Ontology highlight
ABSTRACT:
PROVIDER: PRJNA838845 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR19240910_1.fastq.gz | Fastqsanger.gz | |||
| SRR19240910_2.fastq.gz | Fastqsanger.gz | |||
| SRR19240911_1.fastq.gz | Fastqsanger.gz | |||
| SRR19240911_2.fastq.gz | Fastqsanger.gz | |||
| SRR19240912_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 60 |
Similar Datasets
Project description:Salt stress, especially saline-alkali stress, has seriously negative effect on citrus production. Ziyang xiangcheng (Citrus junos Sieb.) (Cj) has been reported as a saline-alkali stress and iron deficiency tolerant citrus rootstock. However, the molecular mechanism of its saline-alkali stress tolerance is still not clear. Two citrus rootstocks and one navel orange scion, Cj, Poncirus trifoliate (Poncirus trifoliata (L.) Raf.) (Pt) and ‘Lane Late’ navel orange (Citrus sinensis (L.) Osb.) (LL), were used in this study. The grafted materials Cj+LL and Pt+LL grown in calcareous soil were used to identify genes and pathways responsive to saline-alkali stress using RNA-seq. The seedlings of Cj and Pt grown in the solutions with different gradient pH value were used to perform a supplement experiment. Comprehensively analyzing the data of RNA-seq, physiology and biochemistry, agronomic traits and mineral elements of Cj+LL, Pt+LL, Cj and Pt, several candidate pathways and genes were identified to be highly regulated under saline-alkali stress. Here, we propose citrate is important for the tolerance to iron deficiency and the jasmonate (JA) biosynthesis and signal transduction pathway may play a crucial role in tolerance to saline-alkali stress in citrus by interacting with other plant hormones, calcium signaling, ROS scavenging system and lignin biosynthesis.
2018-07-06 | GSE98996 | GEO
Project description:Soil salination and alkalization are global problems impairing plant survival by disrupting REDOX homeostasis. Whether melatonin regulates REDOX homeostasis at nitrosative level, and thus affects plant saline-alkali tolerance remains unknown. In saline-alkali stress, excess nitric oxide (NO) causes nitrosative damage in tomato roots. This NO can be degraded by S-nitrosoglutathione reductase (GSNOR), or stimulates caffeic acid O-methyltransferase (COMT) transcript for melatonin synthesis. Melatonin further feedback scavenges excess NO to alleviate nitrosative damage at the whole protein level, indicating by proteome S-nitrosylation. We target plasma membrane H+-ATPase 2 (HA2) and highlight that HA2 is S-nitrosylated at Cys206 in saline-alkali stress, reducing HA activity, H+ efflux, and tolerance by impairing its interaction with 14-3-3 protein 1 (TFT1). In agreement with these observations, COMT-mediated melatonin relieves the HA2 S-nitrosylation to recover its function and saline-alkali tolerance. Therefore, we propose NO and melatonin as a pair of REDOX switches to control HA2 S-nitrosylation and saline-alkali tolerance. Under natural saline-alkali conditions, tomato productivity can be improved by grafting with COMT-, GSNOR-, HA2-overexpression rootstocks or by genetic engineering non-nitrosylated HA2C206S mutants. Using melatonin-NO-HA2 module as a case, this study illuminates a novel molecular function of melatonin and relevant genetic engineering strategies in future agriculture.
2025-04-28 | PXD056815 | Pride
Project description:Soil salinization-alkalization is a widespread abiotic stress globally, severely impairing crop growth and environmental ecology. Nanomaterials hold significant potential for application in regulating plant stress tolerance due to their unique physical and chemical properties. In this study, the sol-gel method was optimized to synthesize a type of spherical, monodisperse, amorphous mesoporous silica nanoparticles (MSNs) with an average particle size of 40-50 nm and a positive surface charge of 35 mV. A 20 mg/L MSN solution was foliarly applied to two soybean cultivars, Hefeng 50 (HF50) and Henong 95 (HN95), in a pot experiment at the R1 stage to investigate its effects on plant growth and yield-related traits under saline-alkali stress (pH 9.2). MSNs treatment significantly alleviated the growth inhibition induced by saline-alkali stress. Specifically, MSNs significantly increased the plant height, leaf area, root volume, and root surface area of soybean plants under saline-alkali stress. MSNs also increased the dry matter accumulation of plant shoots and roots, improved root activity, and increased the number of pods and seeds per plant. MSNs enhanced cell mechanical strength by activating the synthesis of cuticle and epidermal wax, and maintained intracellular metabolic homeostasis by activating the antioxidant defense system and suppressing the excessive activation of pathways such as the mitogen-activated protein kinase (MAPK) pathway. Additionally, MSNs increased the content of photosynthetic pigments in soybean leaves, thereby enhancing light energy absorption and utilization efficiency, and elevating carbohydrate levels. MSNs promoted the directed translocation of photosynthates to sink organs such as seeds and roots by regulating the activity of carbon metabolism enzymes and source-sink allocation. Taken together, these cumulative effects improved soybean saline-alkali stress tolerance, and ultimately increasing the number of pods per plant, seeds per plant, 100-seed weight, and total yield per plant. The study provides theoretical basis and technical support for the development of nanomaterial-based cultivation practices to improve crop saline-alkali tolerance.
2026-01-20 | GSE316965 | GEO
Project description:Background Maintaining global food security in the context of climate changes is an important challenge in the next century. Improving abiotic stress tolerance of major crops, like wheat, can contribute to this goal. Therefore, new genes improving tolerance to abiotic stresses, like drought, are needed to support breeding programs aimed at producing more adapted cultivars. Recently, we screened five wheat Zinc Finger Proteins (TaZFPs) and identified TaZFP13D as a new gene improving water-stress tolerance. However, a more detailed characterization of this gene is required to better evaluate its potential in drought tolerance and to decipher the underlying molecular basis. Results We used the Barley Stripe Mosaic Virus to up- or down-regulate TaZFP13D expression in wheat. Overexpression of TaZFP13D under well-watered conditions enhances growth as indicated by improved biomass. Exposing plants to a severe drought stress revealed that TaZFP13D strongly increases survival rate and stress recovery. In addition, TaZFP13D reduces drought-induced oxidative damages, at least in part by improving key antioxidant enzymes activity. Conversely, down-regulation of TaZFP13D decreases drought tolerance and protection against drought-induced oxidative damages. RNA-seq-based transcriptome analysis showed that many genes regulated by TaZFP13D were previously shown to improve drought tolerance, while many others are related to the photosynthetic electron transfer chain and are proposed to improve photosynthesis efficiency and chloroplast protection against ROS damages. Conclusion This study highlights the important role of TaZFP13D in wheat drought tolerance, contributes to unravel the complex regulation governed by TaZFPs, and provides a useful marker to select more drought tolerant wheat cultivars.
2023-03-08 | GSE226842 | GEO
Project description:<p>Combined saline-alkali and cold stresses severely constrain plant growth at middle and high latitudes. Plants have evolved cross-adaptation mechanisms wherein exposure to one stress enhances resistance to another. However, the specific mechanisms driving cross-adaptation between saline-alkali and cold stresses in alfalfa (Medicago sativa L.) remain to be elucidated. Here, we performed integrated transcriptomic and metabolomic analyses coupled with functional validation to elucidate these mechanisms. We found that saline-alkali pretreatment significantly enhanced the tolerance of alfalfa to subsequent cold stress. Compared to cold stress alone, cross-stress conditions increased osmolyte content and photosynthetic efficiency, while alleviating cellular oxidative damage. Integrated omics analyses revealed that cross-stress specifically activated flavonoid biosynthesis, carbohydrate metabolism and abscisic acid (ABA) biosynthesis and signaling pathways. This promoted the accumulation of endogenous ABA, flavonoids, and carbohydrates. Weighted gene co-expression network analysis identified MsNCED3 as a critical hub gene. Exogenous ABA improved photoprotection and sugar accumulation, and enhanced cold tolerance. MsNCED3 overexpression in alfalfa validated its pivotal role in cross-adaptation by elevating ABA levels and mitigating oxidative damage. In conclusion, we found that MsNCED3-mediated ABA accumulation, along with enhanced antioxidant and osmotic adjustment capabilities, serve as key mechanisms underlying the cross-adaptation of alfalfa to saline-alkali and cold stresses.</p>
2026-03-22 | MTBLS14108 | MetaboLights
Project description:Purpose:Salinity is an important environmental factor that affects the physiological activities of fish. The goals of this study are investigating the effect of different saline-alkali stress on grass carp (Ctenopharyngodon idella). Methods: Grass carp individuals, averaging 12 cm in body length, were obtained from Duofu fish farm (Wuhan, China) and cultured at recirculating aquaculture system for 2 weeks before the experiment began. For the challenge, all grass carp were randomly divided into three groups, and then cultured at saline-alkali water with the concentration of 0, 3‰ and 6‰. After 30 days, some grass crap cultured at 3‰ and 6‰ saline-alkali water were injured. At the same time, gill samples of grass carp were collected from 0, 3‰ (grass carp was not injured), 3‰ (grass carp was injured), 6‰ (grass carp was not injured) and 6‰ (grass carp was injured)saline-alkali groups. Total RNA of all samples was isolated using TRIzol® Reagent (Invitrogen) according to the manufacturer's introduction. RNA integrity was assessed using an Agilent 2100 bioanalyzer (Agilent, USA). Samples with RNA integrity numbers (RINs) ≥ 7.5 were subjected to cDNA library construction using TruseqTM RNA sample prep Kit (Illumina). Results:A total of 15 were processed for transcriptome sequencing, generating 94.99Gb Clean Data. At least 5.76Gb clean data were generated for each sample with minimum 91.87% of clean data achieved quality score of Q30. Clean reads of each sample were mapped to specified reference genome. Mapping ratio ranged from 88.59% to 92.84%. The expression of genes was quantified and differentially expressed genes were identified based on their expression.Criteria for differentially expressed genes was set as Fold Change(FC)≥1.5 and Pvalue<0.05. Fold change(FC) refers to the ratio of gene expression in two samples. These DEGs were further processed for functional annotation and enrichment analysis. Conclusions: Our study represents Effects and molecular regulation mechanisms of saline-alkali stress on the healthy grass carp by using RNA-seqtechnology. Our results show that saline-alkali stress will impair the immune system of grass carp.
2021-12-31 | GSE185170 | GEO
Project description:To investigate possible genetic basis of alkali tolerance in rice, we generated an introgressed rice line (K83) with significantly enhanced tolerance to alkali stress than its recipient parental cultivar (Jijing88). By using microarray analysis, we examined global gene expression profiles in K83 and Jijing88, found more than 1,200 genes were constitutively differentially expressed in K83 compared with Jijing88, with 572 up- and 654 down-regulated. Upon alkali treatment, a total of 347 genes in K83 were found up- and 156 down-regulated in K83, compared with 591 and 187 respectively in Jijing88. Seven-day-old uniform-sized seedlings grown in hydroponic medium were transferred to fresh hydroponic medium alone or containing 50 mM alkali salts. Shoots were harvested 24 h after transfer and 10 shoots were pooled for microarray analysis.
2014-05-16 | E-GEOD-45724 | biostudies-arrayexpress
Project description:This study evaluated the level of genetic variation among 543 wheat associations differing in K-deficiency tolerance at seedling and adult plant stages. Two of the 543 wheat associations, i.e. KN9204 and BN207, were identified as extreme K-deficiency tolerant and sensitive cultivars, respectively. We further conducted transcriptomic and metabolomics analyses using the roots of KN9204 and BN207 under normal or K-deficient conditions.Integrated analysis of gene expression and metabolite profiles revealed that dramatically more genes including those involved in ion homeostasis, cellular reactive oxygen species (ROS) homeostasis and glutamine synthetase pathways were induced in KN9204 as compared with BN207 under K-deficient conditions, which might indicate their unique roles in regulating plant K-starvation tolerance. These findings provided a better understanding of molecular responses of root adaptive strategies to K deprivation in wheat.
2020-07-29 | GSE155319 | GEO
Project description:RNA-seq Analysis Reveals Different Drought Tolerance Mechanisms in Two Broadly Adapted Wheat Cultivars ‘TAM 111’ and ‘TAM 112’
| PRJNA659916 | ENA
Project description:Kharchia local is an Indian tall landrace wheat cultivar. It is native to sodic-saline soils of Kharchia tehsil of the Pali district of Rajasthan, and is a line developed from selections from farmer's fields. It is the most salt tolerant wheat genotype found in India. No systematic study has been carried out in this direction so far. The gaps in understanding of the mechanism underlying salt tolerance limit our ability to improve the salt tolerance in other crop plants. Transcriptome analysis of Kharchia Local under salt stress will provide the insight into the genes involved in salinity tolerance.
2015-05-29 | E-MTAB-4433 | biostudies-arrayexpress