Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Wild rice microbiome

ABSTRACT: Wild rice Metagenome

PROVIDER: PRJNA850879 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR19753700_1.fastq.gz	Fastqsanger.gz
	SRR19753700_2.fastq.gz	Fastqsanger.gz
	SRR19753800.fastq.gz	Fastqsanger.gz
	SRR19753701_1.fastq.gz	Fastqsanger.gz
	SRR19753701_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 342

Similar Datasets

wild rice microbiome

Project description:wild rice microbiome Metagenome

| PRJNA851112 | ENA

rhizosphere microbiome of Dongxiang wild rice

Project description:rhizosphere microbiome of Dongxiang wild rice Raw sequence reads

| PRJNA520770 | ENA

Rhizosphere soils of wild rice (Oryza rufipogon)

Project description:Rhizosphere soils of wild rice (Oryza rufipogon) Metagenome

| PRJNA940606 | ENA

Effect of methyl jasmonate treatment on rice leaves of wild-type and rice COI mutatns

Project description:Analysis of leaves of wild-type and rice COI mutants treated with methyl jasmonate (MeJA). Results provide the role of rice COI on response to jasmonic acid.

2022-06-11 | GSE205750 | GEO

Genomic dissection of small RNAs in wild rice (O.rufipogon): lessons for rice domestication [small RNA]

Project description:The lack of MIRNA set and genome sequence of O. rufipogon (the ancestor of the cultivated rice) has limited to answer the role of MIRNA genes in rice domestication. In this study, a genome, three small RNA populations and a degradome of O.rufipogon were sequenced by Illumina platform and miRNA expression were investigated by miRNA chips. A de novo genome was assembled using ~55x coverage of raw sequencing data and a total of 387 MIRNAs were identified in the O. rufipogon genome based on ~5.2 million unique small RNA reads from three different tissues of O. rufipogon. Of these O. rufipogon MIRNAs, 259 were not found in the cultivated rice, suggesting loss of these MIRNAs in the cultivated rice. We also found that 48 MIRNAs were novel in the cultivated rice, suggesting that they were potential targets of domestication selection. Some miRNAs showed significant expression difference in the wild and cultivated rice, suggesting that expression of miRNA could also be a target of domestication, as demonstrated for the miR164 family. Our results illustrated MIRNA genes, like protein-coding genes, were significantly shaped during rice domestication and could be one of the driven forces contributed to rice domestication.

2012-08-10 | GSE39308 | GEO

rice microbiome

Project description:rice microbiome Raw sequence reads

| PRJNA813200 | ENA

Sundarban cultivated rice rhizosphere microbiome

Project description:Sundarban cultivated rice rhizosphere microbiome Metagenome

| PRJNA824796 | ENA

Oryza alta cultivar:wild allotetraploid rice

Project description:Oryza alta cultivar:wild allotetraploid rice Genome sequencing

| PRJNA623162 | ENA

Genomic dissection of small RNAs in wild rice (O.rufipogon): lessons for rice domestication [degradome]

Project description:The lack of MIRNA set and genome sequence of O. rufipogon (the ancestor of the cultivated rice) has limited to answer the role of MIRNA genes in rice domestication.In this study, a genome, three small RNA populations and a degradome of O.rufipogon were sequenced by Illumina platform and miRNA expression were investigated by miRNA chips. A de novo genome was assembled using ~55x coverage of raw sequencing data and a total of 387 MIRNAs were identified in the O. rufipogon genome based on ~5.2 million unique small RNA reads from three different tissues of O. rufipogon. Of these O. rufipogon MIRNAs, 259 were not found in the cultivated rice, suggesting loss of these MIRNAs in the cultivated rice. We also found that 48 MIRNAs were novel in the cultivated rice, suggesting that they were potential targets of domestication selection. Some miRNAs showed significant expression difference in the wild and cultivated rice, suggesting that expression of miRNA could also be a target of domestication, as demonstrated for the miR164 family. Our results illustrated MIRNA genes, like protein-coding genes, were significantly shaped during rice domestication and could be one of the driven forces contributed to rice domestication.

2012-08-10 | GSE39307 | GEO

Oryza rufipogon cultivar:Dongxiang wild rice

Project description:Oryza rufipogon cultivar:Dongxiang wild rice Raw sequence reads

| PRJNA641241 | ENA