Plant Diversity最新文献

{"title":"Patterns of phylogenetic relatedness of non-native plants across the introduction–naturalization–invasion continuum in China","authors":"Hong Qian","doi":"10.1016/j.pld.2022.12.005","DOIUrl":"10.1016/j.pld.2022.12.005","url":null,"abstract":"<div><p>Human activities have caused the exchange of species among different parts of the world. When introduced species become naturalized and invasive, they may cause great negative impacts on the environment and human societies, and pose significant threats to biodiversity and ecosystem structure. Knowledge on phylogenetic relatedness between native and non-native species and among non-native species at different stages of species invasion may help for better understanding the drivers of species invasion. Here, I analyze a comprehensive data set including both native and non-native angiosperm species in China to determine phylogenetic relatedness of introduced species across a full invasion continuum (from introduction through naturalization to invasion). This study found that (1) introduced plants are a phylogenetically clustered subset of overall (i.e. native plus non-native) angiosperm flora, (2) naturalized plants are a phylogenetically clustered subset of introduced plants, and (3) invasive plants are a phylogenetically clustered subset of naturalized plants. These patterns hold regardless of spatial scales examined (i.e. national versus provincial scale) and whether basal- or tip-weighted metric of phylogenetic relatedness is considered. These findings are consistent with Darwin's preadaptation hypothesis.</p></div>","PeriodicalId":20224,"journal":{"name":"Plant Diversity","volume":"45 2","pages":"Pages 169-176"},"PeriodicalIF":4.8,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10105130/pdf/main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9379542","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Rapid evolution of T2/S-RNase genes in Fragaria linked to multiple transitions from self-incompatibility to self-compatibility","authors":"Wu Chen ,&nbsp;Hong Wan ,&nbsp;Fang Liu ,&nbsp;Haiyuan Du ,&nbsp;Chengjun Zhang ,&nbsp;Weishu Fan ,&nbsp;Andan Zhu","doi":"10.1016/j.pld.2022.04.003","DOIUrl":"https://doi.org/10.1016/j.pld.2022.04.003","url":null,"abstract":"<div><p>The <em>T2/RNase</em> gene family is widespread in eukaryotes, and particular members of this family play critical roles in the gametophytic self-incompatibility (GSI) system in plants. Wild diploid strawberry (<em>Fragaria</em>) species have diversified their sexual systems via self-incompatible and self-compatible traits, yet how these traits evolved in <em>Fragaria</em> remains elusive. By integrating the published and <em>de novo</em> assembled genomes and the newly generated RNA-seq data, members of the <em>RNase T2</em> gene family were systematically identified in six <em>Fragaria</em> species, including three self-incompatible species (<em>Fragaria nipponica</em>, <em>Fragaria nubicola</em>, and <em>Fragaria viridis</em>) and three self-compatible species (<em>Fragaria nilgerrensis</em>, <em>Fragaria vesca</em>, and <em>Fragaria iinumae</em>). In total, 115 <em>RNase T2</em> genes were identified in the six <em>Fragaria</em> genomes and can be classified into three classes (I–III) according to phylogenetic analysis. The identified <em>RNase T2</em> genes could be divided into 22 homologous gene sets according to amino acid sequence similarity and phylogenetic and syntenic relationships. We found that extensive gene loss and pseudogenization coupled with small-scale duplications mainly accounted for variations in the <em>RNase T2</em> gene numbers in <em>Fragaria</em>. Multiple copies of homologous genes were mainly generated from tandem and segmental duplication events. Furthermore, we newly identified five <em>S-RNase</em> genes in three self-incompatible <em>Fragaria</em> genomes, including two in <em>F. nipponica</em>, two in <em>F. viridis</em>, and one in <em>F. nubicola</em>, which fit for typical features of a pistil determinant, including highly pistil-specific expression, highly polymorphic proteins and alkaline isoelectric point (pI), while no <em>S-RNase</em> genes were found in all three self-compatible <em>Fragaria</em> species. Surprisingly, these <em>T2</em>/<em>S-RNase</em> genes contain at least one large intron (&gt;10 kb). This study revealed that the rapid evolution of <em>T2</em>/<em>S-RNase</em> genes within the <em>Fragaria</em> genus could be associated with its sexual mode, and repeated evolution of the self-compatible traits in <em>Fragaria</em> was convergent via losses of <em>S-RNase</em>.</p></div>","PeriodicalId":20224,"journal":{"name":"Plant Diversity","volume":"45 2","pages":"Pages 219-228"},"PeriodicalIF":4.8,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49795991","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Applying image clustering to phylogenetic analysis: A trial","authors":"Li-Dan Tao ,&nbsp;Wei-Bang Sun","doi":"10.1016/j.pld.2022.11.001","DOIUrl":"10.1016/j.pld.2022.11.001","url":null,"abstract":"","PeriodicalId":20224,"journal":{"name":"Plant Diversity","volume":"45 2","pages":"Pages 234-237"},"PeriodicalIF":4.8,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10105131/pdf/main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9379543","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The identity of Dinochloa species and enumeration of Melocalamus (Poaceae: Bambusoideae) in China","authors":"Jing-Xia Liu ,&nbsp;Zu-Chang Xu ,&nbsp;Yu-Xiao Zhang ,&nbsp;Meng-Yuan Zhou ,&nbsp;De-Zhu Li","doi":"10.1016/j.pld.2022.07.001","DOIUrl":"https://doi.org/10.1016/j.pld.2022.07.001","url":null,"abstract":"<div><p>Three woody bamboo species collected in Hainan, China in 1940 have been described as <em>Dinochloa</em> based on vegetative specimens. However, the identity of these species has long been in doubt, largely because the vegetative phase in species of <em>Dinochloa</em> is morphologically similar to that in species of <em>Melocalamus</em>, a climbing or scrambling bamboo genus of the paleotropical woody bamboos (Poaceae: Bambusoideae) that consists of about 15 species and one variety. To determine the phylogenetic affinity of the three <em>Dinochloa</em> species from Hainan, we sampled almost all recognized Chinese species of <em>Melocalamus</em> and representative species of <em>Dinochloa</em> as well as other closely related genera, performed molecular phylogenetic analysis, and compared their morphology based on herbarium and fieldwork investigation. Our ddRAD data indicate that the three species from Hainan are closely related to <em>Melocalamus</em>, not <em>Dinochloa</em>. Morphological analysis showed that these three species have a climbing habit but do not grow spirally, their culm leaves have smooth bases, and there is a ring of powder and/or tomenta above and below the nodes. Taken together our findings indicate that the three species from Hainan originally published in <em>Dinochloa</em> should be transferred to <em>Melocalamus</em>, i.e., <em>Melocalamus orenudus</em> (McClure) D.Z. Li &amp; J.X. Liu, <em>Melocalamus puberulus</em> (McClure) D.Z. Li &amp; J.X. Liu, and <em>Melocalamus utilis</em> (McClure) D.Z. Li &amp; J.X. Liu, respectively. This study concludes with an enumeration of Chinese species of <em>Melocalamus</em>, with a key to nine recognized species and one variety, and a lectotypification for <em>M. compatiflorus</em>.</p></div>","PeriodicalId":20224,"journal":{"name":"Plant Diversity","volume":"45 2","pages":"Pages 133-146"},"PeriodicalIF":4.8,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49796003","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Geographic patterns of taxonomic and phylogenetic β-diversity of aquatic angiosperms in China","authors":"Ya-Dong Zhou ,&nbsp;Hong Qian ,&nbsp;Yi Jin ,&nbsp;Ke-Yan Xiao ,&nbsp;Xue Yan ,&nbsp;Qing-Feng Wang","doi":"10.1016/j.pld.2022.12.006","DOIUrl":"10.1016/j.pld.2022.12.006","url":null,"abstract":"<div><p>China covers a vast territory harbouring a large number of aquatic plants. Although there are many studies on the β-diversity of total, herbaceous or woody plants in China and elsewhere, few studies have focused on aquatic plants. Here, we analyse a comprehensive data set of 889 aquatic angiosperm species in China, and explore the geographic patterns and climatic correlates of total taxonomic and phylogenetic β-diversity as well as their turnover and nestedness components. Our results show that geographic patterns of taxonomic and phylogenetic β-diversity are highly congruent for aquatic angiosperms, and taxonomic β-diversity is consistently higher than phylogenetic β-diversity. The ratio between the nestedness component and total β-diversity is high in northwestern China and low in southeastern China. The geographic patterns of taxonomic and phylogenetic β-diversity of aquatic angiosperms in China are obviously affected by geographic and climatic distances, respectively. In conclusion, the geographic patterns of taxonomic and phylogenetic β-diversity of aquatic angiosperms are consistent across China. Climatic and geographic distances jointly affect the geographic patterns of β-diversity of aquatic angiosperms. Overall, our work provides insight into understanding the large-scale patterns of aquatic angiosperm β-diversity, and is a critical addition to previous studies on the macroecological patterns of terrestrial organisms.</p></div>","PeriodicalId":20224,"journal":{"name":"Plant Diversity","volume":"45 2","pages":"Pages 177-184"},"PeriodicalIF":4.8,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10105238/pdf/main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9324488","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Wind-dispersed seeds blur phylogeographic breaks: The complex evolutionary history of Populus lasiocarpa around the Sichuan Basin","authors":"Xue Li ,&nbsp;Markus Ruhsam ,&nbsp;Yi Wang ,&nbsp;Hong-Ying Zhang ,&nbsp;Xiao-Yan Fan ,&nbsp;Lei Zhang ,&nbsp;Jing Wang ,&nbsp;Kang-Shan Mao","doi":"10.1016/j.pld.2022.10.003","DOIUrl":"https://doi.org/10.1016/j.pld.2022.10.003","url":null,"abstract":"<div><p>The strength of phylogeographic breaks can vary among species in the same area despite being subject to the same geological and climate history due to differences in biological traits. Several important phylogeographic breaks exist around the Sichuan Basin in Southwest China but few studies have focused on wind-dispersed plants. Here, we investigated the phylogeographic patterns and the evolutionary history of <em>Populus lasiocarpa</em>, a wind-pollinated and wind-dispersed tree species with a circum-Sichuan Basin distribution in southwest China. We sequenced and analyzed three plastid DNA fragments (ptDNA) and eight nuclear microsatellites (nSSRs) of 265 individuals of <em>P. lasiocarpa</em> from 21 populations spanning the entire distribution range. Distribution patterns based on nSSR data revealed that there are three genetic groups in <em>P. lasiocarpa</em>. This is consistent with the three phylogeographic breaks (Sichuan Basin, the Kaiyong Line and the 105°E line), where the Sichuan basin acts as the main barrier to gene flow between western and eastern groups. However, the distribution pattern based on ptDNA haplotypes poorly matched the phylogeographic breaks, and wind-dispersed seeds may be one of the main contributing factors. Species distribution modelling suggested a larger potential distribution in the last glacial maximum with a severe bottleneck during the last interglacial. A DIYABC model also suggested a population contraction and expansion for both western and eastern lineages. These results indicate that biological traits are likely to affect the evolutionary history of plants, and that nuclear molecular markers, which experience higher levels of gene flow, might be better indicators of phylogeographic breaks.</p></div>","PeriodicalId":20224,"journal":{"name":"Plant Diversity","volume":"45 2","pages":"Pages 156-168"},"PeriodicalIF":4.8,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49795993","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"New insights into intergeneric relationships of Hickeliinae (Poaceae: Bambusoideae) revealed by complete plastid genomes","authors":"Rivontsoa A. Rakotonasolo ,&nbsp;Soejatmi Dransfield ,&nbsp;Thomas Haevermans ,&nbsp;Helene Ralimanana ,&nbsp;Maria S. Vorontsova ,&nbsp;Meng-Yuan Zhou ,&nbsp;De-Zhu Li","doi":"10.1016/j.pld.2022.06.001","DOIUrl":"10.1016/j.pld.2022.06.001","url":null,"abstract":"<div><p>The Hickeliinae (Poaceae: Bambusoideae) is an ecologically and economically significant subtribe of tropical bamboos restricted to Madagascar, Comoros, Reunion Island, and a small part of continental Africa (Tanzania). Because these bamboos rarely flower, field identification is challenging, and inferring the evolutionary history of Hickeliinae from herbarium specimens is even more so. Molecular phylogenetic work is critical to understanding this group of bamboos. Here, comparative analysis of 22 newly sequenced plastid genomes showed that members of all genera of Hickeliinae share evolutionarily conserved plastome structures. We also determined that Hickeliinae plastome sequences are informative for phylogenetic reconstructions. Phylogenetic analysis showed that all genera of Hickeliinae are monophyletic, except for <em>Nastus</em>, which is paraphyletic and forms two distant clades. The type species of <em>Nastus</em> (Clade II) is endemic to Reunion Island and is not closely related to other sampled species of <em>Nastus</em> endemic to Madagascar (Clade VI). Clade VI (Malagasy <em>Nastus</em>) is sister to the <em>Sokinochloa</em> + <em>Hitchcockella</em> clade (Clade V), and both clades have a clumping habit with short-necked pachymorph rhizomes. The monotypic <em>Decaryochloa</em> is remarkable in having the longest floret in Bambuseae and forms a distinct Clade IV. Clade III, which has the highest generic diversity, consists of <em>Cathariostachys</em>, <em>Perrierbambus</em>, <em>Sirochloa</em>, and <em>Valiha</em>, which are also morphologically diverse. This work provides significant resources for further genetic and phylogenomic studies of Hickeliinae, an understudied subtribe of bamboo.</p></div>","PeriodicalId":20224,"journal":{"name":"Plant Diversity","volume":"45 2","pages":"Pages 125-132"},"PeriodicalIF":4.8,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10105074/pdf/main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9379539","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Maintenance of andromonoecy in an autogamous species: superior male function in male flowers of the endangered Sagittaria guayanensis","authors":"Sen-Tao Lyu, Ting-ting Zou, Qi-Lin Jiang, Xiao-Fan Wang","doi":"10.1016/j.pld.2023.03.009","DOIUrl":"https://doi.org/10.1016/j.pld.2023.03.009","url":null,"abstract":"","PeriodicalId":20224,"journal":{"name":"Plant Diversity","volume":"99 1","pages":""},"PeriodicalIF":4.8,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"78552150","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Coryphoid palms from the K-Pg boundary of central India and their biogeographical implications: Evidence from megafossil remains","authors":"Sanchita Kumar ,&nbsp;Taposhi Hazra ,&nbsp;Robert A. Spicer ,&nbsp;Manoshi Hazra ,&nbsp;Teresa E.V. Spicer ,&nbsp;Subir Bera ,&nbsp;Mahasin Ali Khan","doi":"10.1016/j.pld.2022.01.001","DOIUrl":"10.1016/j.pld.2022.01.001","url":null,"abstract":"<div><p>Ten palm leaf impressions are documented from the latest Maastrichtian (late Cretaceous) to early Danian (earliest Paleocene) sediments (K-Pg, <em>c.</em> 66–64 Ma) of the Mandla Lobe of the Deccan Inter-trappean Beds, Madhya Pradesh, central India. The palmate leaf shape along with a definite well-preserved costa support their placement in the subfamily Coryphoideae of the family Arecaceae. We place all recovered palm leaf specimens in the fossil genus <em>Sabalites,</em> report seven species of coryphoid palms and describe two new species namely, <em>Sabalities umariaensis</em> sp. nov. and <em>Sabalites ghughuaensis</em> sp. nov. The fossils indicate that coryphoid palms were highly diverse in central India by the latest Cretaceous. These and earlier reported coryphoid palm fossils from the same locality indicate that they experienced a warm and humid tropical environment during the time of deposition. These discoveries confirm the presence of a diversity of Coryphoideae in Gondwana prior to the India-Eurasia collision and provide information about coryphoid biogeographical history over geological time. Based on megafossil remains, we trace coryphoid palm migration pathways from India to mainland Southeast (SE) Asia and other parts of Asia after the docking of the Indian subcontinent with Eurasia early in the Paleogene.</p></div>","PeriodicalId":20224,"journal":{"name":"Plant Diversity","volume":"45 1","pages":"Pages 80-97"},"PeriodicalIF":4.8,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/d2/39/main.PMC9975480.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10846480","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"U.Taxonstand: An R package for standardizing scientific names of plants and animals","authors":"Jian Zhang ,&nbsp;Hong Qian","doi":"10.1016/j.pld.2022.09.001","DOIUrl":"10.1016/j.pld.2022.09.001","url":null,"abstract":"<div><p>The scientific names of organisms are key identifiers of plants and animals. Correctly treating scientific names is a prerequisite for biodiversity research and documentation. Here, we present an R package, ‘U.Taxonstand’, which can standardize and harmonize scientific names in plant and animal species lists at a fast speed and at a high rate of matching success. Unlike most of other similar R packages each of which works with only one taxonomic database, U.Taxonstand can work with all taxonomic databases, as long as they are properly formatted. Multiple databases for plants and animals that can be directly used by U.Taxonstand, which include bryophytes, vascular plants, amphibians, birds, fishes, mammals, and reptiles, are available online. U.Taxonstand can be a very useful tool for botanists, zoologists, ecologists and biogeographers to standardize and harmonize scientific names of organisms.</p></div>","PeriodicalId":20224,"journal":{"name":"Plant Diversity","volume":"45 1","pages":"Pages 1-5"},"PeriodicalIF":4.8,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/81/43/main.PMC9975469.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10855692","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}