No Time To Read podcast

S3E6

Cell wall integrity and endomembrane trafficking

Guest: Natalie Hoffmann, McFarlane lab, University of Toronto

Host: Arif Ashraf, Assistant Professor, Department of Biology, Howard University

Twitter/X: @aribidopsis

No Time To Read podcast

S3E5

GRASSY TILLERS1 (GT1) and SIX-ROWED SPIKE1 (VRS1) homologs share conserved roles in growth repression

Guest: Joseph Gallagher, US Department of Agriculture (USDA), Agricultural Research Service (ARS)

Twitter/X: @Joe_P_Gallagher

Host: Arif Ashraf, Assistant Professor, Department of Biology, Howard University

Twitter/X: @aribidopsis

No Time To Read podcast

S3E4

Combined plant stress database

Guest: Muthappa Senthil-Kumar, Principal Investigator, National Institute of Plant Genome Research (NIPGR), India

Twitter/X: @SCIPdatabase

Host: Arif Ashraf, Assistant Professor, Department of Biology, Howard University

Twitter/X: @aribidopsis

No Time To Read podcast

S3E3

SHR and SCR coordinate root patterning and growth early in the cell cycle

Guest:

Cara Winter, Associate Research Professor, Duke University

Pablo Szekely, Postdoc, Benfey Lab, Duke University

Host: Arif Ashraf, Assistant Professor, Department of Biology, Howard University

Twitter/X: @aribidopsis

No Time To Read podcast

S3E2

The peptide GOLVEN10 alters root development and noduletaxis in Medicago truncatula

Guest: Sonali Roy, Assistant Professor, Department of Agricultural and Environmental Sciences, Tennessee State University

Twitter/X: @SonaliRoy_

Host: Arif Ashraf, Assistant Professor, Department of Biology, Howard University

Twitter/X: @aribidopsis

No Time To Read podcast

S3E1

Plant carbonic anhydrase-like enzymes in neuroactive alkaloid biosynthesis

Guest: Ryan Nett, Assistant Professor, Department of Molecular and cellular Biology, Harvard University

Twitter/X: @rnett42

Host: Arif Ashraf, Assistant Professor, Department of Biology, Howard University

Twitter/X: @aribidopsis

Season 3 of the No Time To Read podcast is starting soon. Thanks for your support as an audience.

Article: DNA methylation signatures of duplicate gene evolution in angiosperms

Journal: Plant Physiology

Year: 2023

Guest: Sunil Kenchanmane Raju

Host: Arif Ashraf

Abstract

Gene duplication is a source of evolutionary novelty. DNA methylation may play a role in the evolution of duplicate genes (paralogs) through its association with gene expression. While this relationship has been examined to varying extents in a few individual species, the generalizability of these results at either a broad phylogenetic scale with species of differing duplication histories or across a population remains unknown. We applied a comparative epigenomic approach to 43 angiosperm species across the phylogeny and a population of 928 Arabidopsis (Arabidopsis thaliana) accessions, examining the association of DNA methylation with paralog evolution. Genic DNA methylation was differentially associated with duplication type, the age of duplication, sequence evolution, and gene expression. Whole-genome duplicates were typically enriched for CG-only gene body methylated or unmethylated genes, while single-gene duplications were typically enriched for non-CG methylated or unmethylated genes. Non-CG methylation, in particular, was a characteristic of more recent single-gene duplicates. Core angiosperm gene families were differentiated into those which preferentially retain paralogs and “duplication-resistant” families, which convergently reverted to singletons following duplication. Duplication-resistant families that still have paralogous copies were, uncharacteristically for core angiosperm genes, enriched for non-CG methylation. Non-CG methylated paralogs had higher rates of sequence evolution, higher frequency of presence–absence variation, and more limited expression. This suggests that silencing by non-CG methylation may be important to maintaining dosage following duplication and be a precursor to fractionation. Our results indicate that genic methylation marks differing evolutionary trajectories and fates between paralogous genes and have a role in maintaining dosage following duplication.

Cover art design and audio editing: Ragib Anjum