Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Vernalization mediated changes in the Lolium perenne transcriptome

ABSTRACT: Falster is a Danish perennial ryegrass ecotype with strong vernalization requirement, while Veyo is an Italian variety with no requirement for vernalization in order to flower. The transcriptome of these two perennial ryegrass genotypes with contrasting vernalization requirements was studied during primary (vernalization and short day conditions), and secondary induction (higher temperature and long day conditions) using an RNA-Seq approach, in order to reveal transcripts with expression profiles indicative of a role in floral induction, both in the promotion and repression of flowering.

INSTRUMENT(S): Illumina Genome Analyzer II

ORGANISM(S): Lolium perenne

SUBMITTER: Cristiana Paina

PROVIDER: E-MTAB-2623 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Project description:Whole-transcriptome sequencing of luminal epithelial cells was performed in order to profile the transcriptomic response to infection and to elucidate the immune response signaling capability of milk producing epithelial cells. Primary goat mammary epithelial cell (pgMEC) culture model, mimicking the function of luminal cells in vivo, was established and infected with Mycoplasma agalactiae (Ma). After infection total RNA was extracted from the cells at different time-points post infection (PI) and sequenced using Illumina Gene Analyzer IIx. Four datasets were generated including controls and pgMECs challenged for 3 h, 12 h, and 24 h. The obtained 50 bp sequences were mapped against the bovine reference transcriptome. In addition to analysing individual genes for differential expression (DEG), we performed functional annotation of regulated genes to assess kinetics of the immune response on a more global scale. The DEGs were analysed for representative gene ontology (GO) enrichement terms, and biological processes as well as pathways regulated in response to Ma infection using different bioinformatic tools. The results show that in response to infection pgMECs are capable to induce genes involved in proinflammatory-cytokine signaling, activation of complement system, and can produce several bactericidal molecules of innate immune response. The pathway analyses revealed that in addition to immune response, the most regulated pathways were associated with lipid metabolism, apoptosis, transcription regulation, and cell cycle regulation. The obtained data is important for assessing the dynamics of the immune response signaling in MECs and opens new possibilities to idenitfy promising candidate genes, which could be beneficial for development of new therapeutic methods and introduction of a marker assisted selection towards enhanced mastitis resistance in breeding schemes. Transcriptome analysis of 12 samples; 3 replicated samples from control cells, and from cells 3 h, 12 h, and 24 h post infection.

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Vernalization mediated changes in the Lolium perenne transcriptome

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