A pharmacophylogenetic study of the Berberidaceae (s.l.)

Yong, Peng; Chen, Si‐Bao; Liu, Yong; Chen, Shilin; Xiao, Pei‐Gen

doi:10.1360/aps040149

Cited by 19 publications

(9 citation statements)

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“…The early-diverging eudicot family Berberidaceae is composed of a morphological diverse assemblage of genera ( Figure 1 ) long praised for their great horticultural ( Ahrendt, 1961 ; Stearn, 2002 ) and medicinal values ( Peng et al, 2006 ; Hao, 2018 ). Although more than 85% of the ca.…”

Section: Introductionmentioning

confidence: 99%

Mahonia vs. Berberis Unloaded: Generic Delimitation and Infrafamilial Classification of Berberidaceae Based on Plastid Phylogenomics

Hsieh

Yu-lan

et al. 2022

Front. Plant Sci.

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The early-diverging eudicot family Berberidaceae is composed of a morphologically diverse assemblage of disjunctly distributed genera long praised for their great horticultural and medicinal values. However, despite century-long studies, generic delimitation of Berberidaceae remains controversial and its tribal classification has never been formally proposed under a rigorous phylogenetic context. Currently, the number of accepted genera in Berberidaceae ranges consecutively from 13 to 19, depending on whether to define Berberis, Jeffersonia, and Podophyllum broadly, or to segregate these three genera further and recognize Alloberberis, Mahonia, and Moranothamnus, Plagiorhegma, and Dysosma, Diphylleia, and Sinopodophyllum, respectively. To resolve Berberidaceae’s taxonomic disputes, we newly assembled 23 plastomes and, together with 85 plastomes from the GenBank, completed the generic sampling of the family. With 4 problematic and 14 redundant plastome sequences excluded, robust phylogenomic relationships were reconstructed based on 93 plastomes representing all 19 genera of Berberidaceae and three outgroups. Maximum likelihood phylogenomic relationships corroborated with divergence time estimation support the recognition of three subfamilies Berberidoideae, Nandinoideae, and Podophylloideae, with tribes Berberideae and Ranzanieae, Leonticeae and Nandineae, and Podophylleae, Achlydeae, Bongardieae tr. nov., Epimedieae, and Jeffersonieae tr. nov. in the former three subfamilies, respectively. By applying specifically stated criteria, our phylogenomic data also support the classification of 19 genera, recognizing Alloberberis, Mahonia, and Moranothamnus, Plagiorhegma, and Diphylleia, Dysosma, and Sinopodophyllum that are morphologically and evolutionarily distinct from Berberis, Jeffersonia, and Podophyllum, respectively. Comparison of plastome structures across Berberidaceae confirms inverted repeat expansion in the tribe Berberideae and reveals substantial length variation in accD gene caused by repeated sequences in Berberidoideae. Comparison of plastome tree with previous studies and nuclear ribosomal DNA (nrDNA) phylogeny also reveals considerable conflicts at different phylogenetic levels, suggesting that incomplete lineage sorting and/or hybridization had occurred throughout the evolutionary history of Berberidaceae and that Alloberberis and Moranothamnus could have resulted from reciprocal hybridization between Berberis and Mahonia in ancient times prior to the radiations of the latter two genera.

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Section: Introductionmentioning

confidence: 99%

Mahonia vs. Berberis Unloaded: Generic Delimitation and Infrafamilial Classification of Berberidaceae Based on Plastid Phylogenomics

Hsieh

Yu-lan

et al. 2022

Front. Plant Sci.

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“…48 Phylogenomics is the crossing of evolutionary biology and genomics, in which genome data are utilized for evolutionary reconstructions. Pharmaphylogeny, advocated by Peigen Xiao since the 1980s, 101,102 focuses on the phylogenetic relationship of medicinal plants and aims to foster the sustainable utilization of TCM resources, and is thus nurtured by molecular phylogeny, chemotaxonomy, ethnopharmacology, and bioactivity studies (Fig. 6).…”

Section: Pharmacophylogeny Vs Pharmacophylogenomicsmentioning

confidence: 99%

Genomics and Evolution in Traditional Medicinal Plants: Road to a Healthier Life

Hao

Xiao

2015

Evol Bioinform Online

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Medicinal plants have long been utilized in traditional medicine and ethnomedicine worldwide. This review presents a glimpse of the current status of and future trends in medicinal plant genomics, evolution, and phylogeny. These dynamic fields are at the intersection of phytochemistry and plant biology and are concerned with the evolution mechanisms and systematics of medicinal plant genomes, origin and evolution of the plant genotype and metabolic phenotype, interaction between medicinal plant genomes and their environment, the correlation between genomic diversity and metabolite diversity, and so on. Use of the emerging high-end genomic technologies can be expanded from crop plants to traditional medicinal plants, in order to expedite medicinal plant breeding and transform them into living factories of medicinal compounds. The utility of molecular phylogeny and phylogenomics in predicting chemodiversity and bioprospecting is also highlighted within the context of natural-product-based drug discovery and development. Representative case studies of medicinal plant genome, phylogeny, and evolution are summarized to exemplify the expansion of knowledge pedigree and the paradigm shift to the omics-based approaches, which update our awareness about plant genome evolution and enable the molecular breeding of medicinal plants and the sustainable utilization of plant pharmaceutical resources.

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“…Chemotaxonomic results support the circumscription of the family proposed by Wu et al, who considered that the Berberidaceae should be treated as four independent families: Nandinaceae, Berberidaceae (s.s.), Podophyllaceae, and Leonticaceae (Peng et al, 2006). Phytochemically, the monotypic family Nandinaceae is characterized by a rich spectrum of benzylisoquinoline alkaloids (BIAs), such as berberine, palmatine, jatrorrhi zine, coptisine, magnoflorine, domesticine, nandinine, and protopine.…”

Section: Alkaloidmentioning

confidence: 99%