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Analysis of light induced secondary seed dormancy in Aethionema arabicum, Cyprus accession

ABSTRACT: Analysis of light induced secondary seed dormancy in Aethionema arabicum, Cyprus accession

PROVIDER: PRJNA994016 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR25244748.fastq.gz	Fastqsanger.gz
	SRR25244749.fastq.gz	Fastqsanger.gz
	SRR25244750.fastq.gz	Fastqsanger.gz
	SRR25244751.fastq.gz	Fastqsanger.gz
	SRR25244752.fastq.gz	Fastqsanger.gz

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Analysis of light induced secondary seed dormancy in Aethionema arabicum, Cyprus accession

Project description:Light inhibits the seed germination in the Cypriot accession (CYP) of Aethionema arabicum. Extended light illumination also induces a secondary seed dormancy that inhibits the germination even if the seeds were transferred back to darkness. This analysis aims to compare the seed transcriptome before or after the dormancy was established by light illumination (100 µmol/m2s; white light). One day light treatment (1dL) inhibits the germination but the seeds are not yet dormant. Seven day (7dL) or 14-day (14dL) long light treatment induces dormancy, and the seeds stay dormant after 7 dal-light plus 7 day-dark (7dL7dD) treatment. To understand the dormancy establishment, transcriptome was compared between non-dormant (1dL) and dormant (7dL, 14dL, 7dL7dD) seed samples.

2023-09-01 | GSE237127 | GEO

Analysis of light induced secondary seed dormancy in Aethionema arabicum, wild type and rgl2 mutant in Cyprus accession

Project description:Light inhibits the seed germination in the Cypriot accession (CYP) of Aethionema arabicum. Extended light illumination also induces a secondary seed dormancy that inhibits the germination even if the seeds were transferred back to darkness. A forward genetic screen identified rgl2 mutant, that show light inhibited germination, but fails to re-enter the secondary dormancy. This analysis aims to compare the seed transcriptome before or after the dormancy was established by light illumination (100 µmol/m2s; white light). One day light treatment (1dL) inhibits the germination but the seeds are not yet dormant. Seven day (7dL) long light treatment induces dormancy in the WT but not in the rgl2 mutant.

2023-09-01 | GSE237220 | GEO

Analysis of seeds from Aethionema arabicum Turkish (TUR) and Cyprus (CYP) accession in response to light

Project description:The seed germination in response to light shows natural variation in two accessions of Aethionema arabicum (Brassicaceae). One accession from Turkey (TUR) germinates well in darkness and light, while another closely related accession from Cyprus (CYP) germinates only in the dark. To understand the transcriptional differences between the two accession, we performed RNA-seq analysis from imbibed seeds, which were kept either in darkness or under light for 23 hours. Results provide the first transcriptional comparison from light-neutral (TUR) and light-sensivite (CYP) seeds kept in darkness or exposed to light.

2019-01-30 | GSE125854 | GEO

Analysis of light induced secondary seed dormancy in Aethionema arabicum, wild type and rgl2 mutant in Cyprus accession

Project description:Analysis of light induced secondary seed dormancy in Aethionema arabicum, wild type and rgl2 mutant in Cyprus accession

| PRJNA994328 | ENA

Aethionema arabicum

Project description:Aethionema arabicum overview

| PRJNA203233 | ENA

Aethionema arabicum

Project description:Aethionema arabicum Assembly

| PRJNA293005 | ENA

Aethionema arabicum

Project description:Aethionema arabicum Raw sequence reads

| PRJNA413671 | ENA

Analysis of seeds from Aethionema arabicum Turkish (TUR) and Cyprus (CYP) accession in response to light

Project description:Analysis of seeds from Aethionema arabicum Turkish (TUR) and Cyprus (CYP) accession in response to light

| PRJNA517709 | ENA

Aethionema arabicum

Project description:The Genome of Aethionema arabicum, a member of the early branching sister group to the remainder of the core Brassicaceae

| PRJNA202984 | ENA

Aethionema arabicum genome annotation using PacBio full-length transcripts provides a valuable resource for seed dormancy and Brassicaceae evolution research.

Project description:Aethionema arabicum is an important model plant for Brassicaceae trait evolution, particularly of seed (development, regulation, germination, dormancy) and fruit (development, dehiscence mechanisms) characters. Its genome assembly was recently improved but the gene annotation was not updated. Here, we improved the Ae. arabicum gene annotation using 294 RNA-seq libraries and 136 307 full-length PacBio Iso-seq transcripts, increasing BUSCO completeness by 11.6% and featuring 5606 additional genes. Analysis of orthologs showed a lower number of genes in Ae. arabicum than in other Brassicaceae, which could be partially explained by loss of homeologs derived from the At-α polyploidization event and by a lower occurrence of tandem duplications after divergence of Aethionema from the other Brassicaceae. Benchmarking of MADS-box genes identified orthologs of FUL and AGL79 not found in previous versions. Analysis of full-length transcripts related to ABA-mediated seed dormancy discovered a conserved isoform of PIF6-β and antisense transcripts in ABI3, ABI4 and DOG1, among other cases found of different alternative splicing between Turkey and Cyprus ecotypes. The presented data allow alternative splicing mining and proposition of numerous hypotheses to research evolution and functional genomics. Annotation data and sequences are available at the Ae. arabicum DB (https://plantcode.online.uni-marburg.de/aetar_db).

| S-EPMC8641386 | biostudies-literature

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