Deep soil moisture has limited impact on mitigating drought stress effects on plant transpiration in a subtropical secondary forest

Plant and Soil, Journal Year: 2025, Volume and Issue: unknown

Published: March 26, 2025

Language: Английский

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Rapid diversification of alpine bamboos associated with the uplift of the Hengduan Mountains

Journal of Biogeography, Journal Year: 2019, Volume and Issue: 46(12), P. 2678 - 2689

Published: Sept. 30, 2019

Abstract Aim The Hengduan Mountains (HDM) of southwest China is a biodiversity hotspot and harbours one the world's richest temperate floras. However, origin evolution its biota remain largely unresolved. Here we explore impact mountain uplift on diversification process in this using alpine bamboos. Location HDM region, China. Taxon Alpine Methods We used ddRAD‐seq data from most complete sampling bamboos undertaken to date (79% species diversity), investigate their evolutionary history. ancestral area these was reconstructed time‐calibrated phylogeny BioGeoBEARS rates were inferred BAMM analyses. In addition, divergence evaluated trait‐dependent models diversification. Results strongly supported as monophyletic, relationships within them robustly resolved. Fargesia found be polyphyletic Yushania resolved monophyletic. originated outside region during late Miocene, spread Pliocene, undergoing significant acceleration net diversification, which temporally congruent with orogeny. speciation rate increased altitude high rate, estimated 0.75 per million years, detected for distributed elevations. Main Conclusions Our study demonstrates that heterogeneous habitats geographical isolation bamboos, have limited dispersal ability, are important drivers rapid This also highlights power complementary analyses revealing link between past geological changes.

Language: Английский

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Phylogenomic conflict resulting from ancient introgression following species diversification in Stewartia s.l. (Theaceae)

Molecular Phylogenetics and Evolution, Journal Year: 2019, Volume and Issue: 135, P. 1 - 11

Published: Feb. 23, 2019

Language: Английский

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Parallel ddRAD and Genome Skimming Analyses Reveal a Radiative and Reticulate Evolutionary History of the Temperate Bamboos

Systematic Biology, Journal Year: 2020, Volume and Issue: 70(4), P. 756 - 773

Published: Sept. 25, 2020

Rapid evolutionary radiations are among the most challenging phylogenetic problems, wherein different types of data (e.g., morphology and molecular) or genetic markers nuclear organelle) often yield inconsistent results. The tribe Arundinarieae, that is, temperate bamboos, is a clade tetraploid originated 22 Ma subsequently radiated in East Asia. Previous studies Arundinarieae have found conflicting relationships and/or low support. Here, we obtain from ddRAD for 213 taxa parallel sampling chloroplast genomes genome skimming 147 taxa. We first assess feasibility using ddRAD-seq estimates paleopolyploid rapidly lineages, optimize clustering thresholds, analysis workflow orthology identification. Reference-based assembly approaches perform well strongly supported generally concordant with morphology-based taxonomy. recover five major two which notable (the pachymorph leptomorph lineages), they correspond distinct rhizome morphologies. By contrast, phylogeny differed significantly. Based on multiple lines evidence, tree favored as best species estimation bamboos. Using time-calibrated tree, find diversified around mid-Miocene corresponding intensification Asian monsoon evolution key innovations including rhizomes. Our results provide highly resolved shed new light radiation reticulate history this tribe, an empirical example study recalcitrant plant radiations. [Arundinarieae; ddRAD; paleopolyploid; skimming; rapid diversification; incongruence.].

Language: Английский

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Phylogenomic analyses based on genome-skimming data reveal cyto-nuclear discordance in the evolutionary history of Cotoneaster (Rosaceae)

Molecular Phylogenetics and Evolution, Journal Year: 2021, Volume and Issue: 158, P. 107083 - 107083

Published: Jan. 28, 2021

Language: Английский

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Phylotranscriptomics of Theaceae: generic-level relationships, reticulation and whole-genome duplication

Annals of Botany, Journal Year: 2022, Volume and Issue: 129(4), P. 457 - 471

Published: Jan. 16, 2022

Theaceae, with three tribes, nine genera and more than 200 species, are of great economic ecological importance. Recent phylogenetic analyses based on plastomic data resolved the relationships among tribes intergeneric within two those tribes. However, generic-level largest tribe, Theeae, were not fully resolved. The role putative whole-genome duplication (WGD) events in family possible hybridization Theeae also remain to be tested further.Transcriptomes or low-depth sequencing 57 species as well additional plastome sequence data, generated. Using a dataset low-copy nuclear genes, we reconstructed using concatenated, tree network approaches. We further conducted molecular dating inferred WGD by examining distribution number synonymous substitutions per site (Ks) for paralogues each species. For plastid protein-coding sequences , phylogenies comparison results obtained from analysis dataset.Based 610 genes (858 606 bp length) investigated, Stewartieae was sister other Within Apterosperma-Laplacea clade grouped Pyrenaria, leaving Camellia Polyspora sister. estimated ages Theaceae largely consistent previous studies mainly data. Two reticulation one between common ancestor Gordonia Schima found. All members tea shared events, an older At-γ recent Ad-β; both outgroups (Diapensiaceae, Pentaphylacaceae, Styracaceae Symplocaceae).Our improved understanding at tribal generic levels previously proposed but position needs attention. There is no evidence extensive Theaceae-specific event. Land bridges (e.g. Bering land bridge) during Late Oligocene may have permitted intercontinental plant movements that facilitated ancient introgression Schima.

Language: Английский

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The early Oligocene establishment of modern topography and plant diversity on the southeastern margin of the Tibetan Plateau

Global and Planetary Change, Journal Year: 2022, Volume and Issue: 214, P. 103856 - 103856

Published: May 29, 2022

Language: Английский

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Understanding the Origin and Evolution of Tea (Camellia sinensis [L.]): Genomic Advances in Tea

Journal of Molecular Evolution, Journal Year: 2023, Volume and Issue: 91(2), P. 156 - 168

Published: March 1, 2023

Language: Английский

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Phylogenomic insights into the origin and evolutionary history of evergreen broadleaved forests in East Asia under Cenozoic climate change

Molecular Ecology, Journal Year: 2023, Volume and Issue: 32(11), P. 2850 - 2868

Published: Feb. 27, 2023

The evergreen versus deciduous leaf habit is an important functional trait for adaptation of forest trees and has been hypothesized to be related the evolutionary processes component species under paleoclimatic change, potentially reflected in dynamic history broadleaved forests (EBLFs) East Asia. However, knowledge about shift with impact change using genomic data remains rare. Here, we focus on Litsea complex (Lauraceae), a key lineage dominant EBLFs, gain insights into how shifted, providing origin historical dynamics EBLFs Asia Cenozoic climate change. We reconstructed robust phylogeny genome-wide single-nucleotide variants (SNVs) eight clades resolved. Fossil-calibrated analyses, diversification rate shifts, ancestral habit, ecological niche modelling reconstruction were employed estimate its pattern. Taking account studies other plant lineages dominating Asia, it was revealed that prototype probably emerged Early Eocene (55-50 million years ago [Ma]), facilitated by greenhouse warming. As response cooling drying Middle Late (48-38 Ma), habits evolved Up Miocene (23 prevailing Asian monsoon increased extreme seasonal precipitation accelerated emergence lineages, ultimately shaped vegetation resembling today.

Language: Английский

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Genome assembly of Stewartia sinensis reveals origin and evolution of orphan genes in Theaceae

Communications Biology, Journal Year: 2025, Volume and Issue: 8(1)

Published: March 3, 2025

Orphan genes play crucial roles in diverse biological processes, but the evolutionary trajectories and functional divergence remain largely unexplored. The Theaceae family, including economically culturally important tea plant, offers a distinctive model to examine these aspects. Here, we integrated Nanopore long-read sequencing, Illumina short-read Hi-C methods decode pseudo-chromosomal genome assembly of Stewartia sinensis, from earliest-diverging tribe Theaceae, spanning 2.95 Gb. Comparative genomic analysis revealed absence recent whole-genome duplication events ancestor, highlighting tandem duplications as predominant mechanism gene expansion. We identified 31,331 orphan genes, some which appear have ancient origins, suggesting early emergence with frequent gains losses, while others seem more specific recent. Notably, are distinguished by shorter lengths, fewer exons domains compared that originate much earlier, like transcription factors. Moreover, contributes significantly adaptive evolution characteristic diversity it is also major driving origination genes. This study illuminates dynamics providing valuable resource for understanding origin plant flavor enhancing genetic breeding efforts. nearly complete an early-diverging species, phylogenomic studies provide insights into Theaceae.

Language: Английский

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