Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 496717
Title Identification of novel small ncRNAs in pollen of tomato
Author(s) Bokszczanin, Kamila Lucia; Krezdorn, Nicolas; Fragkostefanakis, Sotirios; Müller, Sören; Rycak, Lukas; Chen, Yuanyuan; Hoffmeier, Klaus; Kreutz, Jutta; Paupière, M.J.; Chaturvedi, Palak; Iannacone, Rina; Müller, Florian; Bostan, Hamed; Chiusano, Maria Luisa; Scharf, Klaus Dieter; Rotter, Björn; Schleiff, Enrico; Winter, Peter
Source BMC Genomics 16 (2015). - ISSN 1471-2164 - 19 p.
Department(s) Laboratory of Plant Breeding
Publication type Refereed Article in a scientific journal
Publication year 2015
Keyword(s) Heat stress - Mature pollen - miRANDA - omiRas - Post-meiotic stage - sncRNA-seq - snoRNA - Tetrad stage - Tomato - tRNA

Background: The unprecedented role of sncRNAs in the regulation of pollen biogenesis on both transcriptional and epigenetic levels has been experimentally proven. However, little is known about their global regulation, especially under stress conditions. We used tomato pollen in order to identify pollen stage-specific sncRNAs and their target mRNAs. We further deployed elevated temperatures to discern stress responsive sncRNAs. For this purpose high throughput sncRNA-sequencing as well as Massive Analysis of cDNA Ends (MACE) were performed for three-replicated sncRNAs libraries derived from tomato tetrad, post-meiotic, and mature pollen under control and heat stress conditions. Results: Using the omiRas analysis pipeline we identified known and predicted novel miRNAs as well as sncRNAs from other classes, responsive or not to heat. Differential expression analysis revealed that post-meiotic and mature pollen react most strongly by regulation of the expression of coding and non-coding genomic regions in response to heat. To gain insight to the function of these miRNAs, we predicted targets and annotated them to Gene Ontology terms. This approach revealed that most of them belong to protein binding, transcription, and Serine/Threonine kinase activity GO categories. Beside miRNAs, we observed differential expression of both tRNAs and snoRNAs in tetrad, post-meiotic, and mature pollen when comparing normal and heat stress conditions. Conclusions: Thus, we describe a global spectrum of sncRNAs expressed in pollen as well as unveiled those which are regulated at specific time-points during pollen biogenesis. We integrated the small RNAs into the regulatory network of tomato heat stress response in pollen.

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