Ontology highlight
ABSTRACT:
PROVIDER: PRJNA797171 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR17625836.fastq.gz | Fastqsanger.gz | |||
| SRR17625837.fastq.gz | Fastqsanger.gz | |||
| SRR17625838.fastq.gz | Fastqsanger.gz | |||
| SRR17625839.fastq.gz | Fastqsanger.gz | |||
| SRR17625840.fastq.gz | Fastqsanger.gz |
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Project description:MeGRX232 and MeGRX360 are drought-inducible CC-type glutaredoxins in cassava. Overexpression of them in Arabidopsis caused different effects on plant growth. We used microarray to identified the different expression genes in MeGRX232-OE and MeGRX360-OE Arabidopsis
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Project description:Cassava is a drought–resistant food crop in tropical and subtropical regions. Although cassava is a relatively drought-tolerant species, the development and yields are greatly affected by the adverse drought conditions. Information about molecular breeding will obtain by studying genetic regulatory mechanism. In this study, we demonstrate the drought-tolerant mechanisms in leaves of both cassava varieties(Xinxuan048 and KU50) by using RNA-Seq technique. 1,880 and 2,066 differentially expressed genes(DEGs) were induced by drought stress in leaves of KU50 and Xinxuan048, respectively. DEGs in the response to drought stress involve in many regulated pathways. ROS- and ABA-associated signaling pathways and photosynthesis-associated regulation are mainly elucidated. In addition, alternative splicing and ingle nucleotide polymorphism also involve in drought-stress responses in both cassava varieties, showing their important roles in response to drought stress in leaves. This study not only increases the understanding of physiological and molecular mechanisms to the drought response in cassava, but also lays a solid foundation on the breeding of drought-resistant varieties using molecular methods.
2018-07-01 | GSE98537 | GEO
Project description:External application of acetic acid has been recently reported to enhance the survival to drought in plants such as Arabidopsis, rapeseed, maize, rice and wheat, but the effects of acetic acid application on increased drought tolerance in woody plants such as a tropical crop “cassava” remain elusive. A molecular understanding of acetic acid-induced drought avoidance in cassava will contribute to the development of technology that can be used to enhance drought tolerance without resorting to transgenic technology or advancements in cassava cultivation. In the present study, morphological, physiological and molecular responses to drought were analyzed in cassava after the treatment with acetic acid. Results indicated that the acetic acid-treated cassava plants had a higher level of drought avoidance than water-treated, control plants. Specifically, higher leaf relative water content, and chlorophyll and carotenoid levels were observed as soils dried out during the drought treatment. Leaf temperatures in acetic acid-treated cassava plants were higher relative to leaves on plants pretreated with water and the increase of ABA content was observed in leaves of acetic acid-treated plants, suggesting that stomatal conductance and the transpiration rate in leaves of acetic acid-treated plants decreased to maintain relative water contents and avoid drought. Transcriptome analysis revealed that the acetic acid treatment increased the expression of ABA signaling-related genes, such as OPEN STOMATA 1 (OST1) and protein phosphatase 2C; as well as drought response and tolerance-related genes, such as outer membrane tryptophan-rich sensory protein (TSPO), and heat shock proteins. Collectively, the external application of acetic acid enhances drought avoidance in cassava through the upregulation of ABA signaling pathway genes and several stress response- and tolerance-related genes. These data support the idea that adjustments of the acetic acid application to plants is useful to enhance drought tolerance in order to minimize the growth inhibition in the agricultural field.
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Project description:The external application of ethanol has been reported to enhance salinity, drought and heat stress tolerance in various plant species (Nguyen et al. 2017 ; Bashir et al. in prep.; Matsui et al. in prep). However, the effects of ethanol application on increased drought tolerance in cassava, an important tropical starch crop used for food security and industrial application by a billion people world-wide, remain unknown. In the present study, morphological, physiological, and molecular responses to drought were analyzed in cassava after the treatment with ethanol. The present study showed that the ethanol treatment increased drought avoidance in cassava than the water treatment. Ethanol treatment induced stomatal closure, resulting in the increase of leaf temperature. The decrease in water content of the leaves during drought stress treatment was reduced in ethanol-treated plants compared with control plants. Transcriptome analysis revealed that the expression of drought stress response-related genes and ABA response-related genes was lower in ethanol-treated plants compared with control plants on 12 days after drought treatment.
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Project description:We developed a 60-mer oligonucleotide Agilent microarray representing about 20,000 cassava genes and applied it to expression profiling under drought stress. We demonstrated that our microarray is an useful tool for analyzing the cassava transcriptome and that it can be applied to various cassava species.
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Project description:We developed a 60-mer oligonucleotide Agilent microarray representing about 20,000 cassava genes and applied it to expression profiling under drought stress. We demonstrated that our microarray is an useful tool for analyzing the cassava transcriptome and that it can be applied to various cassava species. After cutting of shoots from the cassava plants, the shoots were grown in a glass bottle containing MS medium supplemented with 2% sucrose and 0.3% gelrite for 4 weeks (16 hours light / 8 hours dark). The plantlets were subjected to drought treatment by removing the plantlets from the gelrite plate, placing on a plastic plate and keeping them for 1 hour under 40-80 M-NM-<mol photons m-2 sec-1 at 30M-BM-:C in 50% of relative humidity. Then total RNA was prepared from the shoots and used for the microarray hybridization. Three replicative hybridization experiments were carried out using the independent biological samples.
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2016-12-31 | GSE63223 | GEO
Project description:Cassava (Manihot esculenta) is the food security crop that feeds approximately 800 million people worldwide. Although this crop displays high productivity under drought and poor soil conditions, it is susceptible to disease, postharvest deterioration and the roots contain low nutritional content. Cassava improvement programs are focused on addressing these constraints but are hindered by the crop’s high heterozygosity, difficulty in synchronizing flowering, low seed production and a poor understanding of the physiology of this plant. Among the major food crops, cassava is unique in its ability to develop massive, underground storage roots. Despite the importance of these structures, their basic physiology remains largely unknown, especially the molecular genetic basis of storage root development. Similarly, in cassava, the favored target tissue for transgene integration and genome editing is a friable embryogenic callus (FEC). Little is known concerning gene expression in this tissue, or its relatedness to the somatic organized embryogenic structures (OES) from which it originates. Here, we provide molecular identities for eleven cassava tissue types through RNA sequencing and develop an open access, web-based interface for further interrogation of the data. Through this dataset, we report novel insight into the physiology of cassava and identify promoters able to drive specified tissue expression profiles. The information gained from this study is of value for both conventional and biotechnological improvement programs.
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Project description:Kernel row number (KRN) is not only a key agronomic trait influencing maize yield but also a phenotype that underwent significant changes during maize domestication from its wild ancestor, teosinte. Previous studies have identified multiple quantitative trait loci (QTLs) associated with ear morphology on chromosome 5, among which the molecular basis and domestication role of qKRN5.04b remain unclear. To elucidate the function of qKRN5.04b, we constructed a segregating population through hybridization based on recombinant inbred lines derived from near-isogenic lines. Using high-throughput genotyping technologies and rigorously excluding interference from teosinte-derived chromosomal segments elsewhere in the genome, we narrowed the qKRN5.04b interval to a 3.8 Mb region. Transcriptomic analysis of immature maize ears revealed that differentially expressed genes were predominantly enriched in cis-regulatory RNA synthesis pathways, while KEGG pathway analysis indicated significant enrichment in auxin signal transduction. Functional validation showed that Mu insertion mutants of ZmGrx5 reduced kernel row number by two, suggesting ZmGrx5 as a candidate gene underlying qKRN5.04b. Population genetic analysis further demonstrated that ZmGrx5 is the most strongly selected member within the CC-type glutaredoxin (ROXY) family. Collectively, this study provides preliminary insights into the molecular basis of qKRN5.04b and offers valuable clues for understanding ROXY gene domestication and advancing molecular breeding strategies in maize.
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