Endemic plants are important for understanding phylogenetic relationships,biogeographical history,and genetic variation because of their restricted distribution and their role in conserving biodiversity.Here,we invest...Endemic plants are important for understanding phylogenetic relationships,biogeographical history,and genetic variation because of their restricted distribution and their role in conserving biodiversity.Here,we investigated the phylogenetic relationships of the Korean endemic Fraxinus chiisanensis by reconstructing the molecular phylogeny of Fraxinus based on two nuclear DNA(nrITS and phantastica)and two chloroplast DNA(psbA-trnH and rp132-trnL)regions.Within our fossil-calibrated phylogenetic framework,we also inferred the biogeographical history of F.chiisanensis.To provide a scientific basis for the conservation of F.chiisanensis,we determined the levels of genetic diversity and genetic differentiation in this species.Combining information from nuclear and chloroplast DNA sequence data,our molecular phylogenetic analyses identified F.chiisanensis as a genetically distinct unit from its sister group,Fraxinus platypoda from Japan.Our molecular dating analyses using nuclear and chloroplast DNA data sets show F.chiisanensis diverged from its sister F.platypoda in the Early or Middle Miocene and differentiated in the Late Miocene on the Korean Peninsula.Our results suggest that the divergence of F.chiisanensis was associated with the submergence of the East China Sea land bridge and enhanced monsoons in East Asia.When compared to F.platypoda,F.chiisanensis exhibits low genetic diversity within populations and high genetic differentiation among populations.These results help us to understand the evolutionary history of F.chiisanensis and to develop a conservation strategy for this species.展开更多
The cosmopolitan family Solanaceae,which originated and first diversified in South America,is economically important.The tribe Hyoscyameae is one of the three clades in Solanaceae that occurs outside of the New World;...The cosmopolitan family Solanaceae,which originated and first diversified in South America,is economically important.The tribe Hyoscyameae is one of the three clades in Solanaceae that occurs outside of the New World;Hyoscyameae genera are distributed mainly in Europe and Asia,and have centers of species diversity in the Qinghai-Tibet Plateau and adjacent regions.Although many phylogenetic studies have focused on Solanaceae,the phylogenetic relationships within the tribe Hyoscyameae and its biogeographic history remain obscure.In this study,we reconstructed the phylogeny of Hyoscyameae based on whole chloroplast genome data,and estimated lineage divergence times according to the newly reported fruit fossil from the Eocene Patagonia,Physalis infinemundi,the earliest known fossil of Solanaceae.We reconstructed a robust phylogeny of Hyoscyameae that reveals the berry fruit-type Atropa is sister to the six capsule-bearing genera(Hyoscyameae sensu stricto),Atropanthe is sister to the clade(Scopolia,Physochlaina,Przewalskia),and together they are sister to the robustly supported AnisoduseHyoscyamus clade.The stem age of Hyoscyameae was inferred to be in the Eocene(47.11 Ma,95%HPD:36.75e57.86 Ma),and the crown ages of Hyoscyameae sensu stricto were estimated as the early Miocene(22.52 Ma,95%HPD:15.19e30.53 Ma),which shows a close correlation with the rapid uplift of the Qinghai-Tibet Plateau at the Paleogene/Neogene boundary.Our results provide insights into the phylogenetic relationships and the history of the biogeographic diversification of the tribe Hyoscyameae,as well as plant diversification on the Qinghai-Tibet Plateau.展开更多
The complex orogeny of the Himalaya and the Qinghai-Tibet Plateau(QTP)fosters habitat fragmentation that drives morphological differentiation of mountain plant species.Consequently,determining phylogenetic relationshi...The complex orogeny of the Himalaya and the Qinghai-Tibet Plateau(QTP)fosters habitat fragmentation that drives morphological differentiation of mountain plant species.Consequently,determining phylogenetic relationships between plant subgenera using morphological characters is unreliable.Therefore,we used both molecular phylogeny and historical biogeographic analysis to infer the ancestral states of several vegetative and reproductive characters of the montane genus Incarvillea.We determined the taxonomic position of the genus Incarvillea within its family and inferred the biogeographical origin of taxa through Bayesian inference(BI),maximum likelihood(ML)and maximum parsimony(MP)analyses using three molecular data sets(trnL-trnF sequences,nr ITS sequences,and a data set of combined sequences)derived from 81%of the total species of the genus Incarvillea.Within the genus-level phylogenetic framework,we examined the character evolution of 10 key morphological characters,and inferred the ancestral area and biogeographical history of the genus.Our analyses revealed that the genus Incarvillea is monophyletic and originated in Central Asia during mid-Oligocene ca.29.42 Ma.The earliest diverging lineages were subsequently split into theWestern Himalaya and Sino-Himalaya during the early Miocene ca.21.12 Ma.These lineages resulted in five re-circumscribed subgenera(Amphicome,Olgaea,Niedzwedzkia,Incarvillea,and Pteroscleris).Moreover,character mapping revealed the ancestral character states of the genus Incarvillea(e.g.,suffruticose habit,cylindrical capsule shape,subligneous capsule texture,absence of capsule wing,and loculicidal capsule dehiscence)that are retained at the earliest diverging ancestral nodes across the genus.Our phylogenetic tree of the genus Incarvillea differs from previously proposed phylogenies,thereby recommending the placement of the subgenus Niedzwedzkia close to the subgenus Incarvillea and maintaining two main divergent lineages.展开更多
The fungus Ophiocordyceps sinensis is endemic to the vast region of the Qinghai-Tibetan plateau(QTP).The unique and complex geographical environmental conditions have led to the "sky island" distribution str...The fungus Ophiocordyceps sinensis is endemic to the vast region of the Qinghai-Tibetan plateau(QTP).The unique and complex geographical environmental conditions have led to the "sky island" distribution structure of O.sinensis.Due to limited and unbalanced sample collections,the previous data on O.sinensis regarding its genetic diversity and spatial structure have been deemed insufficient.In this study,we analyzed the diversity and phylogeographic structures of O.sinensis using internally transcribed spacer region(ITS) and 5-locus datasets by a large-scale sampling.A total of 111 haplotypes of ITS sequences were identified from 948 samples data of the fungus O.sinensis,with representing high genetic diversity,and 8 phylogenetic clades were recognized in O.sinensis.Both the southeastern Tibet and the northwestern Yunnan were the centers of genetic diversity and genetic differentiation of the fungus,and they were inferred as the glacial refugia in the Quaternary.Three distribution patterns were identified to correspond to the 8 clades,including but not limited to the coexistence of widely and specific local distributive structures.It also revealed that the differentiation pattern of O.sinensis did not fit for the isolation-by-distance model.The differentiation into the 8 clades occurred between 1.56 Myr and6.62 Myr.The ancestor of O.sinensis most likely originated in the late Miocene(6.62 Myr) in the northwestern Yunnan,and the Scene A-C of the Qinghai-Tibetan movements may have played an important role in the differentiation of O.sinensis during the late Miocene-Pliocene periods.Our current results provide a much clearer and detailed understanding of the genetic diversity and geographical spatial distribution of the endemic alpine fungus O.sinensis.It also revealed that the geochronology resulting from paleogeology could be cross-examined with biomolecular clock at a finer scale.展开更多
Here,we infer the historical biogeography and evolutionary diversification of the genus Lilium.For this purpose,we used the complete plastomes of 64 currently accepted species in the genus Lilium(14plastomes were newl...Here,we infer the historical biogeography and evolutionary diversification of the genus Lilium.For this purpose,we used the complete plastomes of 64 currently accepted species in the genus Lilium(14plastomes were newly sequenced)to recover the phylogenetic backbone of the genus and a timecalibrated phylogenetic framework to estimate biogeographical history scenarios and evolutionary diversification rates of Lilium.Our results suggest that ancient climatic changes and geological tectonic activities jointly shaped the distribution range and drove evolutionary radiation of Lilium,including the Middle Miocene Climate Optimum(MMCO),the late Miocene global cooling,as well as the successive uplift of the Qinghai-Tibet Plateau(QTP)and the strengthening of the monsoon climate in East Asia during the late Miocene and the Pliocene.This case study suggests that the unique geological and climatic events in the Neogene of East Asia,in particular the uplift of QTP and the enhancement of monsoonal climate,may have played an essential role in formation of uneven distribution of plant diversity in the Northern Hemisphere.展开更多
The Indo-Burma Biodiversity Hotspot is renowned for its rich biodiversity,including that of vascular plants.However,the fern diversity and its endemism in this hotspot have not been well understood and so far,the dive...The Indo-Burma Biodiversity Hotspot is renowned for its rich biodiversity,including that of vascular plants.However,the fern diversity and its endemism in this hotspot have not been well understood and so far,the diversity of very few groups of ferns in this region has been explored using combined molecular and morphological approaches.Here,we updated the plastid phylogeny of the Java fern genus Leptochilus with 226(115%increase of the latest sampling)samples across the distribution range,specifically those of three phylogenetically significant species,Leptochilus ovatus,L.pedunculatus,and L.pothifolius.We also reconstructed the first nuclear phylogeny of the genus based on pgiC gene data.Based on molecular and morphological evidence,we identified three new major clades and six new subclades,redefined three existing species,discovered a number of cryptic species of the genus,and elucidated the evolution of the three most variable characters.Our divergence time analyses and ancestral area reconstruction showed that Leptochilus originated in the Oligocene and diversified from early Miocene and 15 dispersal events from lower to higher latitudes are identified.The evolution of three most important morphological characters is analyzed in a context of the new phylogeny.Our analysis showed that 30(59%of total 51)species of Leptochilus occur in Indo-Burma hotspot,24(80%of the 30 species)of which are endemic to this hotspot.We argue that the Indo-Burma hotspot should be recognized as a diversity hotspot for ferns.展开更多
Naturally occurring in the subtropical regions of China to Korea,Chinese Holly(Ilex cornuta Lindl.&Paxton,Aquifoliaceae),is widely cultivated as an ornamental plant.However,the origins of the phenotypical diversit...Naturally occurring in the subtropical regions of China to Korea,Chinese Holly(Ilex cornuta Lindl.&Paxton,Aquifoliaceae),is widely cultivated as an ornamental plant.However,the origins of the phenotypical diversity of the species as well as its geographical history remain elusive.Here we report 50 exceptionally well-preserved fossil leaves of the I.cornuta lineage from the middle Miocene of South Korea.These fossils showcase delicate details,encompassing both adaxial and abaxial surfaces,as well as primary to quinternary venation patterns.The varied leaf morphologies,ranging from three to seven spines,demonstrate that these leaf morphologies of I.cornuta were established by the middle Miocene.Furthermore,fossil discoveries from the middle and late Miocene of Korea and China,coupled with the enduring presence of highly suitable habitats in Asia since the late Paleogene,suggest a longstanding persistence of the I.cornuta lineage in this region.The identification of closely related fossils from the Miocene to Pliocene of Europe implies potential floristic interchange between the continents,facilitated by the regression of the Turgai Strait in the Paleogene.This is consistent with the broad suitable habitat of the lineage,which once spanned Europe and Asia from the late Eocene to early Oligocene.Our study provides an example for integrating fossil records with ecological niche modelling to elucidate the biogeographical history of plants.展开更多
In 1998, a revolutionary system of angiosperm classification, the Angiosperm Phylogeny Group system was published. Meanwhile, another new system of classification of angiosperms, the eight-class system was proposed by...In 1998, a revolutionary system of angiosperm classification, the Angiosperm Phylogeny Group system was published. Meanwhile, another new system of classification of angiosperms, the eight-class system was proposed by C.Y. Wu and colleagues based on long term work on the flora of China. The Flora Reipublicae Popularis Sinicae project was initiated in 1959 and completed by 2004. It is the largest Flora so far completed in the world, including 31 228 species of vascular plants, or one-eighth of the global plant diversity. The English-language and updated Flora of China （FOC） is an international joint effort initiated in 1988 and accelerated in 1998. Up to now, 15 of the 24 volumes of the FOC have been published. Based on the floristic data, the composition, characteristics, floristic divisions and affinities of the flora of China have been studied by Wu and colleagues since 1965. In the past 10 years, analyses of the available floristic data have been very productive. The East Asiatic Floristic Kingdom was proposed in 1998. All 346 families of angiosperms in China, according to the eight-class system of classification, were comprehensively discussed by using knowledge of current and historical distribution of seed plants in the world, together with some morphological and molecular data. A scheme of distribution patterns or areal-types of families and genera of seed plants in China was modified and elucidated, together with a proposed scheme of areal-types of the world. Molecular phylogenetic and biogeographical studies of angiosperms in China in the past 10 years also witnessed a progressive development. Integration of morphological and molecular data and fossil evidence revealed some significant results. Eastern Asia, which used to be regarded as an important center of survival during the ice age, is likely an important center of diversification of angiosperms.展开更多
The Qinghai‐Tibet Plateau（QTP）is an important center of origin and diversification for many northern temperate plants.The hypothesis＂out‐of‐QTP＂suggests that the majority of northern temperate plants have origi...The Qinghai‐Tibet Plateau（QTP）is an important center of origin and diversification for many northern temperate plants.The hypothesis＂out‐of‐QTP＂suggests that the majority of northern temperate plants have originated and dispersed from the QTP and adjacent regions.An interesting question is whether the biogeographic history of the platycodonoids（Campanulaceae）,a group mainly distributed in the QTP and adjacent regions,coincides with the hypothesis＂out‐of‐QTP＂？Furthermore,how have the diagnostic characters of the platycodonoids evolved？In the present study,all 10genera of the platycodonoids were sampled for molecular phylogeny and dating analyses,and ancestral states of distribution and characters were reconstructed.The results do not support the platycodonoids as an＂out‐of‐QTP＂group,but instead they might have descended from Tethyan ancestors.The dispersal and diversification of the platycodonoids in Asia might have been driven by the uplift of the QTP.The present study highlights the importance of the Tethyan Tertiary flora for the origin of the Sino‐Himalayan flora and the influence of the uplift of QTP on diversification of northern temperate plants.In addition,character state reconstruction reveals that the inferior ovary,capsule,long‐colpate pollen,and chromosome number 2n=14 are probably ancestral states.展开更多
The genus Clematis(Ranunculaceae)comprises over 300 species with remarkable morphological and ecological diversity worldwide.Despite its horticultural,medicinal,and ecological importance,a well-resolved phylogeny and ...The genus Clematis(Ranunculaceae)comprises over 300 species with remarkable morphological and ecological diversity worldwide.Despite its horticultural,medicinal,and ecological importance,a well-resolved phylogeny and coherent infrageneric classification are still lacking.Here,we reconstruct a robust phylogeny for Clematis using a phylogenomic approach and revise its infrageneric taxonomy.We incorporated 198 samples representing 151 species,two subspecies,and 12 varieties,covering all subgenera and most sections worldwide,obtained from both fresh and herbarium material.Nuclear single nucleotide polymorphisms(SNPs)and complete plastid genomes were assembled for phylogenetic analyses.We also prepared a nuclear ribosomal ITS(nrITS)dataset comprising 171 species,two subspecies,and 12 varieties(217 samples)to include as many species as possible for phylogenetic inference.Phylogenies based on plastid genomes and nrITS exhibited limited resolution and modest support,highlighting challenges in resolving certain relationships.Nuclear SNP analyses yielded a robust phylogenetic tree with 22 well-supported clades corresponding to 22 sections,with most previously recognized subgenera and sections not recovered as monophyletic.Ancestral state reconstruction of 12 key morphological characters revealed multiple independent origins of character states.This study presents the first comprehensive sectional classification for Clematis based on robust phylogenomic evidence,redefines morphological characteristics for each section,and resolves long-standing taxonomic ambiguities.Our results establish a framework for future studies on the evolution,ecology,and horticultural potential of this globally significant genus.展开更多
Non-native plants are increasingly recognized as ecosystem engineers across a wide range of ecosystems.While their impacts on understory composition have been widely documented,consequences for community assembly rema...Non-native plants are increasingly recognized as ecosystem engineers across a wide range of ecosystems.While their impacts on understory composition have been widely documented,consequences for community assembly remain largely unexplored.We investigated the engineering impacts of Sorbaria sorbifolia,a naturalized Rosaceae shrub,on abiotic conditions and understory community assembly in Central European forests.Across 60 plots spanning coniferous and deciduous stands,we quantified light availability,organic layer C/N ratio and thickness,and understory functional diversity along an invasion gradient.Using ordination and linear regression,we found that increasing S.sorbifolia cover reduced light availability,thickened the organic layer,and altered C/N ratio in contrasting,forest-type-specific ways.In coniferous stands,invasion increased C/N and strongly suppressed understory light,whereas in deciduous stands it reduced C/N with weaker shading effects.These changes translate into consistent declines in functional richness and dispersion,particularly in coniferous forests where invasion led to homogenization of the understory.Trait shifts indicated stronger habitat filtering under invasion,with declines in specific leaf area(SLA)and increases in leaf dry matter content and seed mass,reflecting exclusion of light-demanding species and persistence of stress-tolerant taxa and woody seedlings.Remarkably,once S.sorbifolia exceeded~50%cover,positive relationships between habitat properties and understory functional diversity collapsed,replaced by uniform light limitation.This threshold effect highlights S.sorbifolia as an ecosystem engineer,capable of transforming forest structure and regeneration trajectories.Early detection and management are therefore crucial to prevent long-term homogenization and the formation of novel,invasion-driven forest states.展开更多
The global burden of cancer,with over 19 million new cases annually,underscores the urgent need for effective therapies.Among the most promising anticancer compounds is camptothecin(CPT),a monoterpene alkaloid predomi...The global burden of cancer,with over 19 million new cases annually,underscores the urgent need for effective therapies.Among the most promising anticancer compounds is camptothecin(CPT),a monoterpene alkaloid predominantly derived from Nothapodytes species.Despite its significantpharmaceutical value,the exploitation of such Threatened Plant Species with Widespread Distribution(TPSWD),particularly driven by the global demand for natural compounds in anticancer therapies,presents a paradox in which their widespread distribution fails to ensure their secure conservation status.Furthermore,the lack of in-depth biogeographic and systematic studies complicates efforts to balance resource utilization with biodiversity preservation.The asymmetric distribution of CPT within plant taxa,along with limited knowledge of its biosynthetic pathways and the enzymes and genes involved,further hampers sustainable production.Here,we review the current knowledge on the production and protection of Nothapodytes,focusing on their plant resources,active ingredients,and natural drug derivatives.We also explore strategies for rescuing and sustainably utilizing Nothapodytes,including biotechnological advancements and integrated conservation practices.Finally,we propose future directions to address conservation challenges,ensuring a sustainable supply of CPT while safeguarding these TPSWD species.展开更多
基金grants from the Korea National Arboretum(Grant no.KNA1-1-13,14-1)Gachon University(Grant no.2018-0320)to J-H Kim。
文摘Endemic plants are important for understanding phylogenetic relationships,biogeographical history,and genetic variation because of their restricted distribution and their role in conserving biodiversity.Here,we investigated the phylogenetic relationships of the Korean endemic Fraxinus chiisanensis by reconstructing the molecular phylogeny of Fraxinus based on two nuclear DNA(nrITS and phantastica)and two chloroplast DNA(psbA-trnH and rp132-trnL)regions.Within our fossil-calibrated phylogenetic framework,we also inferred the biogeographical history of F.chiisanensis.To provide a scientific basis for the conservation of F.chiisanensis,we determined the levels of genetic diversity and genetic differentiation in this species.Combining information from nuclear and chloroplast DNA sequence data,our molecular phylogenetic analyses identified F.chiisanensis as a genetically distinct unit from its sister group,Fraxinus platypoda from Japan.Our molecular dating analyses using nuclear and chloroplast DNA data sets show F.chiisanensis diverged from its sister F.platypoda in the Early or Middle Miocene and differentiated in the Late Miocene on the Korean Peninsula.Our results suggest that the divergence of F.chiisanensis was associated with the submergence of the East China Sea land bridge and enhanced monsoons in East Asia.When compared to F.platypoda,F.chiisanensis exhibits low genetic diversity within populations and high genetic differentiation among populations.These results help us to understand the evolutionary history of F.chiisanensis and to develop a conservation strategy for this species.
基金We thank Dr.Xiao-Feng Chi and Dr.Ofelia Vargas-Ponce for contributing the whole chloroplast genome sequences of Anisodus tanguticus(Maxim.)Pascher and Physalis philadelphica Lam.before the release in NCBI.This work was supported by the Beijing Natural Science Foundation(Grant No.5192012)National Natural Science Foundation of China(grant number 32070235)the China Scholarship Council(Grant No.201906515009)。
文摘The cosmopolitan family Solanaceae,which originated and first diversified in South America,is economically important.The tribe Hyoscyameae is one of the three clades in Solanaceae that occurs outside of the New World;Hyoscyameae genera are distributed mainly in Europe and Asia,and have centers of species diversity in the Qinghai-Tibet Plateau and adjacent regions.Although many phylogenetic studies have focused on Solanaceae,the phylogenetic relationships within the tribe Hyoscyameae and its biogeographic history remain obscure.In this study,we reconstructed the phylogeny of Hyoscyameae based on whole chloroplast genome data,and estimated lineage divergence times according to the newly reported fruit fossil from the Eocene Patagonia,Physalis infinemundi,the earliest known fossil of Solanaceae.We reconstructed a robust phylogeny of Hyoscyameae that reveals the berry fruit-type Atropa is sister to the six capsule-bearing genera(Hyoscyameae sensu stricto),Atropanthe is sister to the clade(Scopolia,Physochlaina,Przewalskia),and together they are sister to the robustly supported AnisoduseHyoscyamus clade.The stem age of Hyoscyameae was inferred to be in the Eocene(47.11 Ma,95%HPD:36.75e57.86 Ma),and the crown ages of Hyoscyameae sensu stricto were estimated as the early Miocene(22.52 Ma,95%HPD:15.19e30.53 Ma),which shows a close correlation with the rapid uplift of the Qinghai-Tibet Plateau at the Paleogene/Neogene boundary.Our results provide insights into the phylogenetic relationships and the history of the biogeographic diversification of the tribe Hyoscyameae,as well as plant diversification on the Qinghai-Tibet Plateau.
基金supported by the Second Tibetan Plateau Scientific Expedition and Research(STEP)Program(2019QZKK0502)the Strategic Priority Research Programof Chinese Academy of Sciences(XDA20050203)+2 种基金NSFC-Yunnan joint fund to support key projects(U1802242)the Major Program of the National Natural Science Foundation of China(31590823)the National Natural Science Foundation of China(31570203).
文摘The complex orogeny of the Himalaya and the Qinghai-Tibet Plateau(QTP)fosters habitat fragmentation that drives morphological differentiation of mountain plant species.Consequently,determining phylogenetic relationships between plant subgenera using morphological characters is unreliable.Therefore,we used both molecular phylogeny and historical biogeographic analysis to infer the ancestral states of several vegetative and reproductive characters of the montane genus Incarvillea.We determined the taxonomic position of the genus Incarvillea within its family and inferred the biogeographical origin of taxa through Bayesian inference(BI),maximum likelihood(ML)and maximum parsimony(MP)analyses using three molecular data sets(trnL-trnF sequences,nr ITS sequences,and a data set of combined sequences)derived from 81%of the total species of the genus Incarvillea.Within the genus-level phylogenetic framework,we examined the character evolution of 10 key morphological characters,and inferred the ancestral area and biogeographical history of the genus.Our analyses revealed that the genus Incarvillea is monophyletic and originated in Central Asia during mid-Oligocene ca.29.42 Ma.The earliest diverging lineages were subsequently split into theWestern Himalaya and Sino-Himalaya during the early Miocene ca.21.12 Ma.These lineages resulted in five re-circumscribed subgenera(Amphicome,Olgaea,Niedzwedzkia,Incarvillea,and Pteroscleris).Moreover,character mapping revealed the ancestral character states of the genus Incarvillea(e.g.,suffruticose habit,cylindrical capsule shape,subligneous capsule texture,absence of capsule wing,and loculicidal capsule dehiscence)that are retained at the earliest diverging ancestral nodes across the genus.Our phylogenetic tree of the genus Incarvillea differs from previously proposed phylogenies,thereby recommending the placement of the subgenus Niedzwedzkia close to the subgenus Incarvillea and maintaining two main divergent lineages.
基金supported by the National Natural Science Foundation of China(Grant Nos.31870017,31760011)the Science and Technology Development Fund of Guidance from the Central Government to Locals(KC1610530)+2 种基金the Department of Science and Technology of Yunnan Province(Grant Nos.2018IA075,2018FY001006)the Biodiversity Survey,the Assessment Project of the Ministry of Ecology and Environment,China(Grant No.2019HJ2096001006)the China Postdoctoral Science Foundation(Grant No.2017M613017)。
文摘The fungus Ophiocordyceps sinensis is endemic to the vast region of the Qinghai-Tibetan plateau(QTP).The unique and complex geographical environmental conditions have led to the "sky island" distribution structure of O.sinensis.Due to limited and unbalanced sample collections,the previous data on O.sinensis regarding its genetic diversity and spatial structure have been deemed insufficient.In this study,we analyzed the diversity and phylogeographic structures of O.sinensis using internally transcribed spacer region(ITS) and 5-locus datasets by a large-scale sampling.A total of 111 haplotypes of ITS sequences were identified from 948 samples data of the fungus O.sinensis,with representing high genetic diversity,and 8 phylogenetic clades were recognized in O.sinensis.Both the southeastern Tibet and the northwestern Yunnan were the centers of genetic diversity and genetic differentiation of the fungus,and they were inferred as the glacial refugia in the Quaternary.Three distribution patterns were identified to correspond to the 8 clades,including but not limited to the coexistence of widely and specific local distributive structures.It also revealed that the differentiation pattern of O.sinensis did not fit for the isolation-by-distance model.The differentiation into the 8 clades occurred between 1.56 Myr and6.62 Myr.The ancestor of O.sinensis most likely originated in the late Miocene(6.62 Myr) in the northwestern Yunnan,and the Scene A-C of the Qinghai-Tibetan movements may have played an important role in the differentiation of O.sinensis during the late Miocene-Pliocene periods.Our current results provide a much clearer and detailed understanding of the genetic diversity and geographical spatial distribution of the endemic alpine fungus O.sinensis.It also revealed that the geochronology resulting from paleogeology could be cross-examined with biomolecular clock at a finer scale.
基金financially supported by the National Natural Science Foundation of China(31872673)Yunnan Revitalization Talent Support Program“Top Team”Project(202305AT350001)the NSFC-Joint Foundation of Yunnan Province(U1802287)。
文摘Here,we infer the historical biogeography and evolutionary diversification of the genus Lilium.For this purpose,we used the complete plastomes of 64 currently accepted species in the genus Lilium(14plastomes were newly sequenced)to recover the phylogenetic backbone of the genus and a timecalibrated phylogenetic framework to estimate biogeographical history scenarios and evolutionary diversification rates of Lilium.Our results suggest that ancient climatic changes and geological tectonic activities jointly shaped the distribution range and drove evolutionary radiation of Lilium,including the Middle Miocene Climate Optimum(MMCO),the late Miocene global cooling,as well as the successive uplift of the Qinghai-Tibet Plateau(QTP)and the strengthening of the monsoon climate in East Asia during the late Miocene and the Pliocene.This case study suggests that the unique geological and climatic events in the Neogene of East Asia,in particular the uplift of QTP and the enhancement of monsoonal climate,may have played an essential role in formation of uneven distribution of plant diversity in the Northern Hemisphere.
基金supported by the Second Tibetan Plateau Scientific Expedition and Research(STEP)program(2019QZKK0502)a grant from Yunnan Fundamental Research Projects(Grant#202201BC070001)a Yunnan Revitalization Talent Support Program“Young Talent”Project and a CAS Scholarship to Liang Zhang.
文摘The Indo-Burma Biodiversity Hotspot is renowned for its rich biodiversity,including that of vascular plants.However,the fern diversity and its endemism in this hotspot have not been well understood and so far,the diversity of very few groups of ferns in this region has been explored using combined molecular and morphological approaches.Here,we updated the plastid phylogeny of the Java fern genus Leptochilus with 226(115%increase of the latest sampling)samples across the distribution range,specifically those of three phylogenetically significant species,Leptochilus ovatus,L.pedunculatus,and L.pothifolius.We also reconstructed the first nuclear phylogeny of the genus based on pgiC gene data.Based on molecular and morphological evidence,we identified three new major clades and six new subclades,redefined three existing species,discovered a number of cryptic species of the genus,and elucidated the evolution of the three most variable characters.Our divergence time analyses and ancestral area reconstruction showed that Leptochilus originated in the Oligocene and diversified from early Miocene and 15 dispersal events from lower to higher latitudes are identified.The evolution of three most important morphological characters is analyzed in a context of the new phylogeny.Our analysis showed that 30(59%of total 51)species of Leptochilus occur in Indo-Burma hotspot,24(80%of the 30 species)of which are endemic to this hotspot.We argue that the Indo-Burma hotspot should be recognized as a diversity hotspot for ferns.
基金supported by the National Natural Science Foundation of China(No.42272024)Yunnan Basic Research Projects(No.202501AT070256)+2 种基金Science and Technology Department of Jilin Province(No.YDZJ202301ZYTS234)Jilin Normal University(No.Jishifu2021020)Yunnan Revitalization Talent Support Program"Young Talent"Project.
文摘Naturally occurring in the subtropical regions of China to Korea,Chinese Holly(Ilex cornuta Lindl.&Paxton,Aquifoliaceae),is widely cultivated as an ornamental plant.However,the origins of the phenotypical diversity of the species as well as its geographical history remain elusive.Here we report 50 exceptionally well-preserved fossil leaves of the I.cornuta lineage from the middle Miocene of South Korea.These fossils showcase delicate details,encompassing both adaxial and abaxial surfaces,as well as primary to quinternary venation patterns.The varied leaf morphologies,ranging from three to seven spines,demonstrate that these leaf morphologies of I.cornuta were established by the middle Miocene.Furthermore,fossil discoveries from the middle and late Miocene of Korea and China,coupled with the enduring presence of highly suitable habitats in Asia since the late Paleogene,suggest a longstanding persistence of the I.cornuta lineage in this region.The identification of closely related fossils from the Miocene to Pliocene of Europe implies potential floristic interchange between the continents,facilitated by the regression of the Turgai Strait in the Paleogene.This is consistent with the broad suitable habitat of the lineage,which once spanned Europe and Asia from the late Eocene to early Oligocene.Our study provides an example for integrating fossil records with ecological niche modelling to elucidate the biogeographical history of plants.
基金the State Key Basic Research and Development Plan of China (973 Program 2007CB411601) and the Yunnan Provincial Government through an Award for Prominent Contributions in Science and Technology to Professor Wu Zheng-Yi in 2001
文摘In 1998, a revolutionary system of angiosperm classification, the Angiosperm Phylogeny Group system was published. Meanwhile, another new system of classification of angiosperms, the eight-class system was proposed by C.Y. Wu and colleagues based on long term work on the flora of China. The Flora Reipublicae Popularis Sinicae project was initiated in 1959 and completed by 2004. It is the largest Flora so far completed in the world, including 31 228 species of vascular plants, or one-eighth of the global plant diversity. The English-language and updated Flora of China （FOC） is an international joint effort initiated in 1988 and accelerated in 1998. Up to now, 15 of the 24 volumes of the FOC have been published. Based on the floristic data, the composition, characteristics, floristic divisions and affinities of the flora of China have been studied by Wu and colleagues since 1965. In the past 10 years, analyses of the available floristic data have been very productive. The East Asiatic Floristic Kingdom was proposed in 1998. All 346 families of angiosperms in China, according to the eight-class system of classification, were comprehensively discussed by using knowledge of current and historical distribution of seed plants in the world, together with some morphological and molecular data. A scheme of distribution patterns or areal-types of families and genera of seed plants in China was modified and elucidated, together with a proposed scheme of areal-types of the world. Molecular phylogenetic and biogeographical studies of angiosperms in China in the past 10 years also witnessed a progressive development. Integration of morphological and molecular data and fossil evidence revealed some significant results. Eastern Asia, which used to be regarded as an important center of survival during the ice age, is likely an important center of diversification of angiosperms.
基金supported by the National Natural Science Foundation of China (31170175 31110103911)the National Science Infrastructure Platform Foundation of China (2013FY112100)
文摘The Qinghai‐Tibet Plateau（QTP）is an important center of origin and diversification for many northern temperate plants.The hypothesis＂out‐of‐QTP＂suggests that the majority of northern temperate plants have originated and dispersed from the QTP and adjacent regions.An interesting question is whether the biogeographic history of the platycodonoids（Campanulaceae）,a group mainly distributed in the QTP and adjacent regions,coincides with the hypothesis＂out‐of‐QTP＂？Furthermore,how have the diagnostic characters of the platycodonoids evolved？In the present study,all 10genera of the platycodonoids were sampled for molecular phylogeny and dating analyses,and ancestral states of distribution and characters were reconstructed.The results do not support the platycodonoids as an＂out‐of‐QTP＂group,but instead they might have descended from Tethyan ancestors.The dispersal and diversification of the platycodonoids in Asia might have been driven by the uplift of the QTP.The present study highlights the importance of the Tethyan Tertiary flora for the origin of the Sino‐Himalayan flora and the influence of the uplift of QTP on diversification of northern temperate plants.In addition,character state reconstruction reveals that the inferior ovary,capsule,long‐colpate pollen,and chromosome number 2n=14 are probably ancestral states.
基金funded by the National Natural Science Foundation of China(grant no.31670207).
文摘The genus Clematis(Ranunculaceae)comprises over 300 species with remarkable morphological and ecological diversity worldwide.Despite its horticultural,medicinal,and ecological importance,a well-resolved phylogeny and coherent infrageneric classification are still lacking.Here,we reconstruct a robust phylogeny for Clematis using a phylogenomic approach and revise its infrageneric taxonomy.We incorporated 198 samples representing 151 species,two subspecies,and 12 varieties,covering all subgenera and most sections worldwide,obtained from both fresh and herbarium material.Nuclear single nucleotide polymorphisms(SNPs)and complete plastid genomes were assembled for phylogenetic analyses.We also prepared a nuclear ribosomal ITS(nrITS)dataset comprising 171 species,two subspecies,and 12 varieties(217 samples)to include as many species as possible for phylogenetic inference.Phylogenies based on plastid genomes and nrITS exhibited limited resolution and modest support,highlighting challenges in resolving certain relationships.Nuclear SNP analyses yielded a robust phylogenetic tree with 22 well-supported clades corresponding to 22 sections,with most previously recognized subgenera and sections not recovered as monophyletic.Ancestral state reconstruction of 12 key morphological characters revealed multiple independent origins of character states.This study presents the first comprehensive sectional classification for Clematis based on robust phylogenomic evidence,redefines morphological characteristics for each section,and resolves long-standing taxonomic ambiguities.Our results establish a framework for future studies on the evolution,ecology,and horticultural potential of this globally significant genus.
文摘Non-native plants are increasingly recognized as ecosystem engineers across a wide range of ecosystems.While their impacts on understory composition have been widely documented,consequences for community assembly remain largely unexplored.We investigated the engineering impacts of Sorbaria sorbifolia,a naturalized Rosaceae shrub,on abiotic conditions and understory community assembly in Central European forests.Across 60 plots spanning coniferous and deciduous stands,we quantified light availability,organic layer C/N ratio and thickness,and understory functional diversity along an invasion gradient.Using ordination and linear regression,we found that increasing S.sorbifolia cover reduced light availability,thickened the organic layer,and altered C/N ratio in contrasting,forest-type-specific ways.In coniferous stands,invasion increased C/N and strongly suppressed understory light,whereas in deciduous stands it reduced C/N with weaker shading effects.These changes translate into consistent declines in functional richness and dispersion,particularly in coniferous forests where invasion led to homogenization of the understory.Trait shifts indicated stronger habitat filtering under invasion,with declines in specific leaf area(SLA)and increases in leaf dry matter content and seed mass,reflecting exclusion of light-demanding species and persistence of stress-tolerant taxa and woody seedlings.Remarkably,once S.sorbifolia exceeded~50%cover,positive relationships between habitat properties and understory functional diversity collapsed,replaced by uniform light limitation.This threshold effect highlights S.sorbifolia as an ecosystem engineer,capable of transforming forest structure and regeneration trajectories.Early detection and management are therefore crucial to prevent long-term homogenization and the formation of novel,invasion-driven forest states.
基金supported by the National Key R&D Program of China(2024YFF1306700)the Key Project of Basic Research of Yunnan Province,China(202301AS070001)the Regional Innovative Development Joint Fund of NSFC(U23A20149).
文摘The global burden of cancer,with over 19 million new cases annually,underscores the urgent need for effective therapies.Among the most promising anticancer compounds is camptothecin(CPT),a monoterpene alkaloid predominantly derived from Nothapodytes species.Despite its significantpharmaceutical value,the exploitation of such Threatened Plant Species with Widespread Distribution(TPSWD),particularly driven by the global demand for natural compounds in anticancer therapies,presents a paradox in which their widespread distribution fails to ensure their secure conservation status.Furthermore,the lack of in-depth biogeographic and systematic studies complicates efforts to balance resource utilization with biodiversity preservation.The asymmetric distribution of CPT within plant taxa,along with limited knowledge of its biosynthetic pathways and the enzymes and genes involved,further hampers sustainable production.Here,we review the current knowledge on the production and protection of Nothapodytes,focusing on their plant resources,active ingredients,and natural drug derivatives.We also explore strategies for rescuing and sustainably utilizing Nothapodytes,including biotechnological advancements and integrated conservation practices.Finally,we propose future directions to address conservation challenges,ensuring a sustainable supply of CPT while safeguarding these TPSWD species.
