RNA-seq of Aethionema arabicum dry seeds. There are two seed types: larger non mucilaginous seeds (NM) from indehiscent fruits (IND) and smaller mucilaginous seeds (M) from dehiscent fruits (DEH).
Open indehiscent fruit of Ae. arabicum with a Non mucilaginous seed (left). Open dehiscent fruit with dry mucilaginous seeds (right).
Aethionema arabicum accession 0000309 (collected from Turkey and obtained from Kew’s Millennium Seed Bank, UK) and ES1020 (collected from Turkey and obtained from Eric Schranz, Wageningen) plants were grown on soil under long-day conditions (16 h light/20°C and 8 h dark/18°C). Freshly matured seeds from dehiscent (harboring M+ seeds) and indehiscent (harboring NM seeds) fruits derived from several plants were harvested. Two replicates of 20 mg fresh dry M+ and NM seeds, resulting in four samples in total, were sequenced using a HiSeq-2000 sequencer (Illumina) generating 100 bp single-end reads, which were processed, analyzed and normalized to RPKM.
This dataset was published by Wilhelmsson et al. 2019 and raw data can be found in the BioProject PRJNA413671.
RNA-seq of Aethionema arabicum TUR fruit development, from flower buds to immature fruits at their full length. There are two fruit types: indehiscent fruits (IND) and dehiscent fruits (DEH).
Floral bud (0 DAP), flowers at anthesis (1 DAP), and immature fruits at their full length (30 DAP, before the onset of yellowing and drying).
Plants of Aethionema arabicum were grown from accession no. ES1020, in Levington compost with added horticultural grade sand (F2 + S), under long-day conditions (16 h light/20°C and 8 h dark/18°C) in a greenhouse. The days after pollination (DAP) were defined phenotypically as the time at which the flowers open (anthesis) and the four long stamens extend over the gynoecium. Floral buds (0 DAP), flowers at anthesis (1 DAP) and immature fruits at their full length (30 DAP, before the onset of yellowing and drying) were harvested from second-order branches of plants that grew undisturbed (IND) or from the main branch of plants where side branches were constantly removed during development (DEH). Four biological replicates were sequenced using 50-bp single-end mode on Illumina® HiSeq 2000, which were processed, analyzed and normalized to RPKM.
This dataset was published by Arshad et al. 2021 .
RNA-seq of Aethionema arabicum seeds. There are two seed types: larger non mucilaginous seeds (NM or M-) from indehiscent fruits (IND) and smaller mucilaginous seeds (M or M+) from dehiscent fruits (DEH).
Sample nomenclature stars wit C, A or Z (), followed by the maternal temperature (T20 or T25), seed/fruit morph (p from M and m for NM, or IND for indehiscent fruits), germination temperature (9, 14, 20, 24), and collected time point (24, 35, 38, 50, 75, 100, or 125 hours).
Raw data can be found in the BioProject PRJNA639669.
RNA-seq of Aethionema arabicum TUR and CYP seeds exposed to darkness and light.
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.
This dataset was published by Mérai et al. 2019
RNA-seq of Aethionema arabicum CYP seeds exposed to different light conditions.
The seeds of one Ae. arabicum accession from Cyprus (CYP) germinates only in the dark, while light inhibits the germination. This phenotype if also called photoinhibition, or negative photoblasty. Extended light illumination also induces secondary seed dormancy, when the seeds are not germinating even when they are transferred back to the optimal dark condition. To investigate the transition from photoinhibition to photodormancy, transcriptome of CYP seeds where compared under the conditions when they are inhibited but not yet dormant (1 day light), or when the light induced secondary is already established ( 7 or 14 days light). A further dormant sample ( 7 days light+7 days dark) is used to differentiate those expressional changes, which are due to the light stress from those which are associated with secondary dormancy.
RNA-seq of Aethionema arabicum CYP and rgl2 seeds exposed to different light conditions.
The seeds of one Ae. arabicum accession from Cyprus (CYP) germinates only in the dark, while light inhibits the germination. This phenotype if also called photoinhibition, or negative photoblasty. Extended light illumination also induces secondary seed dormancy, when the seeds are not germinating even when they are transferred back to the optimal dark condition. A mutant seed collection in the CYP accession of Ae. arabicum was explored to identify mutants in which the photoinhibition and the secondary dormancy is decoupled. The seeds of rgl2 mutant do not germinate under light as the photoinhibition is operating but the seeds fail to enter the secondary dormancy. Seeds of WT and rgl2 genotype were compared after 1 day light treatment when the photoinhibition occurs but the seeds not yet dormant; and after 7 days light, when the WT seeds established secondary dormancy but the rgl2 seeds not.
