Revisiting AGAMOUS-LIKE15, a Key Somatic Embryogenesis Regulator, Using Next Generation Sequencing Analysis in Arabidopsis

Sanjay Joshi, Hadia Awan, Priyanka Paul, Ran Tian, Sharyn E. Perry

Research output: Contribution to journalArticlepeer-review

3 Scopus citations

Abstract

AGAMOUS-like 15 (AGL15) is a member of the MADS-domain transcription factor (TF) family. MADS proteins are named for a conserved domain that was originally from an acronym derived from genes expressed in a variety of eukaryotes (MCM1-AGAMOUS-DEFICIENS-SERUM RESPONSE FACTOR). In plants, this family has expanded greatly, with more than one-hundred members generally found in dicots, and the proteins encoded by these genes have often been associated with developmental identity. AGL15 transcript and protein accumulate primarily in embryos and has been found to promote an important process called plant regeneration via somatic embryogenesis (SE). To understand how this TF performs this function, we have previously used microarray technologies to assess direct and indirect responsive targets of this TF. We have now revisited this question using next generation sequencing (NGS) to both characterize in vivo binding sites for AGL15 as well as response to the accumulation of AGL15. We compared these data to the prior microarray results to evaluate the different platforms. The new NGS data brought to light an interaction with brassinosteroid (BR) hormone signaling that was “missed” in prior Gene Ontology analysis from the microarray studies.

Original languageEnglish
Article number15082
JournalInternational Journal of Molecular Sciences
Volume23
Issue number23
DOIs
StatePublished - Dec 2022

Bibliographical note

Publisher Copyright:
© 2022 by the authors.

Keywords

  • MADS-domain protein
  • microarray
  • next generation sequencing
  • somatic embryo

ASJC Scopus subject areas

  • Catalysis
  • Molecular Biology
  • Spectroscopy
  • Computer Science Applications
  • Physical and Theoretical Chemistry
  • Organic Chemistry
  • Inorganic Chemistry

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