Toward a phylogenomic classification of magnoliids

American Journal of Botany, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 14, 2025

Magnoliids are a strongly supported clade of angiosperms. Previous phylogenetic studies based primarily on analyses limited number mostly plastid markers have led to the current classification magnoliids into four orders and 18 families. However, uncertainty remains regarding placement several For first comprehensive phylogenomic analysis as whole, we sampled 235 species from 199 (74%) genera representing all families most subfamilies tribes. We analyzed newly generated data Angiosperms353 probe set using both coalescent concatenation testing impact multiple filtering alignment strategies. While our results generally provide further support for previously established relationships in whole large including Annonaceae Lauraceae, they also new evidence ambiguous relationships. In particular, found position Hydnoraceae sister remainder Piperales, though was conflicting, resolved backbone among Myristicaceae. Different analytical strategies tended rather small effects branch topology. Although some by low gene recovery taxa significant tree conflict relationships, this study represents step toward reconstructing evolutionary history major lineage Based these results, present an updated magnoliids, recognizing 21 families, summarizing tribes, describing tribes

Language: Английский

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Complete genus‐level phylogenomics and new subtribal classification of the pantropical plant family Annonaceae

Taxon, Journal Year: 2024, Volume and Issue: 73(6), P. 1341 - 1369

Published: Oct. 9, 2024

Abstract Annonaceae is a major tropical plant family particularly diverse in rain forests of the world. Although classification and systematics has significantly improved over past decade, most recent was based on reduced set plastid markers incomplete genus‐level taxon sampling. This recognised 4 subfamilies 20 tribes. Yet, several important problems persisted, especially phylogenetic placement African genus Meiocarpidium , resolution intertribal relationships within subfamily Malmeoideae, tribe Miliuseae with 23 genera, contrasting liana Artabotrys when using nuclear versus data. Here, previously published Annonaceae‐specific bait kit, we generated for first time complete (108 taxa) phylogenomic tree 373 loci. We show that sister to Ambavioideae should be considered as not separate subfamily. recovered belonging Duguetieae, Xylopieae inferred data, two other Letestudoxa Pseudartabotrys . Finally, were able resolve Malmeoideae Miliuseae. Nevertheless, strong gene conflict mainly at backbone tribe, probably linked rapid diversification its origin, leading substantial lineage sorting. suggest this will hard resolve. Using novel framework recognize 25 subtribes, 21 new, improve infrafamilial Annonaceae.

Language: Английский

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Towards a phylogenomic classification of Magnoliidae

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

Published: Jan. 10, 2024

Premise: Magnoliidae are a strongly supported clade of angiosperms. Previous phylogenetic studies based primarily on analyses limited number mostly plastid markers have led to the current classification magnoliids into four orders and 18 families. However, uncertainty remains regarding placement several Methods: Here we present first comprehensive phylogenomic analysis as whole, sampling 235 species from 199 (74%) genera representing all families most previously accepted subfamilies tribes. We analyze newly generated data Angiosperms353 probe set using both coalescent concatenation testing impact multiple filtering alignment strategies. Results: While our results generally provide further support for established relationships in whole large including Annonaceae Lauraceae, they also new evidence ambiguous relationships. In particular, find position Hydnoraceae sister remainder Piperales and, time, resolve backbone among Myristicaceae. Conclusions: Although some by low gene recovery taxa significant tree conflict relationships, this study represents step towards reconstructing evolutionary history major lineage Based these results, an updated Magnoliidae, recognizing 21 families, summarizing tribes, describing tribes

Language: Английский

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Generating Spatialised and Seasonal Deep‐Time Palaeoclimatic Information: Integration Into an Environmental‐Dependent Diversification Model

Global Ecology and Biogeography, Journal Year: 2025, Volume and Issue: 34(4)

Published: April 1, 2025

ABSTRACT Aim Testing the impact of climate on diversification is a major goal evolutionary biology. Birth‐death models like palaeoenvironment‐dependent (PDD) models, for example, allow exploring potential correlations between dynamics and past environmental changes, such as temperature, among other abiotic variables. So far, studies have been limited to proxy‐derived global temperature trends, because these are only records that easily accessible almost continuous over multimillion‐year periods. Innovation In this study, we propose methodology generate spatialised and/or seasonal palaeotemperature time series. To do so, take advantage variables simulated by several ‘snapshots’ last 100 million years. Based hypothesis long‐term drift imprinted, some degree, all regional records, use record mean interpolation discrete simulations. We then evaluate possibility constraining PDD implemented in RPANDA, with hybrid assess if trends may be more relevant history given clade than used so far. Main Conclusions Our results show using series tend receive high statistical support. This offers promising perspectives refining our understanding evolution dynamics, calls continuing development deep‐time palaeoclimate modelling interdisciplinary studies.

Language: Английский

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Molecular phylogenetic analyses of Winitiinae (Annonaceae) shed light on the evolution of floral sex, with a new species of Sageraea from southern Thailand

Plant Systematics and Evolution, Journal Year: 2025, Volume and Issue: 311(3)

Published: May 1, 2025

Language: Английский

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Sequential diversification with Miocene extinction and Pliocene speciation linked to mountain uplift explains the diversity of the African rain forest clade Monodoreae (Annonaceae)

Annals of Botany, Journal Year: 2023, Volume and Issue: 133(5-6), P. 677 - 696

Published: Sept. 2, 2023

Abstract Background and Aims Throughout the Cenozoic, Africa underwent several climatic geological changes impacting evolution of tropical rain forests (TRFs). African TRFs are thought to have extended from east west in a ‘pan-African’ TRF, followed by events fragmentation during drier climate periods. During Miocene, cooling mountain uplift led aridification open habitats expanded at expense TRFs, which probably experienced local extinctions. However, plants, these drivers were previously inferred using limited taxonomic molecular data. Here, we tested impact on diversification within diverse clade Monodoreae (Annonaceae) composed 90 tree species restricted TRFs. Methods We reconstructed near-complete phylogenetic tree, based 32 nuclear genes, dated relaxed clocks fossil calibrations Bayesian framework. biogeographical history dynamics multiple birth–death models. Key Results originated East ~25 million years ago (Ma) toward Central Miocene. range contractions middle Miocene document important connections between West after 15–13 Ma. Our results indicated sudden extinction event late an increase speciation rates. Birth–death models suggested that elevation change (orogeny) is positively linked this clade. Conclusion as source species, possibly for plant diversity general. support ‘sequential scenario diversification’ increased triggered TRF Monodoreae. This was quickly forests, subsequently enhancing lagged resulting vicariance improved conditions. In contrast previous ideas, shown played positive role diversification.

Language: Английский

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Keetia gordonii sp. nov. (Rubiaceae - Vanguerieae) a new species of threatened forest liana from the littoral forest of Gabon

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

Published: April 19, 2024

Summary Keetia gordonii sp. nov. (Rubiaceae - Vanguerieae) a new species of forest liana from the littoral Gabon is formally described and illustrated as first endemic genus that country. On current evidence, appears to have three locations threatened by clearance. It provisionally assessed using IUCN 2012 standard Endangered (EN B2a,b(i-iv). The extremely distinctive within genus, showing several character states previously unrecorded in Keetia. currently unique its for massively thick, coriaceous leaf blades seen fruiting axillary branches (in this respect resembling Psydrax Gaertn., vs papery or rarely thinly other species), also globose, smooth pyrenes (vs ovoid, colliculose which lid crest so vestigial it almost imperceptible conspicuous species). tanniferous seed endosperm shows state being present continuous, solid layer outer part seed, rather than radial bands diffuse genus. However, there no doubt taxon best placed opposed due disc concealed deep inside calyx tube exposed), presence pyrene cap none) stipules lack well-developed keel present). Further, tanniniferous not recorded any tribe. assigned K. hispida group Guineo-Congolian Africa.

Language: Английский

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Truly the best of both worlds: Merging lineage‐specific and universal probe kits to maximize phylogenomic inference

Applications in Plant Sciences, Journal Year: 2024, Volume and Issue: 12(6)

Published: Sept. 25, 2024

Abstract Premise Hybridization capture kits are now commonly used for reduced representation approaches in genomic sequencing, with both universal and clade‐specific available. Here, we present a probe kit targeting 799 low‐copy genes the plant family Annonaceae. Methods This new version of combines original 469 from previous Annonaceae 334 Angiosperms353 kit. We also compare results obtained using our custom approach subset specimens. Parsimony‐informative sites maximum likelihood phylogenetic inference were assessed combined matrices genera Asimina Deeringothamnus . Results The Annonaceae799 derived have extremely high recovery rates. Off‐target reads detected. When evaluating size, proportion on‐ off‐target regions, number parsimony‐informative sites, incorporated panel generally outperformed Discussion demonstrated that sequences set variable relevant future studies on species‐level phylogenomics within‐species integration establishes connection between projects makes available population studies.

Language: Английский

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Keetia gordonii sp. nov. (Rubiaceae - Vanguerieae), a new species of threatened forest liana from Gabon

Kew Bulletin, Journal Year: 2024, Volume and Issue: unknown

Published: Oct. 9, 2024

Summary Keetia gordonii sp. nov. (Rubiaceae - Vanguerieae) a new species of forest liana from Gabon, is described and illustrated. The shows all the diagnostic characters , such as pyrenes opening by an apical cap seeds with tanniniferous endosperm, both which are unrecorded in other genera tribe, flowers long-exserted style erect anthers (usually) climbing habit. However, it unique genus for its corolla dense, appressed, brown hairs externally (vs glabrous or few towards apex), disk variously pubescent) continuous layer outer part areas forming radial bands, diffuse). assigned to hispida group Guineo-Congolian African species. It first endemic be although several others awaiting description. On current evidence, appears have six locations threatened clearance. provisionally assessed using IUCN (2012) standard Vulnerable [VU B2ab(i,ii,iii,iv,v)].

Language: Английский

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Taxonomy, systematics and conservation of the highly threatened and endemic Mexican genus Tridimeris (Annonaceae)

Plant Systematics and Evolution, Journal Year: 2024, Volume and Issue: 310(6)

Published: Dec. 1, 2024

Abstract Tridimeris is the only genus of Annonaceae endemic to Mexico, and since its description more than 150 years ago, has been largely ignored. Here, based on herbarium specimens a comprehensive phylogenomic study involving hundreds nuclear markers, first taxonomic revision (Annonaceae, Malmeioideae, subtribe Sapranthinae) presented. Ten species are recognized, six which newly described here. All exclusively found in Mexico's most humid forests, particularly montane cloud forest tropical rainforest. The morphologically distinguished from other neotropical genera by leaves with pocket domatia present axils secondary veins, dimerous flowers (two sepals four petals), basally fused ciliated margins, reduced number carpels per flower (1–5) large fleshy fruits (monocarps) numerous seeds. A highly resolved phylogenetic hypothesis provides strong support for relationships among species, forming two well-supported clades. Consequently, new sections proposed, namely sect. Zoque . detailed morphology presented, including pollen, relationships. Taxonomic treatments include synonyms, geographic ecological notes, comparisons similar preliminary assessment their conservation status. potentially threatened extinction eight assessed as Critically Endangered, makes it lineage Mexican trees. This emphasizes importance scientific collections invaluable sources data current revisions conservation. It formal invitation preserve basic research.

Language: Английский

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