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ABSTRACT:
PROVIDER: PRJEB91446 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Transcription profiling of Brassica rapa, Brassica oleracea and Brassica napus I and II The nuclear genomes of the resynthesised B. napus lines should be identical but, as one (B. napus I) involved a cross of B. oleracea onto B. rapa, and the other (B. napus II) involved a cross of B rapa onto B. oleracea, they differ in cytoplasm, and hence contain different chloroplast and mitochondrial genomes.
2009-05-03 | GSE15915 | GEO
Project description:Transcription profiling of Brassica rapa, Brassica oleracea and Brassica napus I and II The nuclear genomes of the resynthesised B. napus lines should be identical but, as one (B. napus I) involved a cross of B. oleracea onto B. rapa, and the other (B. napus II) involved a cross of B rapa onto B. oleracea, they differ in cytoplasm, and hence contain different chloroplast and mitochondrial genomes. Four-condition experiment, comparison of transcription profiles of the genomes. Four biological replicates were used, independently grown and harvested. One replicate per array.
2010-05-19 | E-GEOD-15915 | biostudies-arrayexpress
Project description:Changes to gene expression and splicing are investigated between parental species (B. oleracea and B. rapa) and three resynthesized allopolyploids, as well as a natural B. napus
2019-07-13 | GSE84451 | GEO
Project description:Alien chromosome substitution lines are vital germplasm for breeding and genetic mapping. Previously, a whole set of nine Brassica rapa-oleracea monosonic alien addition lines (MAALs, C1-C9) was established in the background of natural B. napus genotype “Oro”, after the restituted B. rapa (RBR) for Oro was realized. Herein, a monosomic substitution line with one alien C1 chromosome (Cs1) in the RBR complement was selected in the progenies of MAAL C1 and RBR, by the PCR amplification of specific gene markers and fluorescence in situ hybridization. Cs1 exhibited the whole plant morphology similar to RBR except for the defective stamens without fertile pollen grains, but it produced some seeds and progeny plants carrying the C1 chromosome at high rate besides those without the alien chromosome after pollination by RBR. The viability of the substitution and its progeny for the restituted B. rapa diploid further elucidated the functional compensation between the chromosome pairs with high homoeology. To reveal the impact of such aneuploidy on genome-wide gene expression, the transcriptomes of MAAL C1, Cs1 and euploid RBR were analyzed. Compared to RBR, Cs1 had sharply reduced gene expression level across chromosome A1, demonstrating the loss of one copy of A1 chromosome. Both additional chromosome C1 in MAAL and substitutional chromosome C1 in Cs1 caused not only cis-effect but also prevalent trans-effect differentially expressed genes. A dominant gene dosage effects prevailed among low expressed genes across chromosome A1 in Cs1, and moreover, dosage effects for some genes potentially contributed to the phenotype deviations. Our results provided novel insights into the transcriptomic perturbation and gene dosage effects on phenotype in chromosome substitution related to one naturally evolved allopolyploid.
2018-04-09 | GSE108122 | GEO
Project description:Chromosome-level assemblies of seven A. thaliana accessions using PacBio long-read sequencing.
| PRJEB31147 | ENA
Project description:Herein, we performed high-throughput technology to detect gene expression alterations of a whole set of nine Brassica rapa-oleracea monosonic alien addition lines (MAALs, C1-C9) in comparison of parental restituted B. rapa (RBR). Both MAALs and RBR obtained previously are in the background of natural B. napus genotype “Oro”. We found that, compared to diploid RBR, all the MAALs showed various degree of dysregulated expression genes resulting from cis-effect and more prevailing trans-effect. And trans-effect on gene expression in MAALs likely was increasing with the homology between recipient A genome and additional C chromosome instead of genes content of extra C chromosome. Totally, 10 trans-effect dysregulated expression genes mainly involved in the function of transporter activity were observed in all pairwise comparisons. Strikingly, highly expressed gene was more prone to down-regulated and opposite situation was observed for low expressed genes in all pairwise comparisons, suggesting this is a common character in transcriptional patterns response to aneuploidy.
2019-03-06 | GSE111510 | GEO
Project description:We present an atlas of global gene expression covering embryo and seed coat development in B. rapa, B. nigra, B. oleracea, B. juncea, B. napus and B. carinata, providing insights into the evolution of gene expression in embryogenesis and seed development of brassica species.
2021-08-22 | GSE153257 | GEO
Project description:Genome resequencing of Brassica rapa and Brassica oleracea accessions
| PRJNA312457 | ENA