Soil metagenome
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA496421 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR8061690_1.fastq.gz | Fastqsanger.gz | |||
| SRR8061690_2.fastq.gz | Fastqsanger.gz | |||
| SRR8060784_1.fastq.gz | Fastqsanger.gz | |||
| SRR8060784_2.fastq.gz | Fastqsanger.gz | |||
| SRR8128850_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 14 |
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Project description:Closely related lineages can possess phenotypic variation important for adaptation and the evolution of new species; a phenomenon that can be more clearly elucidated by studying hybrid generations. We compare variation in gene expression in response to drought for two taxa and advanced-generation hybrids of the Piriqueta cistoides ssp. caroliniana complex that differ in their levels of tolerance to water limitation. Drought treatments lasted 36 days, through four cycles of drought. Gene expression in drought and control treatments was assessed using heterologous hybridization to a Glycine max microarray. There was a predominance of down-regulated genes in response to sustained drought in all morphotypes. This pattern was more pronounced in the hybrids, which can exhibit greater drought tolerance under field and greenhouse conditions than the parental morphotypes. Expression response profiles were more similar between the hybrid and the drought-tolerant parental morphotype than they were between the hybrid and the parental morphotype that occurs in more mesic habitats. Predominant down-regulation of gene expression contrasts with studies of response to short-term drought and with studies of drought-response in annual and non-drought-tolerant model species, and supports the results of a growing number of studies with other drought-tolerant perennial plants under prolonged drought.
2010-05-27 | GSE19410 | GEO
Project description:Closely related lineages can possess phenotypic variation important for adaptation and the evolution of new species; a phenomenon that can be more clearly elucidated by studying hybrid generations. We compare variation in gene expression in response to drought for two taxa and advanced-generation hybrids of the Piriqueta cistoides ssp. caroliniana complex that differ in their levels of tolerance to water limitation. Drought treatments lasted 36 days, through four cycles of drought. Gene expression in drought and control treatments was assessed using heterologous hybridization to a Glycine max microarray. There was a predominance of down-regulated genes in response to sustained drought in all morphotypes. This pattern was more pronounced in the hybrids, which can exhibit greater drought tolerance under field and greenhouse conditions than the parental morphotypes. Expression response profiles were more similar between the hybrid and the drought-tolerant parental morphotype than they were between the hybrid and the parental morphotype that occurs in more mesic habitats. Predominant down-regulation of gene expression contrasts with studies of response to short-term drought and with studies of drought-response in annual and non-drought-tolerant model species, and supports the results of a growing number of studies with other drought-tolerant perennial plants under prolonged drought. A total of 18 array hyridizations. Two conditions (drought and control), three morphotypes (caroliniana, viridis, and hybrid), for a total of 6 morphotype/treatment combinations. Three samples of each morphotypes/treatment combination were hybridized twice in dye swap in a loop design.
2010-04-22 | E-GEOD-19410 | biostudies-arrayexpress
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:drought, salt and alkalinity tolerant poplar species
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Project description:Purpose: To elucidate the potential molecular mechanisms that are involved in drought tolerance of Haloxylon ammodendron. Method: Pathways and candidate genes drought-resistant genes were identified in shoots and roost of Haloxylon ammodendron under sorbitol treatment for 6 and 24h using RNA-seq and Digital Gene Expression. Results: 3,353 differently expressed genes in shoots and 4,564 in roots were successfully indentified. Conclusion: A detailed investigation of the pathways and candidate genes identified in this study promote the research on the molecular mechanisms of drought resistance in the xerophytic species, and lay a solid foundation for developing stress-tolerant forage and crop species by using excellent genes relevant to drought tolerance in Haloxylon. ammodendron.
2017-01-18 | GSE93684 | GEO
Project description:Metagenome data from soil samples were collected at 0 to 10cm deep from 2 avocado orchards in Channybearup, Western Australia, in 2024. Amplicon sequence variant (ASV) tables were constructed based on the DADA2 pipeline with default parameters.
2025-06-15 | GSE298403 | GEO
Project description:Genome-wide Transcriptional Analysis of Genes Associated with Drought Stress in Gossypium herbaceum root This experiment was designed to investigate the molecular mechanism associated with drought tolerance in root tissue of Gossypium herbaceum. The gene expression profiles of the root tissue using Affymetrix Cotton Genome Array were compared with drought tolerant and drought sensitive genotype of G.herbaceum under drought stress and watered condition. Many genes in various molecular function or biological processes were over- or under-represented between drought tolerant and sensitive genotype, suggesting various molecular mechanism and biochemical pathways are interlinked and tolerant genotype have developed multiple mechanisms as an adaptory behavior against drought stress.
2012-03-29 | GSE36249 | GEO
Project description:Drought tolerance is a key trait for increasing and stabilizing barley productivity in dry areas worldwide. Identification of the genes responsible for drought tolerance in barley (Hordeum vulgare L.) will facilitate understanding of the molecular mechanisms of drought tolerance, and also genetic improvement of barley through marker-assisted selection or gene transformation. To monitor the changes in gene expression at transcription levels in barley leaves during the reproductive stage under drought conditions, the 22K Affymetrix Barley 1 microarray was used to screen two drought-tolerant barley genotypes, Martin and Hordeum spontaneum 41-1 (HS41-1), and one drought-sensitive genotype Moroc9-75. Seventeen genes were expressed exclusively in the two drought-tolerant genotypes under drought stress, and their encoded proteins may play significant roles in enhancing drought tolerance through controlling stomatal closure via carbon metabolism (NADP malic enzyme (NADP-ME) and pyruvate dehydrogenase (PDH), synthesizing the osmoprotectant glycine-betaine (C-4 sterol methyl oxidase (CSMO), generating protectants against reactive-oxygen-species scavenging (aldehyde dehydrogenase (ALDH), ascorbate-dependant oxidoreductase (ADOR), and stabilizing membranes and proteins (heat-shock protein 17.8 (HSP17.8) and dehydrin 3 (DHN3). Moreover, 17 genes were abundantly expressed in Martin and HS41-1 compared with Moroc9-75 under both drought and control conditions. These genes were likely constitutively expressed in drought-tolerant genotypes. Among them, 7 known annotated genes might enhance drought tolerance through signaling (such as calcium-dependent protein kinase (CDPK) and membrane steroid binding protein (MSBP), anti-senescence (G2 pea dark accumulated protein GDA2) and detoxification (glutathione S-transferase (GST) pathways. In addition, 18 genes, including those encoding Δl-pyrroline-5-carboxylate synthetase (P5CS), protein phosphatase 2C-like protein (PP2C) and several chaperones, were differentially expressed in all genotypes under drought; thus, they were more likely general drought-responsive genes in barley. These results could provide new insights into further understanding of drought-tolerance mechanisms in barley.
2009-05-13 | GSE15970 | GEO
Project description:Leaf samples were used. We exposed young seedlings to NaCl and drought. Expression study in 24hrs salt and drought condition. Salt-sensitive and salt-tolerant strains of rice exposed to NaCl or control conditions. Drought-sensitive and drought-tolerant strains of rice exposed to drought or control conditions.
2011-12-31 | E-GEOD-21651 | biostudies-arrayexpress
Project description:Genome-wide Transcriptional Analysis of Genes Associated with Drought Stress in Gossypium herbaceum root This experiment was designed to investigate the molecular mechanism associated with drought tolerance in root tissue of Gossypium herbaceum. The gene expression profiles of the root tissue using Affymetrix Cotton Genome Array were compared with drought tolerant and drought sensitive genotype of G.herbaceum under drought stress and watered condition. Many genes in various molecular function or biological processes were over- or under-represented between drought tolerant and sensitive genotype, suggesting various molecular mechanism and biochemical pathways are interlinked and tolerant genotype have developed multiple mechanisms as an adaptory behavior against drought stress. The transcriptional responses of root tissue in drought tolerant and sensitive genotype of Gossypium herbaceum under drought stress have been investigated. Physiological responses to drought stress, such as stomatal conductance, water use efficiency, root bending assay on different mannitiol concentration were also measured as indicators of imposed drought stress. Total RNA was isolated from root tissue from both genotype under drought stress and normal irrigated condition with three biological replicates
2012-03-28 | E-GEOD-36249 | biostudies-arrayexpress