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Distributional responses to climate change for alpine species of Cyananthus and Primula endemic to the Himalaya-Hengduan Mountains

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Plant Diversity 2019年第1期41卷 26-32页

作者： Xie He Kevin S. Burgess lian-ming gao De-Zhu Li Germplasm Bank of Wild Species Kunming Institute of Botany Chinese Academy of Sciences CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of Botany Chinese Academy of Sciences Kunming College of Life Sciences University of Chinese Academy of Sciences Department of Biology College of Letters & Sciences Columbus State University University System of Georgia

Global warming increases the vulnerability of plants, especially alpine herbaceous species, to local extinction. In this study, we collected species distribution information from herbarium specimens for ten selected Cyananthus and Primula alpine species endemic to the Himalaya-Hengduan Mountains(HHM).Combined with climate data from WorldClim, we used Maximum Entropy Modeling(MaxEnt) to project distributional changes from the current time period to 2070. Our predictions indicate that, under a wide range of climate change scenarios, the distributions of all species will shift upward in elevation and northward in latitude; furthermore, under these scenarios, species will expand the size of their range. For the majority of the species in this study, habitats are available to mitigate upward and northward shifts that are projected to be induced by changing climate. If current climate projections, however, increase in magnitude or continue to increase past our projection dates, suitable habitat for future occupation by alpine species will be limited as we predict range contraction or less range expansion for some of the species under more intensified climate scenarios. Our study not only underscores the value of herbarium source information for future climate model projections but also suggests that future studies on the effects of climate change on alpine species should include additional biotic and abiotic factors to provide greater resolution of the local dynamics associated with species persistence under a warming climate.

关键词： Global warming MaxEnt Range expansion Alpine species Himalaya-Hengduan Mountains

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Phylogenomics and the flowering plant tree of life

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Journal of Integrative Plant Biology 2023年第2期65卷 299-323页

作者： Cen Guo Yang Luo lian-ming gao Ting-Shuang Yi Hong-Tao Li Jun-Bo Yang De-Zhu Li Germplasm Bank of Wild Species Kunming Institute of Botanythe Chinese Academy of SciencesKunming 650201China CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of Botanythe Chinese Academy of SciencesKunming 650201China Lijiang Forest Diversity National Observation and Research Station Kunming Institute of BotanyChinese Academy of SciencesLijiang 674100China Kunming College of Life Science University of Chinese Academy of SciencesKunming 650201China

The advances accelerated by next-generation sequencing and long-read sequencing technologies continue to provide an impetus for plant phylogenetic *** the past decade,a large number of phylogenetic studies adopting hundreds to thousands of genes across a wealth of clades have emerged and ushered plant phylogenetics and evolution into a new *** the meantime,a roadmap for researchers when making decisions across different approaches for their phylogenomic research design is *** review focuses on the utility of genomic data(from organelle genomes,to both reduced representation sequencing and whole-genome sequencing) in phylogenetic and evolutionary investigations,describes the baseline methodology of experimental and analytical procedures,and summarizes recent progress in flowering plant phylogenomics at the ordinal,familial,tribal,and lower *** also discuss the challenges,such as the adverse impact on orthology inference and phylogenetic reconstruction raised from systematic errors,and underlying biological factors,such as whole-genome duplication,hybridization/introgression,and incomplete lineage sorting,together suggesting that a bifurcating tree may not be the best model for the tree of ***,we discuss promising avenues for future plant phylogenomic studies.

关键词： angiosperms hybridization incomplete lineage sorting orthology inference phylogenetic conflicts reduced representation sequencing whole-genome sequencing whole-genome duplication

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Incomplete reproductive isolation between Rhododendron taxa enables hybrid formation and persistence

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Journal of Integrative Plant Biology 2019年第4期61卷 433-448页

作者： Li-Jun Yan Kevin S.Burgess Wei Zheng Zhi-Bin Tao De-Zhu Li lian-ming gao Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of Botany the Chinese Academy of Sciences Germplasm Bank of Wild Species Kunming Institute of Botany the Chinese Academy of Sciences Kunming College of Life Science University of the Chinese Academy of Sciences College of Vocational and Technical Education Yunnan Normal University Department of Biology College of Letters & Sciences Columbus State University University System of Georgia

The evolutionary consequences of hybridization ultimately depend on the magnitude of reproductive isolation between hybrids and their parents. We evaluated the relative contributions of pre-and post-zygotic barriers to reproduction for hybrid formation, hybrid persistence and potential for reproductive isolation of hybrids formed between two Rhododendron species,R. spiciferum and R. spinuliferum. Our study established that incomplete reproductive isolation promotes hybrid formation and persistence and delays hybrid *** pre-zygotic barriers to reproduction leading to hybrid formation are incomplete: parental species have overlapping flowering; they share the same pollinators;reciprocal assessments of pollen tube germination and growth do not differ among parents. The absence of post-zygotic barriers between parental taxa indicates that the persistence of hybrids is likely. Reproductive isolation was incomplete between hybrids and parents in all cases studied, although asymmetric differences in reproductive fitness were prevalent and possibly explain the genetic structure of natural hybrid swarms where hybridization is known to be bidirectional but asymmetric. Introgression, rather than speciation, is a probable evolutionary outcome of hybridization between the two Rhododendron taxa. Our study provides insights into understanding the evolutionary implications of natural hybridization in woody plants.

关键词： Incomplete reproductive isolation Rhododendron taxa

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Nuclear phylogenomics of Asteraceae with increased sampling provides new insights into convergent morphological and molecular evolution

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Plant Communications 2024年第6期5卷 117-138页

作者： Guojin Zhang Junbo Yang Caifei Zhang Bohan Jiao JoséL.Panero Jie Cai Zhi-Rong Zhang lian-ming gao Tiangang gao Hong Ma College of Life Sciences Hunan Normal UniversityChangshaHunan 410081China Department of Biology the Huck Institute of the Life Sciencesthe Pennsylvania State UniversityState CollegePA 16801USA State Key Laboratory of Plant Diversity and Specialty Crops Institute of BotanyChinese Academy of SciencesBeijing 100093China Germplasm Bank of Wild Species Kunming Institute of BotanyChinese Academy of SciencesKunmingYunnan 650201China Wuhan Botanical Garden and Sino-Africa Joint Research Center Chinese Academy of SciencesWuhan 430074China Department of Integrative Biology University of TexasAustinTX 78712USA CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of SciencesKunmingYunnan 650201China Lijiang National Forest Biodiversity National Observation and Research Station Kunming Institute of BotanyChinese Academy of SciencesLijiangYunnan 674100China

Convergent morphological evolution is widespread in flowering plants,and understanding this phenomenon relies on well-resolved *** phylogenetic reconstruction using transcriptome datasets has been successful in various angiosperm groups,but it is limited to taxa with available fresh ***,which are one of the two largest angiosperm families and are important for both ecosystems and human livelihood,show multiple examples of convergent *** Asteraceae phylogenies have resolved relationships among most subfamilies and many tribes,but many phylogenetic and evolutionary questions regarding subtribes and genera remain,owing to limited ***,we increased the sampling for Asteraceae phylogenetic reconstruction using transcriptomes and genome-skimming datasets and produced nuclear phylogenetic trees with 706 species representing two-thirds of recognized *** character reconstruction supports multiple convergent evolutionary events in Asteraceae,with gains and losses of bilateral floral symmetry correlated with diversification of some subfamilies and smaller groups,*** of the calyx-related pappus may have been especially important for the success of some subtribes and *** evolutionary analyses support the likely contribution of duplications of MADS-box and TCP floral regulatory genes to innovations in floral morphology,including capitulum inflorescences and bilaterally symmetric flowers,potentially promoting the diversification of *** divergences and reductions in CYC2 gene expression are related to the gain and loss of zygomorphic *** phylogenomic work with greater taxon sampling through inclusion of genome-skimming datasets reveals the feasibility of expanded evolutionary analyses using DNA samples for understanding convergent evolution.

关键词： sunflower family floral symmetry florets capitulescence molecular clock ancestral character pappus subtribe MADS-box TCP CYC2 gene family gene expression

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Recent advances on phylogenomics of gymnosperms and a new classification

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Plant Diversity 2022年第4期44卷 340-350页

作者： Yong Yang David Kay Ferguson Bing Liu Kang-Shan Mao lian-ming gao Shou-Zhou Zhang Tao Wan Keith Rushforth Zhi-Xiang Zhang Co-Innovation Center for Sustainable Forestry in Southern China College of Biology and the Environment159 Longpan RoadNanjing Forestry UniversityNanjing 210037China Department of Paleontology University of Vienna1090 ViennaAustria State Key Laboratory of Systematic and Evolutionary Botany Institute of BotanyChinese Academy of Sciences20 NanxincunXiangshanBeijing 100093China Sino-Africa Joint Research Center Chinese Academy of SciencesWuhan 430074China Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education College of Life SciencesState Key Laboratory of Hydraulics and Mountain River EngineeringSichuan UniversityChengdu 610065China CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of SciencesKunming 650201China Lijiang Forest Biodiversity National Observation and Research Station Kunming Institute of BotanyChinese Academy of SciencesLijiang 674100China Key Laboratory of Southern Subtropical Plant Diversity FairyLake Botanical GardenShenzhen&Chinese Academy of SciencesShenzhenChina The Shippen AshillCullomptonDevonEN153NLUK School of Ecology and Nature Conservation Beijing Forestry UniversityBeijingChina

Living gymnosperms comprise four major groups:cycads,Ginkgo,conifers,and *** among/within these lineages have not been fully *** generation sequencing has made available a large number of sequences,including both plastomes and single-copy nuclear genes,for reconstruction of solid phylogenetic *** advances in gymnosperm phylogenomic studies have updated our knowledge of gymnosperm ***,we review major advances of gymnosperm phylogeny over the past 10 years and propose an updated classification of extant *** new classification includes three classes(Cycadopsida,Ginkgoopsida,and Pinopsida),five subclasses(Cycadidae,Ginkgoidae,Cupressidae,Pinidae,and Gnetidae),eight orders(Cycadales,Ginkgoales,Araucariales,Cupressales,Pinales,Ephedrales,Gnetales,and Welwitschiales),13 families,and 86 *** also described six new tribes including Acmopyleae ***,Austrocedreae ***,Chamaecyparideae ***,Microcachrydeae ***,Papuacedreae ***,and Prumnopityeae ***,and made 27 new combinations in the genus Sabina.

关键词： Classification Gymnosperms Morphology New tribe Phylogenomics Taxonomy

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Phylogeny and Evolution of Bracts and Bracteoles in Tacca (Dioscoreaceae)

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Journal of Integrative Plant Biology 2011年第11期53卷 901-911页

作者： Ling Zhang Hong-Tao Li lian-ming gao Jun-Bo Yang De-Zhu Li Charles H. Cannon Jin Chen Qing-Jun Li Key Laboratory of Tropical Forest Ecology Xishuangbanna Tropical Botanical Garden the Chinese Academy of Sciences Menglun Mengla Yunnan 666303 China Key Laboratory of Biodiversity and Biogeography and Germplasm Bank of Wild Species in Southwest China Kunming Institute of Botany the Chinese Academy of Sciences Kunming 650204 China Department of Biology Texas Tech University Lubbock TX 79390 USA

Most species in the genus Tacca （Dioscoreaceae） feature green to black purple, conspicuous inflorescence involucral bracts with variable shapes, motile filiform appendages （bracteoles）, and diverse types of inflorescence morphology. To infer the evolution of these inflorescence traits, we reconstructed the molecular phylogeny of the genus, using DNA sequences from one nuclear, one mitochondrial, and three plastid loci （Internal Transcribed Spacer （ITS）, atpA, rbcL, trnL-F, and trnH-psbA）. Involucres and bracteoles characters were mapped onto the phylogeny to analyze the sequence of inflorescence trait evolution. In all analyses, species with showy involucres and bracteoles formed the most derived clade, while ancestral Tacca had small and plain involucres and short bracteoles, namely less conspicuous inflorescence structures. Two of the species with the most elaborate inflorescence morphologies （T. chantrieri in southeast China and T. integrifolia in Tibet）, are predominantly self-pollinated, indicating that these conspicuous floral displays have other functions rather than pollinator attraction. We hypothesize that the motile bracteoles and involucres may facilitate selfing; display photosynthesis in the dim understory, and protect flowers from herbivory.

关键词： atpA bracteoles bracts ITS molecular phylogeny rbcL Tacca trnH-psbA trnL-F.

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Genetic analyses of ancient tea trees provide insights into the breeding history and dissemination of Chinese Assam tea(Camellia sinensis ***)

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Plant Diversity 2024年第2期46卷 229-237页

作者： Miao-Miao Li Muditha K.Meegahakumbura Moses C.Wambulwa Kevin S.Burgess Michael Möller Zong-Fang Shen De-Zhu Li lian-ming gao CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of ScienceKunming650201China Germplasm Bank of Wild Species Kunming Institute of BotanyChinese Academy of ScienceKunming650201China Kunming College of Life Science University of Chinese Academy of SciencesKunming650201YunnanChina Department of Export Agriculture Faculty of Animal Science and Export AgricultureUva Wellassa UniversityBadulla90000Sri Lanka Department of Life Sciences School of Science and ComputingSouth Eastern Kenya University170-90200KituiKenya Department of Biology Columbus State UniversityUniversity System of GeorgiaColumbusGA31907-5645USA Royal Botanic Garden Edinburgh 20A Inverleith RowEdinburghEH35LRScotlandUK Lijiang Forest Biodiversity National Observation and Research Station Kunming Institute of BotanyChinese Academy of SciencesLijiang674100YunnanChina

Chinese Assam tea(Camellia sinensis ***)is an important tea crop with a long history of cultivation in Yunnan,*** its potential value as a genetic resource,its genetic diversity and domestication/breeding history remain *** address this issue,we genotyped 469 ancient tea plant trees representing 26 *** *** populations,plus two of its wild relatives(six and three populations of *** and ***,respectively)using 16 nuclear microsatellite *** showed that Chinese Assam tea has a relatively high,but comparatively lower gene diversity(H_(S)=0.638)than the wild relative ***(H_S=0.658).Clustering in STRUCTURE indicated that Chinese Assam tea and its two wild relatives formed distinct genetic groups,with considerable interspecific *** Chinese Assam tea accessions clustered into three gene pools,corresponding well with their geographic ***,New Hybrids analysis indicated that 68.48%of ancient Chinese Assam tea plants from Xishuangbanna were genetic intermediates between the Puer and Lincang gene *** addition,10%of the ancient Chinese Assam tea individuals were found to be hybrids between Chinese Assam tea and *** results suggest that Chinese Assam tea was domesticated separately in three gene pools(Puer,Lincang and Xishuangbanna)in the Mekong River valley and that the hybrids were subsequently selected during the domestication *** the domestication history of Chinese Assam tea in southwestern Yunnan remains complex,our results will help to identify valuable genetic resources that may be useful in future tea breeding programs.

关键词： Tea plant Hybrid origin Genetic diversity Domestication history Camellia sinensis var.assamica Camellia taliensis

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Genetic analysis of walnut cultivars from southwest China:Implications for germplasm improvement

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Plant Diversity 2022年第6期44卷 530-541页

作者： Moses C.Wambulwa Peng-Zhen Fan Richard Milne Zeng-Yuan Wu Ya-Huang Luo Yue-Hua Wang Hong Wang lian-ming gao Zuo-Ying Xiahou Ye-Chuan Jin Lin-Jiang Ye Zu-Chang Xu Zhi-Chun Yang De-Zhu Li Jie Liu CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of SciencesKunming650201YunnanChina Germplasm Bank of Wild Species Kunming Institute of BotanyChinese Academy of SciencesKunming650201YunnanChina Department of Life Sciences South Eastern Kenya University170-90200KituiKenya University of the Chinese Academy of Sciences Beijing100049China Institute of Molecular Plant Sciences School of Biological SciencesUniversity of EdinburghEdinburghUK School of School of Ecology and Environmental Science Yunnan UniversityKunming650091YunnanChina Yangbi Forestry and Grassland Administration Dali672500YunnanChina College of Life Sciences University of Chinese Academy of SciencesKunming650201YunnanChina

Walnuts are highly valued for their rich nutritional profile and wide medicinal *** demand has led to the intensification of breeding activities in major walnut production areas such as southwest China,in order to develop more superior *** the increasing number of cultivars,accurate identification becomes fundamental to selecting the right cultivar for grafting,industrial processing or development of new *** ensure proper identification of cultivars and understand the genetic structure of wild and cultivated material,we genotyped 362 cultivated and wild individuals of walnut trees from southwest China(with two additional populations from Xinjiang,plus three cultivars from Canada,France and Belgium) using 36 polymorphic microsatellite *** found relatively low indices of genetic diversity(H_(O)=0.570,H_(E)=0.404,N_(A)=2.345) as well as a high level of clonality(>85% of cultivars),indicating reliance on genetically narrow sources of parental material for *** STRUCTURE and PCoA analyses generally delineated the two species,though considerable levels of introgression were also *** significantly,we detected a distinct genetic group of cultivated Juglans sigillata,which mainly comprised individuals of the popular ’Yangbidapao’ ***,a core set of 18 SSR loci was selected,which was capable of identifying 32 *** a nutshell,our results call for more utilization of genetically disparate material,including wild walnut trees,as parental sources to breed for more *** data reported herein will significantly contribute towards the genetic improvement and conservation of the walnut germplasm in southwest China.

关键词： Cultivars Genetic diversity Juglans sigillata Southwest China Walnut

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From Barcodes to Genomes:Building Genomic Resources for Plant Identification and Phylogenomics

From Barcodes to Genomes:Building Genomic Resources for Plan...

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首届植物科学前沿学术大会

作者： De-Zhu Li Jun-Bo Yang Hong-Tao Li Zeng-Xia Zeng lian-ming gao Ting-Shuang Yi Peter M.Hollingsworth Germplasm Bank of Wild Species and CAS Key Laboratory for Plant Diversity and Biogeography of East AsiaKunming Institute of BotanyChinese Academy of Sciences Royal Botanic Garden Edinburgh

Advances in high-throughput,next-generation sequencing have greatly accelerated plant DN A barcoding and phylogenetic *** the past decade,genome skimming or low coverage genome sequencing of plants has generated large amounts of genomic data,which enable assembly of more or less complete plastid genomes(plastomes),nuclear ribosomal DNA(nrDNA) arrays,as well as partial mitochondrial genomes(mitogenomes).These data are fully compatible with the existing plant core barcodes,i.e.,the plastid rbcL and matK,and nrDNA ITS *** expanded data that result from these genomic approaches(*** sequences),has improved resolution of phylogenetic relationships at the ordinal,familial and tribal or lower ***,plastome-scale barcodes can increase levels of species discrimination of recalcitrant taxa and improve resolution in community phylogenetic *** skimming has been successfully applied at large-scale to herbarium materials and opens the genomic treasure chest of historical *** the enormous importance of herbaria for the development of a comprehensive reference DNA barcoding database,such genomic data can be used for a wide range of ***,with increasing coverage(up to 10 X to 20 X),hundreds of single-or low-copy nuclear genes have been efficiently recovered to successfully further resolve lower-level phylogenetic *** assembled a large data set for 19,616 samples of 19,018 species towards building genomic resources for a next-generation Flora of China,which will foster nation-wide plant DNA barcoding and phylogenomic studies.

关键词： DNA barcoding species discrimination reference database comparative genomics

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Investigation of bubbles escape behavior from low basicity mold flux for high-Mn high-Al steels using 3D X-ray microscope

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International Journal of Minerals,Metallurgy and Materials 2025年第1期32卷 102-110页

作者： Qiang Liu Xiang Li Shen Du ming gao Yanbin Yin Jiongming Zhang State Key Laboratory of Advanced Metallurgy University of Science and Technology BeijingBeijing 100083China

During the continuous casting process of high-Mn high-Al steels,various types of gases such as Ar need to escape through the top of the *** which,the behavior of bubbles traversing the liquid slag serves as a restrictive link,closely associated with viscosity and the thickness of liquid *** contrast to two-dimensional surface observation,three-dimensional(3D)analysis method can offer a more intuitive,accurate,and comprehensive ***,this study employs a 3D X-ray microscope(3D-XRM)to obtained spatial distribution and 3D morphological characteristics of residual bubbles in mold flux under different basicity of liquid slag,different temperatures,and different holding *** results indicate that as basicity of slag increases from 0.52 to 1.03,temperature increases from 1423 to 1573 K,the viscosity of slag decreases,the floating rate of bubbles *** addition,when holding time increases from 10 to 30 s,the bubbles floating distance increases,and the volume fraction and average equivalent sphere diameter of the bubbles solidified in the mold flux gradually *** one word,increasing the basicity,temperature,and holding time leading to an increase in the removal rate of bubbles especially for the *** findings of bubbles escape behavior provide valuable insights into optimizing low basicity mold flux for high-Mn high-Al steels.

关键词： mold flux low basicity bubbles three-dimensional X-ray microscope viscosity

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