RNA Biology

E-mail: michael.nodine(@)gmi.oeaw.ac.at
Phone: 0043 1 79044 9822
Research Group: www.gmi.oeaw.ac.at/research-groups/michael-nodine
Institution: Gregor Mendel Institute (GMI)

Full member of the DoktoratsKolleg (DK) RNA Biology since 2014 and of the Focus Regulatory RNA (SFB RNA Reg) since 2015.

PhD students within/associated with the DK RNA:

Aleksandra Plotnikova
Michael Schon

DK RNA Biology alumni & their thesis:

Stefan Lutzmayer: “Small interferring RNA dynamics and functions during Arabidopsis embryogenesis”

For complete list of group members please visit the Nodine group website.

Small RNA functions in plant embryos

The basic plant body plan is established during embryogenesis. However, despite its fundamental importance to both agriculture and developmental biology, the molecular mechanisms that regulate plant embryogenesis remain mostly uncharacterized. Studying the embryonic functions of regulatory RNAs will not only yield significant insights into the mechanistic basis of plant embryo development, but will also contribute to our general understanding of how regulatory RNAs influence cellular differentiation. For example, a class of ~21 nucleotide RNAs called microRNAs (miRNAs) play essential roles during plant embryo pattern formation and developmental timing. Interestingly, most plant embryonic miRNAs repress transcripts encoding transcription factors and other key developmental regulators. Our goal is to understand how small regulatory RNAs, including miRNAs, shape the gene regulatory networks that control plant embryogenesis. We will use a combination of cutting-edge experimental and computational approaches to achieve this aim.

Publications: (since 2014)

Transcriptional Activation of Arabidopsis Zygotes Is Required for Their Initial Division. (preprint)
Kao P and Nodine MD.
bioRivx:679035. 2019 June 21

MicroRNA Dynamics and Functions during Arabidopsis Embryogenesis. (preprint)
Plotnikova A, Kellner M, Mosiolek M, Schon M, Nodine MD.
bioRxiv:633735 2019 May 9

The embryonic transcriptome of Arabidopsis thaliana.
Hofmann F, Schon MA, Nodine MD.
Plant Reprod. 2019 Mar;32(1):77-91.

Stage-specific transcriptomes and DNA methylomes indicate an early and transient loss of transposon control in Arabidopsis shoot stem cells. (preprint)
Gutzat R, Rembart K, Nussbaumer T, Pisupati R, Hofmann Falko, Bradamante G, Daubel N, Gaidora A, Lettner N, Donà M, Nordborg M, Nodine MD, Mittelsten Scheid O.
bioRxiv:430447. 2018 Oct 5

NanoPARE: parallel analysis of RNA 5′ ends from low-input RNA.
Schon MA, Kellner MJ, Plotnikova A, Hofmann F, Nodine MD.
Genome Res. 2018 Dec;28(12):1931-1942.

Whole Mount in situ Localization of miRNAs and mRNAs During Somatic Embryogenesis in Arabidopsis.
Wójcik AM, Mosiolek M, Karcz J, Nodine MD, Gaj MD.
Front Plant Sci. 2018 Sep 4;9:1277.

A Common Pathway of Root Growth Control and Response to CLE Peptides Through Two Receptor Kinases in Arabidopsis.
Racolta A, Nodine MD, Davies K, Lee C, Rowe S, Velazco Y, Wellington R, Tax FE.
Genetics. 2018 Feb;208(2):687-704.

miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
Wójcik AM, Nodine MD, Gaj MD1.
Front Plant Sci. 2017 Dec 11;8:2024.

Novel small RNA spike-in oligonucleotides enable absolute normalization of small RNA-Seq data.
Lutzmayer S, Enugutti B, Nodine MD.
Sci Rep. 2017 Jul 19;7(1):5913.

Widespread Contamination of Arabidopsis Embryo and Endosperm Transcriptome Data Sets.
Schon MA, Nodine MD.
Plant Cell. 2017 Apr;29(4):608-617.

Sensitive whole mount in situ localization of small RNAs in plants.
Ghosh Dastidar M, Mosiolek M, Bleckmann A, Dresselhaus T, Nodine MD, Maizel A.
Plant J. 2016 Nov;88(4):694-702.

Mobile small RNAs: Sperm-companion communication.
Nodine MD.
Nat Plants. 2016 Apr 5;2:16041.

MicroRNA functions in plant embryos.
Vashisht D, Nodine MD.
Biochem Soc Trans. 2014 Apr;42(2):352-7