Phylogenomics and intergenomic conflict in a challenging orchid clade (Calypsoinae): monophyly of Corallorhiza, paraphyly of Oreorchis, and resurrection of Kitigorchis

Botanical Journal of the Linnean Society, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 17, 2025

Abstract Heterotrophic plants are among the most recalcitrant from a systematics perspective because of reduced morphological and genomic features, often extreme substitution rate heterogeneity. The orchid subtribe Calypsoinae exemplifies this, containing several lineages that have lost leaves photosynthesis. In particular, relationships leafy Asian Oreorchis leafless American Corallorhiza been contentious. Here we used nuclear sequence capture to resolve within addressed monophyly Oreorchis, for which previous studies highlighted conflicting patterns or paraphyly, depending on data analysed. Nuclear analyses provided strong support monophyletic paraphyletic latter with two strongly supported clades. As in studies, plastid recovered assemblages both genera. Topology tests using rejected constrained topologies, further revealing cytonuclear conflict. Network-based revealed lack evidence hybridization, suggesting incomplete lineage sorting associated biological historical factors driven intergenomic Additionally, found loci identified as putatively holomycotrophic species functionally enriched organellar functions. study provides case resurrection Kitigorchis sister Corallorhiza, species, erythrochrysea indica, highlights challenges phylogenetics mycoheterotrophs.

Language: Английский

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WHIRLY proteins, multi-layer regulators linking the nucleus and organelles in developmental and stress-induced senescence of plants

Annals of Botany, Journal Year: 2024, Volume and Issue: 134(4), P. 521 - 536

Published: June 7, 2024

Abstract Plant senescence is an integrated programme of plant development that aims to remobilize nutrients and energy from senescing tissues developing organs under developmental stress-induced conditions. Upstream in the regulatory network, a small family single-stranded DNA/RNA-binding proteins known as WHIRLYs occupy central node, acting at multiple levels via trans-localization between nucleus organelles. In this review, we summarize current progress on role WHIRLY members senescence. can be traced back evolution green algae. trade off balance through maintaining organelle genome stability R-loop homeostasis, repressing transcription configuration condition, recruiting RNA impact editing splicing, evidenced several species. also act retrograde signal transducers organelles protein modification stromule or vesicle trafficking. addition, interact with hormones, reactive oxygen species environmental signals orchestrate cell fate age-dependent manner. Finally, prospects for further research promotion improve crop production constraints are highlighted.

Language: Английский

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WHIRLY1 regulates aliphatic glucosinolate biosynthesis in early seedling development of Arabidopsis

The Plant Journal, Journal Year: 2024, Volume and Issue: unknown

Published: Dec. 3, 2024

SUMMARY WHIRLY1 belongs to a family of plant‐specific transcription factors capable binding DNA or RNA in all three plant cell compartments that contain genetic materials. In Arabidopsis thaliana , has been studied at the later stages development, including flowering and leaf senescence, as well biotic abiotic stress responses. this study, knockout mutants A. were prepared by CRISPR/Cas9‐mediated genome editing investigate role during early seedling development. The loss‐of‐function 5‐day‐old seedlings did not cause differences phenotype photosynthetic performance emerging cotyledons compared with wild type. Nevertheless, comparative sequencing analysis revealed affected expression small but specific set genes critical phase About 110 found be significantly deregulated mutant, wherein several involved steps aliphatic glucosinolate (GSL) biosynthesis suppressed wild‐type plants. downregulation these lines led decreased GSL contents seeds. Since catabolism mediated myrosinases was altered seed‐to‐seedling transition, results suggest AtWHIRLY1 plays major modulation addition, phylogenetic coincidence between evolution methionine‐derived GSLs addition new WHIRLY core families order Brassicales.

Language: Английский

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WHIRLY1 regulates aliphatic glucosinolate biosynthesis in early seedling development of Arabidopsis

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: April 15, 2024

Abstract WHIRLY1 belongs to a family of plant-specific transcription factors capable binding DNA or RNA in all three plant cell compartments that contain genetic materials. In Arabidopsis thaliana , has been studied at the later stages development, including flowering and leaf senescence, as well biotic abiotic stress responses. this study, knock-out mutants A. were prepared by CRISPR/Cas9 investigate role AtWHIRLY1 during early seedling development. The loss-of-function 5-day-old seedlings did not cause differences phenotype photosynthetic performance emerging cotyledons compared wild type. Nevertheless, comparative sequencing analysis revealed affected expression small but specific set genes critical phase About 110 found be significantly deregulated knockout mutant, wherein several involved steps aliphatic glucosinolate (aGSL) biosynthesis suppressed type plants. downregulation these line led decreased GSL contents seeds. We also examined myrosinase activity seed-seedling transition showed reduction aGSL is main reason for lowering content young seedlings. results suggest plays regulating Significance statement functions aspects development responses, however little known about its involvement Here we show stage, specifically regulates encoding enzymes pathway, leading

Language: Английский

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