Jianfei Ye

Jianfei Ye
Sun Yat-sen University | SYSU · School of Ecology

Doctor of Philosophy

About

43
Publications
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1,311
Citations

Publications

Publications (43)
Article
Full-text available
High species diversity may result from recent rapid speciation in a ‘cradle’ and/or the gradual accumulation and preservation of species over time in a ‘museum’1,2. China harbours nearly 10% of angiosperm species worldwide and has long been considered as both a museum, owing to the presence of many species with hypothesized ancient origins3,4, and...
Article
Biogeographical regionalization schemes have traditionally been constructed based on taxonomic endemism of families, genera, and/or species, and rarely incorporated the phylogenetic relationships between taxa. However, phylogenetic relationships are important for understanding historical connections within and among biogeographical regions. Phyloge...
Article
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Diapensia is the second largest genus of Diapensiaceae. The taxonomic treatment within Diapensia and relationships within Diapensiaceae have been disputed. Chloroplast genome sequence data have proved to be useful for plant phylogenetic analyses and species delimitation. In this study, we de novo sequenced and assembled 22 chloroplast genomes of 15...
Article
Ethnopharmacological relevance Plants are a dominant source of pharmacological drugs for the treatment and cure of different disorders and diseases. However, selecting the most biologically active plant species for further screening is still challenging. Phylogeny has strong explanatory powers and provides predictive perspectives that are not avail...
Article
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Due to intensified human pressure and climate change, ex situ conservation measures have become essential for conserving Earth's remaining biodiversity, but the development of targeted ex situ conservation strategies based on conservation gaps analysis is often a major challenge. Here, we used a dated phylogeny including 95.70 % of the Chinese vasc...
Article
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How plants find a way to thrive in alpine habitats remains largely unknown. Here we present a chromosome-level genome assembly for an alpine medicinal herb, Triplostegia glandulifera (Caprifoliaceae), and 13 transcriptomes from other species of Dipsacales. We detected a whole-genome duplication event in T. glandulifera that occurred prior to the di...
Article
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Madagascar is a biogeographically unique island with a remarkably high level of endemism. However, endemic taxa in Madagascar are massively threatened due to unprecedented pressures from anthropogenic habitat modification and climate change. A comprehensive phylogeny-based biodiversity evaluation of the island remains lacking. Here, we identify hot...
Article
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Pterocarya (Juglandaceae) is disjunctly distributed in East Asia and the Caucasus region today, but its fossils are widely distributed in the Northern Hemisphere. We first inferred phylogeny with time estimation of Pterocarya under node‐dating (ND) based on plastomes of all eight extant species and tip‐dating (TD) based on plastomes and 69 morpholo...
Article
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Human society is at a critical point in biodiversity conservation. Assessing biodiversity spatiotemporal patterns provides vital insights into the evolutionary and ecological dynamics. Using comprehensive metrics, including species richness (SR), phylogenetic diversity (PD), phylogenetic endemism (PE), weighted endemism (WE), and standardize effect...
Article
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Background The Sino-Himalayan flora harbors highly diverse high-elevation biotas, but our understanding of its evolutionary history in temporal and spatial dimensions is limited. In this study, we integrated a dated phylogenetic tree with comprehensive species distribution data to investigate changes over time and space in floristic elements, inclu...
Article
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Cyphostemma , with ca. 200 species, is the second‐largest genus after Cissus in the grape family Vitaceae. Cyphostemma exhibits a high degree of morphological variation both between and within species that confounds species delimitation. Additional questions remain due to limited taxon sampling, original reference specimens damaged or lost and inco...
Article
Developing the agriculture of Chinese materia medica (CMM) is an effective way to meet the market demand and conserve wild medicinal plant resources. However, blind introduction and homogeneous competition have hindered the sustainable development of CMM agriculture. To address this issue, the commonly used medicinal plants were ranked based on the...
Conference Paper
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Biodiversity is vital to human survival and has become a global issue. The establishment of national parks is regarded as the most straight and effective means for biodiversity conservation. Although the theory of national park planning has been well studied, there is still a lack of an available national park planning tool. In this paper, NPPlanne...
Article
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Aim This study aimed to investigate the distribution patterns of plant diversity in Kenya, how climatic fluctuations and orogeny shaped them, and the formation of its β‐diversity. Location Kenya, East Africa. Taxon Angiosperms. Methods We quantified patterns of turnover and nestedness components of phylogenetic β‐diversity for angiosperm species...
Article
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Eastern Asia (EA) and North America north of Mexico (NA) have comparable latitude, land area, and climate, but the overall plant diversity is much higher in EA than in NA. Despite intensive studies on disjunct taxa of the two regions, the temporal and spatial diversity patterns between the two floras remain unclear. Here we explore the floristic di...
Article
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Over‐harvesting, habitat loss and fragmentation, and biological invasions have led to a sharp decline in wild medicinal plants population in China, where they are an essential component of traditional medicine and used widely. The current national list of protected medicinal materials, the State Key‐protected Wild Medicinal Species List, which has...
Article
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Lilacs (Syringa L.), a group of well-known ornamental and aromatic woody plants, have long been used for gardening, essential oils and medicine purposes in East Asia and Europe. The lack of knowledge about the complete genome of Syringa not only hampers effort to better understand its evolutionary history, but also prevents genome-based functional...
Article
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Lamiaceae (Labiatae) are one of the most important medicinal plant families having a wide variety of plants with traditional medicinal uses. The medicinal species of Lamiaceae are mainly used for musculoskeletal, skin, circulatory and digestive disorders in traditional Chinese medicines (TCMs). The purpose of this study was to provide a phylogeneti...
Article
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Plant diversity conservation and resource utilization are closely related to national strategies and decisions on ecological civilization construction,rural revitalization,etc. Therefore,it is urgent to identify natural protection areas and develop resource utilization plans. In this paper,spatial patterns of species richness,endemic species richne...
Article
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It has been 100 years since the study of plant geography began in China, and the discipline is now thriving. Particularly as the sequencing and bioinformatics techniques developed in the last three decades, great achievements have been obtained with the interdisciplinary integration of taxonomy, evolution and ecology. These advances can be conclude...
Article
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The flora of China is well known for its high diversity and endemism. Identifying centers of endemism and designating conservation priorities are essential goals for biodiversity studies. However, there is no comprehensive study from a rigorous phylogenetic perspective to understand patterns of diversity and endemism and to guide biodiversity conse...
Article
Full-text available
Eastern Asia (EA) and North America north of Mexico (NA) have comparable latitude, land area, and climate, but the overall plant diversity is much higher in EA than in NA. Despite intensive studies on disjunct taxa of the two regions, the temporal and spatial diversity patterns between the two floras remain unclear. Here we explore the floristic di...
Article
Full-text available
Medicinal plants are the primary material basis for disease prevention and treatment in traditional Chinese medicine (TCM). The conservation and sustainable utilization of these medicinal plants is critical for the development of the TCM industry. However, wild medicinal plant resources have sharply declined in recent decades. To ameliorate the sho...
Article
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Aim Elevation is an important factor that influences bioregionalisation in mountainous areas, but its effects are not well known. Taking the Sino‐Himalayan flora as a case, we aimed to test the effect of elevation on bioregionalisation and provide a regionalisation scheme of the Sino‐Himalayan flora. Location The Sino‐Himalaya (East Himalaya, the...
Article
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Pternopetalum paucifoliolatum, a new species from Sixigou Scenic Area, Emeishan City, Sichuan Province, is proposed and described. Diagnostic morphological characters, full description, detailed illustrations, and a distribution map are provided. The new species is similar to P. porphyronotum in possessing the 1-pinnate leaves and the abaxially pur...
Article
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In response to our paper on the evolutionary history of the Chinese flora, Qian suggests that certain features of the divergence time estimation employed might have led to biased conclusions in Lu et al (2018). Here, we consider Qian's specific criticisms, explore the extent of uncertainty in the data and demonstrate that (i) no systematic bias tow...
Article
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With the development of natural product research, phylogenetic framework provides a novel idea of how the knowledge of traditional medicinal plants can work and may be used in treatment of COVID-19. Traditional medicinal plants may have strong phylogenetic clustering, which can indicate that close relatives of plants with known biological activity...
Article
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Large‐scale phylogenies provide a framework for interdisciplinary investigations in taxonomy, evolutionary biology, biogeography, ecology, and conservation. Integration of regional tree of life and species distribution data has greatly promoted spatial phylogenetic studies on biodiversity, floristic assembly and biogeographic regionalization. In th...
Article
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For a quantitative biogeographical regionalization, the choice of an appropriate dissimilarity index to measure pairwise distances is crucial. Several different metrics have been used, but there is no specific study to test the impact of metric choice on biogeographical regionalization. We herein applied a hierarchical cluster analysis on the mean...
Article
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Current disjunct patterns can result from long-distance dispersal or postglacial contraction. We herein investigate the evolutionary history of Triplostegia to elucidate the disjunction between the Himalaya–Hengduan Mountain region (HHM) and Taiwan (TW). Genetic structure of Triplostegia was investigated for 48 populations using sequences from five...
Article
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Abstract: All known species of Angiosperms in China were evaluated according to the IUCN Red List Categories and Criteria: Version 3.1, Second edition and the Guidelines for Application of IUCN Red List Criteria at Regional and National Levels, Version 4.0. Of the 30,068 species evaluated, 21 species were found Extinct (EX), 9 species were Extinct...
Article
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In 2008, the Ministry of Environmental Protec-tion (MEP) in co-operation with Chinese Academy of Sciences (CAS) initiated work on a comprehensive new edition of the Red List of the Chinese flora. The project, named China Biodiversity Red List—Higher Plants, extended to 2013. We assessed the threatened status of all known species of higher plants in...
Article
Vaccinium glaucoalbum, a perennial evergreen shrub, is naturally distributed in high-altitude areas. In this study, the composition and content of polyphenolic compounds in the fruit and leaf of V. glaucoalbum were characterized. In total, 24 chemical compounds were detected and identified by HPLC-DAD and HPLC-ESI-MS². Among all the compounds deter...
Article
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We reconstructed a phylogenetic tree of Chinese vascular plants (Tracheophyta) using sequences of the chloroplast genes atpB, matK, ndhF, and rbcL and mitochondrial matR. We produced a matrix comprising 6098 species and including 13 695 DNA sequences, of which 1803 were newly generated. Our taxonomic sampling spanned 3114 genera representing 323 fa...
Article
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Disjunct distributional patterns and the formative mechanisms resulting in distinct flora has been an important focus in the field of phytogeography. In this study, we compared vascular plant checklists of the Chinese mainland and Taiwan, and analyzed the formation mechanisms of the discontinuous taxa between southwestern area and Taiwan area in Ch...

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