Spatial analysis of the rice leaf growth zone under controlled and cadmium-exposed conditions

Huybrechts, Michiel; Hendrix, Sophie; Bertels, Jonas; Beemster, Gerrit T.S.; Vandamme, Dries; Cuypers, Ann

doi:10.1016/j.envexpbot.2020.104120

Cited by 30 publications

(5 citation statements)

References 71 publications

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“…In fact, 11 886 genes (91% of all DEGs) were differentially expressed between the base‐most segment and at least one other leaf segment. The low PCC and large number of DEGs in the basal segment may in part be explained by the fact that this segment will house the division and elongation zones of the leaf (Huybrechts et al., 2020), whereas other segments did not include dividing cells.…”

Section: Resultsmentioning

confidence: 99%

Spatially resolved gene regulatory networks in Asian rice (Oryza sativa cv. Nipponbare) leaves

Robertson

Wilkins

2023

The Plant Journal

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SUMMARYTranscriptome profiles in plants are heterogenous at every level of morphological organization. Even within organs, cells of the same type can have different patterns of gene expression depending on where they are positioned within tissues. This heterogeneity is associated with non‐uniform distribution of biological processes within organs. The regulatory mechanisms that establish and sustain the spatial heterogeneity are unknown. Here, we identify regulatory modules that support functional specialization of different parts of Oryza sativa cv. Nipponbare leaves by leveraging transcriptome data, transcription factor binding motifs and global gene regulatory network prediction algorithms. We generated a global gene regulatory network in which we identified six regulatory modules that were active in different parts of the leaf. The regulatory modules were enriched for genes involved in spatially relevant biological processes, such as cell wall deposition, environmental sensing and photosynthesis. Strikingly, more than 86.9% of genes in the network were regulated by members of only five transcription factor families. We also generated targeted regulatory networks for the large MYB and bZIP/bHLH families to identify interactions that were masked in the global prediction. This analysis will provide a baseline for future single cell and array‐based spatial transcriptome studies and for studying responses to environmental stress and demonstrates the extent to which seven coarse spatial transcriptome analysis can provide insight into the regulatory mechanisms supporting functional specialization within leaves.

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Section: Resultsmentioning

confidence: 99%

Spatially resolved gene regulatory networks in Asian rice (Oryza sativa cv. Nipponbare) leaves

Robertson

Wilkins

2023

The Plant Journal

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“…Cadmium is not needed by plants but is known to accumulate in plant tissue and affects the regulation of Zn and Fe, which are important micronutrients [ 58 ]. Cadmium also causes morphological, physiochemical, and structural changes in plants, which can cause chlorosis and the inhibition of lateral root formation and stomal density [ 59 ]. The bioaccumulation of certain elements in the roots of C. bulbispermum adds to the idea that it can be used as a phytostabilizer in restoration, because it keeps the contaminants in the vadose zone and prevents off-site contamination [ 17 ].…”

Section: Discussionmentioning

confidence: 99%

Crinum bulbispermum, a Medicinal Geophyte with Phytostabilization Properties in Metal-Enriched Mine Tailings

Clarke,

Marcelo-Silva,

Claassens

et al. 2023

Plants

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Ancient grasslands are lost through transformation to agriculture, mining, and urban expansion. Land-use change leads to ecosystem degradation and a subsequent loss of biodiversity. Globally, degraded grasslands have become a priority for restoration efforts to recover lost ecosystem services. Although the ecological and social benefits of woody species and grasses are well documented, limited research has considered the use of forbs for restoration purposes despite their benefits (e.g., C sequestration and medicinal uses). The aim of this study was to determine if Crinum bulbispermum (Burm.f.) Milne-Redh. & Schweick., a medicinal geophyte, could form part of restoration initiatives to restore mine soils in grasslands of the South African Highveld. A pot experiment was conducted to assess the performance of C. bulbispermum in a random design, with three soil treatments varying in level of degradation and metal contamination. The plants were monitored for 12 months, and the morphological characters were measured monthly to assess performance and survival. Inductively coupled plasma mass spectrometry (ICP-MS) was used to determine the soil and plant tissue concentration of potentially toxic metals. The results indicated that mine tailings negatively affected the growth and development of C. bulbispermum. Although the survival rates indicated that it could survive on tailings, its below-par productivity indicated that the species is not ideal for restoration purposes unless the tailings are ameliorated with topsoil. Although there was root accumulation of metals (Co, Cd, Cu, Mo, and Zn), there was no translocation to the bulbs and leaves, which makes C. bulbispermum suitable for medicinal use even when grown on metal-enriched soil. This species may not be viable for phytoremediation but is a contender to be used in phytostabilization due to its ecological advantages and the fact that it does not accumulate or store metals. These findings underscore the importance of considering geophytes in grassland restoration strategies, expanding their ecological and societal benefits beyond conventional approaches.

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“…It also has a negative impact on photosynthesis, mineral element uptake, and transportation, resulting in a decrease in yield [70]. In addition, Cd can cause morphological, physicochemical, and structural changes in plants, such as inhibiting lateral root formation, chlorosis, and stomatal density [71]. Cadmium interferes with mitochondrial function by impairing redox regulation, which damages membrane lipids and disrupts plant metabolism.…”

Section: Cadmiummentioning

confidence: 99%

Impact of Heavy Metal Pollution on the Biotic and Abiotic Components of the Environment

Ehis-Eriakha

Akemu

2022

SAJRM

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The environment comprises of biotic and abiotic components interacting as a system. The environment also contains organic and inorganic minerals in optimal concentration required by living organisms for growth, development, and metabolic activities. Due to anthropogenic activities and some natural occurrences, the availability of these elements has drastically increased in the ecosystem beyond the required threshold and permissible limits causing pollution. Heavy metal (HM) is one of the naturally occurring elements that threaten plant, animal, and human health. These HMs have been defined as elements with more than 5gcm-3 relative density that are not readily biodegradable but can be transformed from one state to another and are usually associated with toxicity or ecotoxicity. However, some heavy metals are biologically essential elements required in the body/plant or as constituents of important enzymes although in trace amounts while others are non-essential and are ranked as priority metals due to their high level of toxicity with no biological importance even at low concentrations. The non-degradability property of heavy metals contributes to its persistence and subsequent accumulation in the biota and the food chain which is of public health significance to humans and animals. The soil environment is highly prone to HM contamination due to physiological, biochemical, metabolic, and biogeochemical processes that occur within the environment mostly mediated by microbes. These microbes are inarguably the drivers of ecosystem functioning, although they are significantly the most affected by HM pollution. This review, therefore, describes the ecotoxicological effect of heavy metals with special reference to the soil environment. Other sections discussed are the toxicity and general properties of some selected heavy metal, their role as environmental pollutants and essential elements. In addition, the effect of HM on soil microbes has also been analyzed in two folds: i) reduction in microbial population and diversity and ii) increased diversity and abundance of HM-resistant microbial strains which are significant in bioremediation studies

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Spatial analysis of the rice leaf growth zone under controlled and cadmium-exposed conditions

Cited by 30 publications

References 71 publications

Spatially resolved gene regulatory networks in Asian rice (Oryza sativa cv. Nipponbare) leaves

Spatially resolved gene regulatory networks in Asian rice (Oryza sativa cv. Nipponbare) leaves

Crinum bulbispermum, a Medicinal Geophyte with Phytostabilization Properties in Metal-Enriched Mine Tailings

Impact of Heavy Metal Pollution on the Biotic and Abiotic Components of the Environment

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