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Olea europaea

ABSTRACT: Genome-wide identification of alternate bearing-associated miRNA in the olive tree (Olea europaea)

PROVIDER: PRJNA184000 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR636243.fastq.gz	Fastqsanger.gz
	SRR636244.fastq.gz	Fastqsanger.gz
	SRR636245.fastq.gz	Fastqsanger.gz
	SRR636246.fastq.gz	Fastqsanger.gz
	SRR636247.fastq.gz	Fastqsanger.gz

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Genome-wide identification of alternate bearing-associated miRNA in the olive tree (Olea europaea)

Project description:We aimed to identify miRNA regulated by alternate bearing in O. europaea. For this purpose, six olive (Olea europaea L. )(Ayvalık variety) small RNA libraries were constructed from fruits (ripe and unripe) and leaves ("on-year" and "off-year" mature -leaven in November and juvenile - leaven in July plants) and sequenced by high-throughput Illumina sequencing. Bioinformatics analyses of 93,526,915 reads identified 135 conserved miRNA, belonging to 22 miRNA families in olive tree. In addition, 38 novel miRNA were discovered in the datasets. Expression of olive tree miRNA varied greatly among the six libraries, indicating contribution of diverse miRNA in balancing between reproductive and vegetative phases. The differential expression of miRNA was evaluated on the basis of the developmental phase of the samples. Sequences of six olive miRNAs (Olea europaea L. )(Ayvalık variety) plants (ripe and unripe fruits, leaves of mature and juvenile plants of both "on-year" and "off-year") were generated by Illumina sequencing

2012-12-18 | E-GEOD-42978 | biostudies-arrayexpress

Genome-wide identification of alternate bearing-associated miRNA in the olive tree (Olea europaea)

2012-12-18 | GSE42978 | GEO

RNA-Seq study on root samples from Olea europaea cultivars

Project description:Cultivated olive tree (Olea europaea L. subsp. europaea var. europaea) is one of most relevant worldwide-extended crops. Since this plant has a huge effect on the economy of several regions, especially in those located in the Mediterranean basin, all efforts focused on its protection have a great relevance in agriculture sustainability. As all extended crops, olive tree cultivars are under the threat of a wide range of pathogens. Among them, Verticillium dahliae has been in the spotlight in the last decades because the disease caused by this soil-borne fungus (Verticillium wilt) is easily spread and can eventually kill the tree. In this line, many different factors have been studied in order to shed some light on the molecular/genetic mechanisms underlying the Olea europaea-Verticillium dahliae interaction, some of them focused on the gene expression pattern of the host. In this study, the expression pattern of roots from thirty-six O. europaea cultivars with different resistance/susceptibility degree to Verticillium wilt has been analyzed by RNA-Seq. As a result, processes involved in plant defense, transcription and root development have emerged as potential players in the differential response to Verticillium wilt of these cultivars. Additionally, a quite interesting set of 421 genes with an opposite expression pattern in those cultivars showing extreme resistance/susceptibility to Verticillium wilt has been discovered, establishing a solid group of candidates to take into account in future genetic improvement programs.

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Unravelling the influence of wild olive (Olea europaea L. subsp. europaea var. sylvestris) genotype on the tolerance level to Verticillium wilt.

Project description:The wild olive tree (Olea europaea L. subsp. europaea var. sylvestris) plays a crucial role in the future of olive cultivation, facing challenges such as climate change and emerging diseases. The selection of resistant varieties is among the most sustainable methods for controlling Verticillium wilt. We compared the transcriptomes from two oleaster cultivars with markedly different responses to V. dahliae, AC15 and AC18, susceptible and tolerant, respectively. The differences in the gene expression profile found between AC15 and AC18 stems may determine susceptibility to the disease in the stem tissue. These differences are reflected in the lignin composition of the cell wall.

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Nutrition metabolism plays an important role in the alternate bearing of the olive tree (Olea europaea L.)

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Project description:Nutrition metabolism plays an important role in the alternate bearing of the olive tree (Olea europaea L.)

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Nutrition metabolism plays an important role in the alternate bearing of the olive tree (Olea europaea L.)

Project description:We carried out genome wide transcriptome analyses in different organs and developmental stages of the olive tree using the NimbleGen Array oligonucleotide probe sets. Cluster analyses of the genes showed that samples collected from different organs could be sorted into separate groups. The nutritional control had a particularly remarkable impact on the alternate bearing for O. europaea, as shown by the differential expressions of transcripts under different developmental phases and organs Six sample sets were prepared for array analyses: i) unripe fruit (UF); ii) ripe fruit (RF); iii) “on-year” mature leaf (November sample, ON-M); iv) “on-year” juvenile leaf (July sample, ON-J); v) “off-year” mature leaf (November samples, OFF-M); and vi) “off-year” juvenile leaf (July sample, OFF-J).

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