Organellar phylogenomics at the epidendroid orchid base, with a focus on the mycoheterotrophic Wullschlaegelia DOI
Craig F. Barrett, Matthew C. Pace,

Cameron W. Corbett

et al.

Annals of Botany, Journal Year: 2024, Volume and Issue: unknown

Published: May 28, 2024

Abstract Background and Aims Heterotrophic plants have long been a challenge for systematists, exemplified by the base of orchid subfamily Epidendroideae, which contains numerous mycoheterotrophic species. Methods Here we address utility organellar genomes in resolving relationships at epidendroid base, specifically employing models heterotachy, or lineage-specific rate variation over time. We further conduct comparative analyses plastid genome evolution heterotrophs structural matK. Key Results present first complete (plastomes) Wullschlaegelia, sole genus tribe Wullschlaegelieae, revealing highly reduced 37 kb, retains fraction genes related autotrophs. Plastid phylogenomic recovered strongly supported clade composed exclusively species with branches. analysed mitochondrial gene sets, similar to those other studies using nuclear data, but placement Wullschlaegelia remains uncertain. conducted plastome among heterotrophic orchids, suite correlated substitutional changes relative autotrophic Lastly, investigated evolutionary matK, is retained few ‘late stage’ found evidence conservation despite rapid substitution rates both leafless Gastrodia. Conclusions Our reveal limits what can tell us on this part tree, even when applying parameter-rich heterotachy models. study underscores need increased taxon sampling across all three illustrates research addressing analyses.

Language: Английский

Phylogenomics and intergenomic conflict in a challenging orchid clade (Calypsoinae): monophyly of Corallorhiza, paraphyly of Oreorchis, and resurrection of Kitigorchis DOI
Craig F. Barrett, John V. Freudenstein, Samuel V. Skibicki

et al.

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

Citations

1
Orchid phylogenetics and evolution: history, current status and prospects DOI Creative Commons
John V. Freudenstein

Annals of Botany, Journal Year: 2024, Volume and Issue: 135(5), P. 805 - 822

Published: Nov. 15, 2024

Orchidaceae are one of the two largest families angiosperms; they exhibit a host changes - morphological, ecological and molecular that make them excellent candidates for evolutionary study. Such studies most effectively performed in phylogenetic context, which provides direction to character change. Understanding orchid relationships began pre-evolutionary classification systems 1800s, were based solely on morphology, now is largely genomic analysis. The resulting patterns have been used update family test many hypotheses family. Recent analyses with dense sampling large numbers nuclear loci yielded well-supported trees confirmed longstanding overturned others. They being understand change diversification These include dating origination family, analysis habit (from terrestrial epiphytic back again some cases), revealing significant plastid genome leafless holomycotrophs, studying biogeographic various parts world, interpreting fungal associations orchids. has progressed significantly recent decades, especially since DNA sequence data available. contributed an increasingly refined orchids pattern facilitated evolution Whole-genome just beginning promise reveal fine-level details underlying structure function these plants, and, when set provide much richer understanding how so successful diversification.

Language: Английский

Citations

3
Organellar phylogenomics at the epidendroid orchid base, with a focus on the mycoheterotrophic Wullschlaegelia DOI
Craig F. Barrett, Matthew C. Pace,

Cameron W. Corbett

et al.

Annals of Botany, Journal Year: 2024, Volume and Issue: unknown

Published: May 28, 2024

Abstract Background and Aims Heterotrophic plants have long been a challenge for systematists, exemplified by the base of orchid subfamily Epidendroideae, which contains numerous mycoheterotrophic species. Methods Here we address utility organellar genomes in resolving relationships at epidendroid base, specifically employing models heterotachy, or lineage-specific rate variation over time. We further conduct comparative analyses plastid genome evolution heterotrophs structural matK. Key Results present first complete (plastomes) Wullschlaegelia, sole genus tribe Wullschlaegelieae, revealing highly reduced 37 kb, retains fraction genes related autotrophs. Plastid phylogenomic recovered strongly supported clade composed exclusively species with branches. analysed mitochondrial gene sets, similar to those other studies using nuclear data, but placement Wullschlaegelia remains uncertain. conducted plastome among heterotrophic orchids, suite correlated substitutional changes relative autotrophic Lastly, investigated evolutionary matK, is retained few ‘late stage’ found evidence conservation despite rapid substitution rates both leafless Gastrodia. Conclusions Our reveal limits what can tell us on this part tree, even when applying parameter-rich heterotachy models. study underscores need increased taxon sampling across all three illustrates research addressing analyses.

Language: Английский

Citations

2