpet Saenchai; Guilhem Desbrosses; Pierre Berthomieu; Wolfgang Busch; Hatem Rouached. 2017. "Zinc availability modulates plant growth and immune responses via AZI1." , no. : 166645.

Review article
Published: 22 April 2017 in Current Opinion in Plant Biology
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The ability of plants to appropriately respond to the soil nutrient availability is of primary importance for their development and to complete their life cycle. Deciphering these multifaceted adaptive mechanisms remains a major challenge for scientists to date. Recent technological breakthroughs now enable to assess the dynamism and complexity of these processes at unprecedented resolution. In this review, we present some of the most recent findings on the involvement of histone modifications, histone variants and DNA methylation in response to nutrient stresses as well as discussing the potential roles these chromatin changes could serve as priming or as trans-generational stress memory mechanisms.

ACS Style

David Secco; James Whelan; Hatem Rouached; Ryan Lister. Nutrient stress-induced chromatin changes in plants. Current Opinion in Plant Biology 2017, 39, 1 -7.

AMA Style

David Secco, James Whelan, Hatem Rouached, Ryan Lister. Nutrient stress-induced chromatin changes in plants. Current Opinion in Plant Biology. 2017; 39 ():1-7.

Chicago/Turabian Style

David Secco; James Whelan; Hatem Rouached; Ryan Lister. 2017. "Nutrient stress-induced chromatin changes in plants." Current Opinion in Plant Biology 39, no. : 1-7.