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Transcriptomic profiling of fruits of four raspberry cultivars with different pigmentation

ABSTRACT: Transcriptomic profiling of fruits of four raspberry cultivars with different pigmentation

PROVIDER: PRJEB76470 | ENA |

REPOSITORIES: ENA

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Transcriptomic profiling of fruits of four raspberry cultivars with different pigmentation

Project description:The developing fruit harvested at three developmental stages, ‘unripe’, ‘turning’ and ‘mature’ from the four raspberry cultivars investigated, ‘Anitra’, Glen Ample’ and ‘Veten’ and ‘Varnes’ were used for gene expression analysis. The fruit of ‘Varnes’ shows a clear lack of red pigmentation at the ‘turning’ and ‘mature’ stages, with fruit displaying a yellow colour in the ‘unripe’ and ‘turning’ stages, turning apricot in colour when fully mature, in contrast to the red colouration of the other three cultivars. A total of 36 RNA libraries (four cultivars × three fruit developmental stages × three biological replicates) were paired-end sequenced.

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Project description:The cDNA of 4 Lilium cultivars were sequenced in this study in order to develop SNP markers for mapping purpose. The four selected cultivars represent the four main hybrid groups in Lilium which are (Asiatic, Oriental, Longiflorum, and Trumpet). The SNP markers developed of this study will be implemented in mapping and association studies that aims to find SNP markers linked to virus resistance in Lilium. To achieve this target, SNP markers were generated from each cultivar separately, and of the four cultivars together trying to cover as much as variation in each cultivar and also to find SNP markers that can distinguish the four cultivars. Doing so, we hope to identify different genes resistance to virus in the four hybrid groups of Lilium.

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The search of genetic resources for parthenocarpic pears and comparison of gene expression between high and low parthenocarpy cultivars

Project description:Parthenocarpy—the production of seedless fruits without fertilization—is very useful for fruit cultivation. Among pear cultivars (Japanese, Chinese, and European pears and their interspecific hybrids) subjected to flower emasculation and left unpollinated, only some of the European pears had a stable and high degree of fruit set and fruit enlargement. Almost all the enlarged fruits formed no seeds. Comparison of fruits produced by using emasculation without pollination or with self-pollination ruled out the possibility of stenospermocarpy in these parthenocarpic pears. The results suggested that the abovementioned characteristics were inherited maternally by the next generation and that it should be possible to introduce parthenocarpy into Japanese pears. Neither Chinese nor Japanese pears treated with emasculation and no pollination showed consistently stable fruit set or fruit enlargement. In Chinese pears, these characteristics varied greatly from year to year, and in Japanese pears they were stable but weak. Although in each cultivar highly parthenocarpic fruits weighed slightly less than cross-pollinated ones, the cortexes of the emasculated fruits were enlarged and the fruits were not greatly inferior to those of cross-pollinated ones. By using a customized pear cDNA microarray, we compared the gene expression profiles of highly and weakly parthenocarpic cultivars before flowering. Expression of several phenylpropanoid-related genes and photosystem-related genes differed significantly between the two groups. Some of these genes were contained in the chloroplast genome. These results showed the unique mechanism of genetic parthenocarpy in pome fruits as opposed to non-pome fruits.

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Genotyping by high throughput sequencing of four different cultivars of Lilium

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