Tissue-specific transcriptional profiling of iron-deficient and cadmium-stressed rice using laser capture microdissection

Fe(III) transporter OsYSL15 may play a key role in the uptake of Cr(III) in rice (Oryza sativa L.)

Due to the widely discharge of chromium (Cr) by mining and smelting industries, etc., contamination of paddy soils and rice has become serious problems. Therefore it is crucial to explore how rice takes up Cr. Cr(III) is the most common Cr form in the long-term water flooding paddy soils. Here, we demonstrate that OsYSL15, a key gene for Fe(III) uptake, is equally applicable for Cr(III) uptake in rice. Firstly, the antagonistic effect of Cr(III) and Fe(III) in the uptake process was found. Rice could accumulate more Cr(III) under Fe-deficient conditions. And the Fe(III) content in the protoplasts of rice root cells gradually decreased with the increase exposure of Cr(III). Knockdown of OsYSL15 in rice significantly reduced the Cr(III) uptake rate. Compared with wild type rice, the accumulation of Cr(III) in OsYSL15 mutant was decreased by 40.7%- 70.6% after gene editing. These results indicate that OsYSL15 is a key gene responsible for Cr(III) uptake in rice, which can guide the screening or genetic modification for low-Cr-accumulation rice varieties.

Physiological and proteomic dissection of the rice roots in response to iron deficiency and excess

Iron (Fe) disorder is a pivotal factor that limits rice yields in many parts of the world. Extensive research has been devoted to studying how rice molecularly copes with the stresses of Fe deficiency or excess. However, a comprehensive dissection of the whole Fe-responsive atlas at the protein level is still lacking. Here, different concentrations of Fe (0, 40, 350, and 500 μM) were supplied to rice to demonstrate its response differences to Fe deficiency and excess via physiological and proteomic analysis. Results showed that compared with the normal condition, the seedling growth and contents of Fe and manganese were significantly disturbed under either Fe stress. Proteomic analysis revealed that differentially accumulated proteins under Fe deficiency and Fe excess were commonly enriched in localization, carbon metabolism, biosynthesis of amino acids, and antioxidant system. Notably, proteins with abundance retuned by Fe starvation were individually associated with phenylpropanoid biosynthesis, cysteine and methionine metabolism, while ribosome- and endocytosis-related proteins were specifically enriched in treatment of Fe overdose of 500 μM. Moreover, several novel proteins which may play potential roles in rice Fe homeostasis were predicted. These findings expand the understanding of rice Fe nutrition mechanisms, and provide efficient guidance for genetic breeding work. SIGNIFICANCE: Both iron (Fe) deficiency and excess significantly inhibited the growth of rice seedlings. Fe deficiency and excess disturbed processes of localization and cellular oxidant detoxification, metabolisms of carbohydrates and amino acids in different ways. The Fe-deficiency and Fe-excess-responsive proteins identified by the proteome were somewhat different from the reported transcriptional profiles, providing complementary information to the transcriptomic data.

Silicon reduces the iron uptake in rice and induces iron homeostasis related genes

Gramineous plants take up silicon (Si) that enhances the formation of exodermal Casparian bands (CBs) in the roots of rice (Oryza sativa L.). Furthermore, it is known that Si supply reduces the concentration of Fe in rice shoots. We hypothesized that the Si-enhanced CB formation in the exodermis reduces in the flux of Fe in the apoplast and the uptake of Fe loaded deoxymugineic acid. Thus, the effect of silicic acid supply at varied Fe concentrations and Fe forms was investigated in nutrient solution. The Fe concentrations in the shoot and apoplastic Fe concentrations in the root were determined and an Affymetrix GeneChip experiment was carried out together with qRT-PCR measurements for observation of transcriptomic reactions. Additionally, the Fe uptake of an overexpression mutant of OsABCG25 with an enhanced exodermal CB formation was investigated. The application of silicic acid reduced the Fe concentrations in shoot DM independently of the supplied Fe concentration and Fe form. As a reaction to the Fe shortage, the full cascade of Fe-homeostasis-related genes in the roots was upregulated. Silicic acid supply also decreased the apoplastic Fe concentrations in roots. In addition, an overexpression mutant of OsABCG25 with an enhanced CB formation showed a reduced uptake of Fe in excess Fe conditions. The results suggest that the Si-induced CB formation in the exodermis hampers the flux of Fe into the apoplast of the cortex and, thus, Fe uptake of rice grown in nutrient solution which is reflected in the upregulation of Fe homeostasis-related genes.

Tolerance of Iron-Deficient and -Toxic Soil Conditions in Rice

Iron (Fe) deficiency and toxicity are the most widely prevalent soil-related micronutrient disorders in rice (Oryza sativa L.). Progress in rice cultivars with improved tolerance has been hampered by a poor understanding of Fe availability in the soil, the transportation mechanism, and associated genetic factors for the tolerance of Fe toxicity soil (FTS) or Fe deficiency soil (FDS) conditions. In the past, through conventional breeding approaches, rice varieties were developed especially suitable for low- and high-pH soils, which indirectly helped the varieties to tolerate FTS and FDS conditions. Rice-Fe interactions in the external environment of soil, internal homeostasis, and transportation have been studied extensively in the past few decades. However, the molecular and physiological mechanisms of Fe uptake and transport need to be characterized in response to the tolerance of morpho-physiological traits under Fe-toxic and -deficient soil conditions, and these traits need to be well integrated into breeding programs. A deeper understanding of the several factors that influence Fe absorption, uptake, and transport from soil to root and above-ground organs under FDS and FTS is needed to develop tolerant rice cultivars with improved grain yield. Therefore, the objective of this review paper is to congregate the different phenotypic screening methodologies for prospecting tolerant rice varieties and their responsible genetic traits, and Fe homeostasis related to all the known quantitative trait loci (QTLs), genes, and transporters, which could offer enormous information to rice breeders and biotechnologists to develop rice cultivars tolerant of Fe toxicity or deficiency. The mechanism of Fe regulation and transport from soil to grain needs to be understood in a systematic manner along with the cascade of metabolomics steps that are involved in the development of rice varieties tolerant of FTS and FDS. Therefore, the integration of breeding with advanced genome sequencing and omics technologies allows for the fine-tuning of tolerant genotypes on the basis of molecular genetics, and the further identification of novel genes and transporters that are related to Fe regulation from FTS and FDS conditions is incredibly important to achieve further success in this aspect.

Characterization of rice KT/HAK/KUP potassium transporters and K+ uptake by HAK1 from Oryza sativa

Plant high-affinity K⁺ (HAK) transporters are divided into four major clusters. Cluster I transporters, in particular, are thought to have high-affinity for K⁺. Of the 27 HAK genes in rice, eight HAK transporters belong to cluster I. In this study, we investigated the temporal expression patterns during K⁺ deficiency and K⁺ transport activity of these eight HAK transporters. The expression of seven HAK genes except OsHAK20 was detected. Expression of OsHAK1, OsHAK5 and OsHAK21 was induced in response to K⁺ deficiency; however, that of other genes was not. Six of the eight HAK transporters-OsHAK1, OsHAK5, OsHAK19, OsHAK20, OsHAK21, and OsHAK27-complemented the K⁺-transporter-deficient yeast or bacterial strain. Further, the yeast cells expressing OsHAK1 were more sensitive to Na⁺ than those expressing OsHAK5. Mutant analysis showed that the high-affinity K⁺ uptake activity was almost undetectable in oshak1 mutants in a low-K⁺ medium (0.02 mM). In addition, the high-affinity K⁺ uptake activity of wild-type plants was inhibited by mild salt stress (20 mM NaCl); however, Na⁺ permeability of OsHAK1 was not detected in Escherichia coli cells. The high-affinity K⁺ uptake activity by leaf blades was detected in wild-type plants, while it was not detected in oshak1 mutants. Our results suggest that OsHAK1 and OsHAK5 are the two important components of cluster I corresponding to low-K⁺ conditions, and that the transport activity of OsHAK1, unlike that of OsHAK5, is sensitive to Na⁺. Further, OsHAK1 is suggested to involve in foliar K⁺ uptake.

Effect of air desiccation and salt stress factors on in vitro regeneration of rice (Oryza sativa L.)

Enhancement of callus induction and its regeneration efficiency through in vitro techniques has been optimized for 2 abiotic stresses (salt and air desiccation) using 3 rice genotypes viz. BR10, BRRI dhan32 and BRRI dhan47. The highest frequency of callus induction was obtained for BRRI dhan32 (64.44%) in MS medium supplemented with 2, 4-D (2.5 mgL(-1)) and Kin (1.0 mgL(-1)). Different concentrations of NaCl (2.9, 5.9, 8.8 and 11.7 gL(-1)) were used and its effect was recorded on the basis of viability of calli (VC), relative growth rate (RGR), tolerance index (TI) and relative water content (RWC). It was observed that in all cases BRRI dhan47 showed highest performance on tolerance to VC (45.33%), RGR (1.03%), TI (0.20%) and RWC (10.23%) with 11.7 gL(-1) NaCl. Plant regeneration capability was recorded after partial air desiccation pretreatment to calli for 15, 30, 45 and 60 h. In this case BRRI dhan32 gave maximum number of regeneration (76.19%) when 4 weeks old calli were desiccated for 45 h. It was observed that air desiccation was 2-3 folds more effective for enhancing green plantlet regeneration compared to controls. Furthermore, desiccated calli also showed the better capability to survive in NaCl induced abiotic stress; and gave 1.9 fold (88.80%) increased regeneration in 11.7 gL(-1) salt level for BRRI dhan47. Analysis of variance (ANOVA) showed that the genotypes, air desiccation and NaCl had significant effect on plant regeneration at P < 0.01.