Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Lepidodinium chlorophorum strain:NIES-1868

ABSTRACT: investigation of plastid proteins in dinoflagellates harboring non-canonical plastids

PROVIDER: PRJDB6621 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	DRR124369_1.fastq.gz	Fastqsanger.gz
	DRR124369_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Project description:Novel plastid genome characteristics in Fugacium kawagutii and accelerated evolution of plastid proteins in dinoflagellates

| PRJNA1032271 | ENA

Arabidopsis thaliana strain:Col 0 Transcriptome or Gene expression

Project description:We obtained an Arabidopsis mutant from the Arabidopsis Biological Resource Center stock collection and verified that it was homozygous for a T-DNA insertion in the first exon of ORRM1 (SALK_072648, designated here as orrm1). The homozygous mutant did not show any phenotypic defect when grown under growth room conditions. We examined the organelle transcriptome of the mutant for editing defects because other proteins carrying RIP domains have been shown to be editing factors. We analyzed the plastid RNA editing extent with a new methodology based on RNA-seq. Briefly, total RNA is isolated from leaves and RT-PCR products corresponding to known organelle genes are obtained by using gene-specific primers. The products are mixed in equimolar ratio, sheared, and used as templates to produce an Illumina TruSeq library. This RNA-seq analysis demonstrated that ORRM1 is a plastid editing factor; 12 among 34 plastid sites exhibit a severe reduction of editing extent in the mutant relative to the wild-type

2014-01-09 | E-MTAB-4378 | biostudies-arrayexpress

The primary transcriptome of barley (Hordeum vulgare L.) chloroplasts

Project description:Gene expression in plastids of higher plants is dependent on two different transcription machineries, a plastid-encoded bacterial-type RNA polymerase (PEP) and a nuclear-encoded phage-type RNA polymerase (NEP), which recognize distinct types of promoters. The division of labor between PEP and NEP during plastid development and in mature chloroplasts is unclear due to a lack of comprehensive information on promoter usage. Here we present a thorough investigation into the distribution of PEP and NEP promoters within the plastid genome of barley (Hordeum vulgare L). Using a novel differential RNA sequencing approach, which discriminates between primary and processed transcripts, we obtained a genome-wide map of transcription start sites in plastids of mature first leaves. PEP-lacking plastids of the albostrians mutant allowed for the unambiguous identifications of NEP promoters. We observed that the chloroplast genome contains many more promoters than genes. According to our data, most genes (including genes coding for photosynthesis proteins) have both PEP and NEP promoters. We also detected numerous transcription start sites within operons indicating transcriptional uncoupling of genes in polycistronic gene clusters. Moreover, we mapped many transcription start sites in intergenic regions, as well as opposite to annotated genes demonstrating the existence of numerous non-coding RNA candidates. dRNA-seq analysis of total RNA from green and white plastids of the barley mutant line albostrians

2011-11-23 | E-GEOD-33773 | biostudies-arrayexpress

The primary transcriptome of barley (Hordeum vulgare L.) chloroplasts

2011-11-23 | GSE33773 | GEO

Complete Genome Sequence of a Coastal Cyanobacterium, Synechococcus sp. Strain NIES-970.

Project description:Members of the cyanobacterial genus Synechococcus are abundant in marine environments. To better understand the genomic diversity of marine Synechococcus spp., we determined the complete genome sequence of a coastal cyanobacterium, Synechococcus sp. NIES-970. The genome had a size of 3.1 Mb, consisting of one chromosome and four plasmids.

| S-EPMC5383900 | biostudies-literature

Draft Genome Sequences of Four Microcystis aeruginosa Strains (NIES-3787, NIES-3804, NIES-3806, and NIES-3807) Isolated from Lake Kasumigaura, Japan.

Project description:Microcystis aeruginosa is a bloom-forming cyanobacterium found in freshwater environments. The draft genomes of the M. aeruginosa strains NIES-3787, NIES-3804, NIES-3806, and NIES-3807, which were isolated from Lake Kasumigaura, Japan, were sequenced. The genome sizes of NIES-3787, NIES-3804, NIES-3806, and NIES-3807 were 4,524,637, 4,522,701, 4,370,004, and 4,378,226 bp, respectively.

| S-EPMC7118182 | biostudies-literature

Draft Genome Sequence of the Astaxanthin-Producing Microalga Haematococcus lacustris Strain NIES-144.

Project description:Haematococcus lacustris is an industrially important eukaryotic microalga that is thought to be a great source of natural astaxanthin with strong antioxidant activity. Here, we report the draft assembly and annotation results of the genome of H. lacustris NIES-144. These data will expand our knowledge of the molecular biological features of this microalga.

| S-EPMC7272542 | biostudies-literature