Ontology highlight
ABSTRACT:
PROVIDER: PRJNA905442 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR22409441_1.fastq.gz | Fastqsanger.gz | |||
| SRR22409441_2.fastq.gz | Fastqsanger.gz | |||
| SRR22409442_1.fastq.gz | Fastqsanger.gz | |||
| SRR22409442_2.fastq.gz | Fastqsanger.gz | |||
| SRR22409443_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 16 |
Similar Datasets
Project description:MicroRNAs (miRNAs) are a type of small non-coding RNAs, which play important roles in plant growth, development and stress responses. Tea (Camellia sinensis) prepared from tea tree is the oldest and most popular nonalcoholic beverages in the world, and has large economic, medicinal and cultural significance. Nevertheless, there are a few studies on the miRNAs and their functions in Camellia sinensis. We sequenced 9 small RNA libraries and 9 RNA-Seq libraries from roots, leaves and flowers tissues. Through comprehensive computational analyses of 9 small RNA profiles, we identified 200 conserved miRNAs of which 138 have not been reported, and 56 novel miRNAs with 33 have not been reported. Nearly, two thousands genes have significantly different expression levels in tissues. In order to identify targets of miRNAs, we sequenced two degradome profiles from leaves and roots, respectively. Totally, more than 3,000 putative targets of conserved miRNAs were identified in both degradome profiles by using the SeqTar algorithm. These results clearly enhanced our understanding about small RNA guided gene regulations in Camellia sinensis.
2020-12-31 | GSE138149 | GEO
Project description:Bisulfite treatment libraries were made to characterize the DNA methylome of tea tree
2018-09-15 | GSE119992 | GEO
Project description:Tea (Camellia sinensis (L.) O. Kuntze) is an important non-alcoholic commercial beverage crop. Tea tree is a perennial plant, and winter dormancy is its part of biological adaptation to environmental changes. We recently discovered a novel tea tree cultivar that can generate tender shoots in winter, but the regulatory mechanism of this ever-growing tender shoot development in winter is not clear. In this study, we conducted a proteomic analysis for identification of key genes and proteins differentially expressed between the winter and spring tender shoots, to explore the putative regulatory mechanisms and physiological basis of its ever-growing character during winter.
2022-02-23 | PXD008958 | Pride
Project description:MicroRNAs (miRNAs) are a type of small non-coding RNAs, which play important roles in plant growth, development and stress responses. Tea (Camellia sinensis) prepared from tea tree is the oldest and most popular nonalcoholic beverages in the world, and has large economic, medicinal and cultural significance. Nevertheless, there are a few studies on the miRNAs and their functions in Camellia sinensis. We sequenced 9 small RNA libraries and 9 RNA-Seq libraries from roots, leaves and flowers tissues. Through comprehensive computational analyses of 9 small RNA profiles, we identified 200 conserved miRNAs of which 138 have not been reported, and 56 novel miRNAs with 33 have not been reported. Nearly, two thousands genes have significantly different expression levels in tissues. In order to identify targets of miRNAs, we sequenced two degradome profiles from leaves and roots, respectively. Totally, more than 3,000 putative targets of conserved miRNAs were identified in both degradome profiles by using the SeqTar algorithm. These results clearly enhanced our understanding about small RNA guided gene regulations in Camellia sinensis.
2020-12-31 | GSE138150 | GEO
Project description:MicroRNAs (miRNAs) are a type of small non-coding RNAs, which play important roles in plant growth, development and stress responses. Tea (Camellia sinensis) prepared from tea tree is the oldest and most popular nonalcoholic beverages in the world, and has large economic, medicinal and cultural significance. Nevertheless, there are a few studies on the miRNAs and their functions in Camellia sinensis. We sequenced 9 small RNA libraries and 9 RNA-Seq libraries from roots, leaves and flowers tissues. Through comprehensive computational analyses of 9 small RNA profiles, we identified 200 conserved miRNAs of which 138 have not been reported, and 56 novel miRNAs with 33 have not been reported. Nearly, two thousands genes have significantly different expression levels in tissues. In order to identify targets of miRNAs, we sequenced two degradome profiles from leaves and roots, respectively. Totally, more than 3,000 putative targets of conserved miRNAs were identified in both degradome profiles by using the SeqTar algorithm. These results clearly enhanced our understanding about small RNA guided gene regulations in Camellia sinensis.
2020-12-31 | GSE138148 | GEO
Project description:Finding predictive molecular markers for resistance against Myrtle rust may help to identify resistant plants and provide a means of maintaining Myrtaceae production in nursery, especially for ecosystems restoration purposes. Sequence polymorphism involving in differentiate expressed genes are particularly relevant for disease resistance marker design. We sequenced the transcriptomes of resistant and susceptible individuals of three endemic host species: Arillastrum gummiferum, Tristaniopsis glauca and Syzygium longifolium. The rust phenotype of the individuals of each species was defined as "infected" (considered as susceptible) and "healthy" (considered as resistant). We described here a pre-breeding methodology to find disease resistance markers by combining next-generation sequencing, differential gene expression (DGE) and SNP calling. DGE was conducted in parallel using the only one available sequenced Myrtaceae genome (Eucalyptus grandis) and a de novo assembly transcriptome from each species. The edgeR tests if a gene is DE between “infected” individuals versus “healthy” ones. If the fold change log (FC = infected/healthy) is greater than 0, the gene is thus overexpressed in the infected individuals (considered as susceptible).
2018-11-08 | GSE106749 | GEO
Project description:Finding predictive molecular markers for resistance against Myrtle rust may help to identify resistant plants and provide a means of maintaining Myrtaceae production in nursery, especially for ecosystems restoration purposes. Sequence polymorphism involving in differentiate expressed genes are particularly relevant for disease resistance marker design. We sequenced the transcriptomes of resistant and susceptible individuals of three endemic host species: Arillastrum gummiferum, Tristaniopsis glauca and Syzygium longifolium. The rust phenotype of the individuals of each species was defined as "infected" (considered as susceptible) and "healthy" (considered as resistant). We described here a pre-breeding methodology to find disease resistance markers by combining next-generation sequencing, differential gene expression (DGE) and SNP calling. DGE was conducted in parallel using the only one available sequenced Myrtaceae genome (Eucalyptus grandis) and a de novo assembly transcriptome from each species. The edgeR tests if a gene is DE between “infected” individuals versus “healthy” ones. If the fold change log (FC = infected/healthy) is greater than 0, the gene is thus overexpressed in the infected individuals (considered as susceptible).
2018-11-08 | GSE106747 | GEO
Project description:Finding predictive molecular markers for resistance against Myrtle rust may help to identify resistant plants and provide a means of maintaining Myrtaceae production in nursery, especially for ecosystems restoration purposes. Sequence polymorphism involving in differentiate expressed genes are particularly relevant for disease resistance marker design. We sequenced the transcriptomes of resistant and susceptible individuals of three endemic host species: Arillastrum gummiferum, Tristaniopsis glauca and Syzygium longifolium. The rust phenotype of the individuals of each species was defined as "infected" (considered as susceptible) and "healthy" (considered as resistant). We described here a pre-breeding methodology to find disease resistance markers by combining next-generation sequencing, differential gene expression (DGE) and SNP calling. DGE was conducted in parallel using the only one available sequenced Myrtaceae genome (Eucalyptus grandis) and a de novo assembly transcriptome from each species. The edgeR tests if a gene is DE between “infected” individuals versus “healthy” ones. If the fold change log (FC = infected/healthy) is greater than 0, the gene is thus overexpressed in the infected individuals (considered as susceptible).
2018-11-08 | GSE106746 | GEO