In memory of Professor Tang Yan‐Cheng: New perspectives in systematic and evolutionary biology DOI Open Access
Qiu‐Yun Xiang, Zhiduan Chen, Bao‐Hua Song

et al.

Journal of Systematics and Evolution, Journal Year: 2020, Volume and Issue: 58(5), P. 527 - 532

Published: Aug. 22, 2020

In China, three institutes for botanical research were established in the 1920s, namely Department of Botany, Biological Laboratory Science Society China (1922, Nanjing), Fan Memorial Institute Biology (1928, Peiping), and Peiping Academy Sciences (1929, Peiping). Since then, plant taxonomy, systematics, phytogeography have advanced prospered as scientific disciplines China. Among great botanists who studied at those institutes, others that over following 100 years, was Prof. Tang (surname) Yan-Cheng (given name) (汤彦承, abbreviated Y. C. Tang) (7 July 1926–6 August 2016). Professor a well-known highly respected taxonomist an influential professor Chinese Sciences, Beijing. played pivotal role leading taxonomic/systematic from 1970s into 1990s. He not only provided new insights flora, but also helped to develop botany according what then cladistic methods train generations botanists. During his career, keenly promoted novel theories taxonomic systematic methods, he encouraged application up-to-date experimental approaches analytical methodologies study plants. His had global implications large, widely distributed families better understanding origin evolution East Asian flora (see Wang et al., 2020a more details below). Therefore, this special issue, we compiled articles reflect current advances honor contributions Tang. The herein, including reviews original articles, represent perspectives systematics evolution, present integrates multifaceted data interdisciplinary approaches. Several concern taxa depth by or focus interest. Modern biology originated 1960s with developed expounded Hennig (Hennig, 1966; Funk, 2018). past 30 discipline has been transformed use molecular phylogenetics (Hillis 1996; Soltis 1998). Subsequent advancements technology, phylogenetic methodologies, comparative led explosion phylogeny-based studies. results relationships organisms which share our planet (Chase 1993; San Mauro & Agorreta, 2010; Losos 2013; Hinchliff 2015; Soltis, 2016; 2018; Bakker 2020). Moreover, recent efforts reconstructing tree life, integrating sharing across disciplines, digitizing biological collections, harvesting big high-throughput DNA sequencing, development genetic tools (Wen 2015, 2017; Leebens-Mack 2019; 2020) empowered evolutionary undertake integrative studies previously impossible (e.g., Chanderbali Ma 2017a, 2017b; Ellwood Hodel Landis Lewin Lu Dong 2019). Plant plays elucidating assembly Earth's flora. central applications is sustenance, use, conservation resources, especially under many threats Anthropocene, modern threat climate change. How will species adapt environmental changes are constraints drivers adaptation? These questions ecology biology. Changing climates warming require urgent address these through characterizing various factors affecting rate capacity adaptability Genetic variability, population structure, genes/traits selected local adaptation biotic abiotic changes/stresses lay foundation its survival. Our knowledge such traits regard forest trees crop particularly important predicting sustainability forests crops changing environments ecological adaptation. At present, simultaneously broad scope detailed levels genes feasible. By interfacing cutting-edge tools, can gain comprehensive advance regarding climate. Anderson Song (2020) overview progress, gaps, perspectives, well plants They evaluate impact change on selection, adaptation, interactions. discuss effects gene flow phenotypic plasticity way respond argue eco-evolutionary dynamics facilitate plant's adaptive potential rapid intense Additionally, they review most using omics biotechnologies dissect basis conclude key gaps exist, expanding foci model diverse array non-model natural systems, identifying candidate validating their functions, discovery causal fitness tests conditions, single stress multiple complex interactive nature environments. highlight importance employing cross-disciplinary integrate ecology, genetics, systems accurately predict probability persist environment. bridges between subdisciplines inspires innovative work field expanded diversity level genomic variation structure fine scales, identify loci associated along spatial gradients climate, soil, disease). For example, Pais colleagues made species, Cornus florida L., landscape phylogeography, genomics, metabolomics, genome-wide association (GWAS) traditional community (Pais 2017, 2018, al. (2017) used approach Genotyping Sequencing (GBS) than 50 selection (differing temperature, precipitation, soil nutrients southern Appalachian Mountains, Piedmont Plateau, coastal plain North Carolina). L. (colloquially, “flowering dogwood”), some determined be dogwood anthracnose disease, seriously threatened populations. non-targeted liquid chromatography–mass spectrometry (LC-MS) profiling GWAS, (2018) discovered production certain groups metabolites. One locus represents L-type lectin domain containing receptor kinase known providing immunity disease (Singh Zimmerli, 2013). report findings cover whole range noted above again identified one selection. This particular locus, whose function may validated genome editing, provides strong future related resistance. Some putatively exhibited abrupt turnover allele frequencies populations borders Hot Continental ecoregion anthracnose. Trees harboring alleles vary among ecoregions breeding programs goal developing hardy cultivars florida, popular ornamental species. study, evaluated patterns compared found distribution further explored relationship fungal sequences contained GBS sampled visual records locations, informative detecting disease. Understanding diversification remains challenge (Losos New insights, however, increasingly being derived incorporate phylogenomics, biogeography, modeling, analyses elucidate spatiotemporal climatic niche divergence speciation processes morphological adaptations Blaine Marchant Visger Yu Hearn Fu Gao Kawahara Martín-Bravo Du Two papers issue (Lindelof 2020; Zhou shed light history eastern Asian–eastern American (EA–ENA) pattern geographic disjunction post-isolation disjunct lineages. EA–ENA biogeographic attracted attention phylogenomic era Li Zhang conducted vigorous generated microfluid PCR Fluidigm sequencing. different dating assessed conflict trees, fossil calibrations. included constructing comprehensively dated phylogeny Fossilized Birth Death analysis. applied user-defined time slice inter-areal dispersal probabilities divergence–extinction–cladogenesis (DEC) method capture historical barriers migration. examining niches, sought understand likely shaped sister clades disjunctions. contains Lindelof (2020), based RAD-seq data, lineage (Cornaceae) bears blue, white, black fruits. authors via analyses. On above, reconstructed examined EA ENA pairs. evidence rates shifts tested hypothesis morphostasis pairs greater (Qian Ricklefs, 2000; Xiang 2004; Lee Gaynor roles biogeography shaping Diapensiaceae combing nuclear plastid enrichment newly Angiosperm 353 probes. demonstrated utility flanking regions resolving within families. Abundant publicly available databases increased sequencing capacity, coupled availability enabled considerable phylogenetics. field, integration distributional employed biodiversity, biodiversity hot spots refugia conservation, uncover contemporary communities Mishler 2014; Chen 2016, Pollock Miller Ye Spatial powerful regional scales life. Hu updating life vascular level, genus-level previous framework (Chen updated phylogeny, listed non-monophyletic genera investigation. both genus regional-scale serve other intersection functional ecology. fundamental goals transform gained reconstructions predictive stable classification system, reflecting histories public Le Increasingly, robust phylogenies extensive complete sampling classification. (2020b) revised Magnolia Magnoliaceae, skimming taxon sampling. Similarly, chloroplast Diapensia status several Su collection-based clarify boundaries Stachyuraceae, family endemic Asia. Collection-based allow without expense visiting geographically disparate sites. Such enable simultaneous morphologically distinguishing characteristics resolved (Willis 2017). All (Hu clarified debates propose treatments large amount data. Furthermore, Magnolia, particular, prove useful horticulturally genus. all elucidated space transforming lies definition delineation. Although concepts proposed, delineating major taxonomy active topic systematics. Hong proposes explicit statistics-based gen-morph concept bridge properties offer easily operable work. outcrossing Paeonia argues delimitation accomplished statistical discontinuity two independent traits. verifies discontinuities features good proxy distinction morphology-based classifications, A Brief Biography Late citations) born Xiaoshan, Zhejiang Province, graduated Tsinghua [Qinghua] University 1950 joined Taxonomy (now Botany) Sciences. From October 1958 1960, scholar Komarov Botanical Research Moscow, former Soviet Union. 1972 1981, director Biogeography Botany. As organizers state projects Iconographia Cormophytorum Sinicorum (Illustrated Vascular Plants China) Flora Reipublicae Popularis Sinicae (FRPS), wrote edited volumes series books. received National Natural First Prize (one winners, Wentsi) Third latter. Through own professional activities, actively advancement prosperity versatile knowledgeable scholar, excellent mentor friend community. excelled classic literature, nomenclature Latin, concepts, cladistics. paid close latest international developments taxonomy/systematics introduced ideas, theories, timely manner. Those endeavors significant broad, base education. 1942 1945, attended Suzhou Taowu Middle School, private institution Shanghai. Due influence teacher, Bingliu, school, advocated ideals “Seven Wise Men Bamboo Forest (竹林七贤),” group scholars, writers, artisans third-century CE followed Taoism, essentially living harmony nature. later enjoyed Zhuangzi (庄子), collection writings fifth third century BCE Taoism. entered College Agriculture St. John's Shanghai, university, undergraduate study. Later, transferred Advanced Class Shanghai Temporary University. 1946, recommended admitted University, China's top universities. Of students time, chose botany. student botany, Wu Zhengyi (Wu Cheng-yih) (1916–2014) morphology Jingyue (1895–1975). teachings Jingyue, complementary, interactive, guiding, inspired instilled him exceptional self-learning habit thinking outside absorbing ideas disciplines. teacher–student friendship Chengyi during Tang's four years half collaboration famous taxonomists. admired remark historian Mr. Wenlan (1893–1969): "板凳要坐十年冷, 文章不写半句空 (Literally: bench sit cold ten no wasteful words written article)". real meaning concentrate pursuit truth before putting pen paper. Notably, did publish peers, novel, thoughtful, influential, regarded. spend dwelling out date (Wang 2020a). continued undiminished rigor until last breath. knowledgeable, modest, easy-going, selflessly dedicated throughout humble honorable person worked tirelessly quietly enhance never honors himself, instead always tried help promote others. research, moral character, continue inspire us privileged know him, well. biography (2020a) where specific discussed. We thank AJ Harris Jun Wen reviewing constructive editing comments article. JX Wang, HN Qin, AM contributing information JSE journal manager Y Liang chief editors J S Ge support.

Language: Английский

RAD‐seq data provide new insights into biogeography, diversity anomaly, and species delimitation in eastern Asian–North American disjunct clade Benthamidia of Cornus (Cornaceae) DOI Creative Commons
Zhi‐Yuan Du, Jin Cheng, Qiu‐Yun Xiang

et al.

Journal of Systematics and Evolution, Journal Year: 2023, Volume and Issue: 62(1), P. 1 - 19

Published: Dec. 13, 2023

Abstract The big‐bracted dogwood clade Benthamidia of Cornus is a typical example the well‐known eastern Asia (EA) and North America (NA) floristic disjunction, with greater species diversity in EA than NA. lineage provides an opportunity to explore factors contributing plant unevenness between NA test hypotheses on origin disjunct distribution from phylogenetic perspective. We generated RAD‐seq data, conducted phylogenomic biogeographic analyses for sampling all (9) subspecies (10) currently recognized floras. also assessed delineation calculated evaluate Finally, we examined variation diversification rates ecological niches phylogeny potential causes underlying observed pattern. Our results revealed relationships congruent previous studies suggested trans‐Beringian ancestral mid‐Oligocene, dispersal Mexico United States mid‐Miocene, early SW China. confirmed rate clade. Species delimitation analysis 17 , including subspecies. By integrating molecular data morphology, proposed retain without changing their ranks. increased as intrinsic factor explaining region driven mainly by isolation partially niche divergence.

Language: Английский

Citations

9

Phylogenomics and diversification drivers of the Eastern Asian – Eastern North American disjunct Podophylloideae DOI
Wenqing Ye, Shanshan Zhu, Hans Peter Comes

et al.

Molecular Phylogenetics and Evolution, Journal Year: 2022, Volume and Issue: 169, P. 107427 - 107427

Published: Feb. 4, 2022

Language: Английский

Citations

13

Climatic niche comparisons of eastern North American and eastern Asian disjunct plant genera DOI Creative Commons
Anthony E. Melton,

Matthew H Clinton,

Donald N Wasoff

et al.

Global Ecology and Biogeography, Journal Year: 2022, Volume and Issue: 31(7), P. 1290 - 1302

Published: April 17, 2022

Abstract Aim While the floras of eastern Asia (EA) and North America (ENA) share numerous genera, they have drastically different species richness. Despite an overall similarity in quality their temperate climates, climate EA is more spatially heterogeneous than that ENA. Spatial environmental heterogeneity has been found to play a key role influencing richness some regions. Here, we tested following hypotheses: (a) will occupy larger climatic niches ENA congeners, (b) congeners EA‐ENA disjunct genera statistically equivalent niches, (c) similar expected by respective physiographic context. Location Asia. Time period Present. Major taxa studied Seed plants. Methods Predictions generated ecological niche models (ENMs) were compared for 88 across 31 genera. ENM predictions assessed geographic breadth. Tests equivalency performed congeneric pairs determine if experienced conservatism or divergence. Results tend greater amounts space close relatives Over two‐thirds conducted comparisons show either within these broader regimes non‐equivalent are as given contexts. Main conclusions equivalent/similar distributions, with differences occupied possibly due contexts, highlighting how niche‐neutral processes may affect distributions species.

Language: Английский

Citations

11

Phylogenomics and biogeography of Torreya (Taxaceae)—Integrating data from three organelle genomes, morphology, and fossils and a practical method for reducing missing data from RAD‐seq DOI Creative Commons
Wenbin Zhou, AJ Harris, Qiu‐Yun Xiang

et al.

Journal of Systematics and Evolution, Journal Year: 2022, Volume and Issue: 60(6), P. 1241 - 1262

Published: Feb. 12, 2022

Abstract Restriction site‐associated DNA sequencing (RAD‐seq) enables obtaining thousands of genetic markers for phylogenomic studies. However, RAD‐seq data are subject to allele dropout (ADO) due polymorphisms at enzyme cutting sites. We developed a new pipeline, Allele Dropout Remedy in our study the gymnosperm genus, Torreya , mitigate ADO outgroups by recovering missing loci from previously published transcriptomes. By using RADADOR supplement Rad‐seq combination with plastome and mitochondrial gene sequences, morphology, fossil records, we reconstructed phylogenetic biogeographic histories genus tested hypotheses on anomalies biodiversity eastern Asian‐North American floristic disjunction. Our results showed that pipeline recovered many outgroup, improved yielded more robust phylogeny . Using fossilized birth–death model divergence–extinction–cladogenesis method, resolved detailed history suggested Jurassic origin spanning Laurasia differential speciation extinction among continents accounting modern diversity, which is biased toward Asia (EA). The also supported vicariance widespread ancestor EA North America (NA) mid‐Eocene, cross Beringian exchange early Paleogene before vicariant isolation, contrast “out NA” pattern common gymnosperms EA” hypothesis proposed genus. Furthermore, observed discordance between nuclear plastid phylogenies jackii suggesting lineage sorting genomes species or genome capture T.

Language: Английский

Citations

10

Vicariance Between Cercis siliquastrum L. and Ceratonia siliqua L. Unveiled by the Physical–Chemical Properties of the Leaves’ Epicuticular Waxes DOI Creative Commons
Rui F. P. Pereira, J. Rocha, Paulo Nunes

et al.

Frontiers in Plant Science, Journal Year: 2022, Volume and Issue: 13

Published: July 4, 2022

Classically, vicariant phenomena have been essentially identified on the basis of biogeographical and ecological data. Here, we report unequivocal evidences that demonstrate a physical–chemical characterization epicuticular waxes surface plant leaves represents very powerful strategy to get rich insight into events. We found similarity between Cercis siliquastrum L. (family Fabaceae , subfamily Cercidoideae ) Ceratonia siliqua Caesalpinoideae ). Both taxa converge in Mediterranean basin ( C. north across south), similar habitats (sclerophyll communities maquis climatic profiles. These species are current representation their subfamilies basin, where they overlap. Because this biogeographic similarity, environmental pattern both was be significant. The analysis performed provided relevant data confirm functional proximity them. A striking resemblance abaxial surfaces terms dominant chemical compounds (1-triacontanol (C30) 1-octacosanol (C28), respectively), morphology (intricate network randomly organized nanometer-thick micrometer-long plates), wettability (superhydrophobic character, with water contact angle values 167.5 ± 0.5° 162 3°, optical properties (in light reflectance/absorptance is significantly higher/lower than adaxial surface, but overall trend reflectance qualitatively similar). results enable us include for first time process exhibited by canadensis L., griffithii .

Language: Английский

Citations

10

Integrating coalescent‐based species delimitation with ecological niche modeling delimited two species within the Stewartia sinensis complex (Theaceae) DOI
Hanyang Lin, Kai‐Jie Gu, W.F. Li

et al.

Journal of Systematics and Evolution, Journal Year: 2021, Volume and Issue: 60(5), P. 1037 - 1048

Published: Feb. 13, 2021

Abstract Accurate species delimitation is the key to precise estimation of diversity and fundamental most branches biology. Unclear boundaries within complexes could lead underestimation diversity. However, remains challenging due continuum phenotypic variations. To robustly examine a complex, integrative approaches in phylogeny, ecology, morphology were applied Stewartia sinensis complex (Theaceae) endemic China. Multispecies coalescent‐based using 572 nuclear ortholog sequences (anchored enrichment) supported reciprocal phylogenetic monophyly northern lineage (NL) southern (SL), which not sister clades. Niche equivalency similarity tests demonstrated significant climatic niche differentiation between NL SL with observed Warren et al.'s I = 0.0073 Schoener's D 0.0021. Species distribution modeling also separated their potential distribution. Morphometric analyses suggested interlineage multiple traits including ratio length width, leaf pedicel length, although overall did differ. Based on concept, two distinct proposed legitimate names gemmata for S. NL. Our empirical study highlights importance applying criteria, particular underappreciated differentiation, pervasive plants.

Language: Английский

Citations

14

Incomplete lineage sorting and local extinction shaped the complex evolutionary history of the Paleogene relict conifer genus, Chamaecyparis (Cupressaceae) DOI
Yi Wang, Markus Ruhsam, Richard I. Milne

et al.

Molecular Phylogenetics and Evolution, Journal Year: 2022, Volume and Issue: 172, P. 107485 - 107485

Published: April 19, 2022

Language: Английский

Citations

9

Phylogenomics AND biogeography of Castanea (chestnut) and Hamamelis (witch-hazel) – Choosing between RAD-seq and Hyb-Seq approaches DOI Creative Commons
Wenbin Zhou, Qiu‐Yun Xiang

Molecular Phylogenetics and Evolution, Journal Year: 2022, Volume and Issue: 176, P. 107592 - 107592

Published: Aug. 1, 2022

Language: Английский

Citations

9

An updated phylogeny, biogeography, and PhyloCode‐based classification of Cornaceae based on three sets of genomic data DOI Creative Commons
Zhi‐Yuan Du, Qiu‐Yun Xiang, Jin Cheng

et al.

American Journal of Botany, Journal Year: 2022, Volume and Issue: 110(2)

Published: Dec. 8, 2022

A major goal of systematic biology is to uncover the evolutionary history organisms and translate that knowledge into stable classification systems. Here, we integrate three sets genome-wide data resolve phylogenetic relationships in Cornaceae (containing only Cornus s.l.), reconstruct biogeographic clade, provide a revised using PhyloCode stabilize names for this taxonomically controversial group.We conducted analyses 312 single-copy nuclear genes 70 plastid from Angiosperms353 Hyb-Seq, plus numerous loci RAD-Seq. We integrated fossils morphological produced dated phylogeny biogeographical analysis.A well-resolved, strongly supported, comprehensive was obtained. Biogeographic support an origin rapid diversification four morphologically distinct clades Northern Hemisphere (with eastern Asian ancestor) during late Cretaceous. Dispersal Africa Asia likely occurred along Tethys Seaway Paleogene, whereas dispersal South America Neogene. Diversification within northern hemisphere involved repeated independent colonization new areas Paleogene Neogene Bering Land Bridge, North Atlantic Seaway. Thirteen supported were named following rules PhyloCode.Our study provides example integrating genomic produce robust, explicit species includes fossil taxa, which updated scheme names.

Language: Английский

Citations

9

Phylogenetic relationships and biogeography of Asia Callicarpa (Lamiaceae), with consideration of a long-distance dispersal across the Pacific Ocean —insights into divergence modes of pantropical flora DOI Creative Commons
Huimin Cai, Xingyue Liu, Wenqiao Wang

et al.

Frontiers in Plant Science, Journal Year: 2023, Volume and Issue: 14

Published: May 15, 2023

There are about 140 species of Callicarpa L. 1753 (Lamiaceae), with more richness in tropical to subtropical Asia and the New World. The genus might provide an insight into amphi-Pacific disjunction pattern vegetation. This study has greatly improved phylogenetic underpinning for Callicarpa, derived from inclusive taxonomic samplings, employing data on both two-nuclear eight-chloroplast regions. To address time patterns diversification we conducted divergence biogeographic analyses, inferred shifts distribution areas across clades. Our results show that is monophyletic respect groups considered, eight well-supported primary clades were discerned combined analyses. estimates indicated crown group originates around Late-Eocene (ca. 36.23 Ma) within most concentrated Miocene continued Pleistocene. In addition, our analyses suggested probable ancestor clade originated East Southeast Asia. Multiple dispersal vicariance events contributed current taxa. Furthermore, this expanded eastward out World by long-distance dispersal, which inspired us better understand disjunct distribution.

Language: Английский

Citations

3