Evolutionary dynamics of the chromatophore genome in three photosynthetic Paulinella species

Scientific Reports
Duckhyun LheeHwan Su Yoon

Abstract

The thecate amoeba Paulinella is a valuable model for understanding plastid organellogenesis because this lineage has independently gained plastids (termed chromatophores) of alpha-cyanobacterial provenance. Plastid primary endosymbiosis in Paulinella occurred relatively recently (90-140 million years ago, Mya), whereas the origin of the canonical Archaeplastida plastid occurred >1,500 Mya. Therefore, these two events provide independent perspectives on plastid formation on vastly different timescales. Here we generated the complete chromatophore genome sequence from P. longichromatophora (979,356 bp, GC-content = 38.8%, 915 predicted genes) and P. micropora NZ27 (977,190 bp, GC-content = 39.9%, 911 predicted genes) and compared these data to that from existing chromatophore genomes. Our analysis suggests that when a basal split occurred among photosynthetic Paulinella species ca. 60 Mya, only 35% of the ancestral orthologous gene families from the cyanobacterial endosymbiont remained in chromatophore DNA. Following major gene losses during the early stages of endosymbiosis, this process slowed down significantly, resulting in a conserved gene content across extant taxa. Chromatophore genes faced relaxed selection when compared...Continue Reading

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Citations

Oct 7, 2018·Protoplasma·Pratishtha Vedalankar, Baishnab C Tripathy
May 14, 2020·Genome Biology and Evolution·Shannon J Sibbald, John M Archibald
Apr 15, 2020·Journal of Phycology·Arwa GabrDebashish Bhattacharya
Aug 14, 2020·Molecular Biology and Evolution·Duckhyun LheeHwan Su Yoon
Jan 30, 2021·Proceedings of the National Academy of Sciences of the United States of America·Vanessa KrauspeWolfgang R Hess
Apr 14, 2021·Current Biology : CB·Duckhyun LheeHwan Su Yoon
May 20, 2021·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Dave Speijer
May 22, 2021·The New Phytologist·Timothy G StephensDebashish Bhattacharya
Sep 3, 2021·Biological Reviews of the Cambridge Philosophical Society·Luděk KořenýJulius Lukeš
Oct 7, 2021·Molecular Biology and Evolution·Kavitha UthanumallianHeroen Verbruggen

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Methods Mentioned

BETA
Light microscopy
PCR

Software Mentioned

OrthoFinder
Excel
tRNAscan
PAL2NAL
Clustal Omega
TREE
MAFFT
MIRA
BEAST
Python

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