JOURNAL OF SYSTEMATICS AND EVOLUTION最新文献

{"title":"Ancient Genome of Empress Ashina reveals the Northeast Asian origin of Göktürk Khanate","authors":"Xiaomin Yang, Hai-liang Meng, Jianlin Zhang, Yao Yu, Edward Allen, Ziyang Xia, Kongyang Zhu, Panxin Du, Xiaoying Ren, Jianxue Xiong, Xiaoyu Lu, Yi Ding, Sheng Han, Wei-Ping Liu, Li Jin, Chuan‐Chao Wang, Shaoqing Wen","doi":"10.1111/jse.12938","DOIUrl":"https://doi.org/10.1111/jse.12938","url":null,"abstract":"","PeriodicalId":101317,"journal":{"name":"JOURNAL OF SYSTEMATICS AND EVOLUTION","volume":"71 1","pages":""},"PeriodicalIF":3.7,"publicationDate":"2023-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"86415616","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Awards of JSE Outstanding Papers (2020)","authors":"Song Ge, Jun Wen","doi":"10.1111/jse.12904","DOIUrl":"https://doi.org/10.1111/jse.12904","url":null,"abstract":"","PeriodicalId":101317,"journal":{"name":"JOURNAL OF SYSTEMATICS AND EVOLUTION","volume":"17 1","pages":""},"PeriodicalIF":3.7,"publicationDate":"2022-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"81833892","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Gondwanan survivor lineages and the high‐risk biogeography of Anthropocene Southeast Asia","authors":"R. Kooyman, S. Ivory, Adam J. Benfield, P. Wilf","doi":"10.1111/jse.12853","DOIUrl":"https://doi.org/10.1111/jse.12853","url":null,"abstract":"The Southeast Asian rainforest region is extremely complex and biodiverse. Fossils have shown that paleo‐Antarctic rainforest lineages (PARLs) now extant in Asia tracked the ever‐wet conditions needed to survive and diversify through deep time. However, the threat of future climate change to the remaining rainforest and PARLs in Southeast Asia has yet to be evaluated to set conservation priorities. We first quantified the woody‐genus floristic relationships of Southeast Asian Island Groups by vetting and analyzing recent compilations of bioregional species data. We then evaluated the contributions to community assembly of woody fossil lineages and Island Group relationships to environmental gradients. To better understand climatic constraints of fossil lineage distributions and forecast distributions under projected future climate, we used exemplar living woody PARLs, including two angiosperms and two gymnosperms. Generalized linear models were used to project potential distributions under future climate pathways that assume no reduction in carbon dioxide emissions. The floristic analyses highlighted strong similarities among Island Groups in the ever‐wet forest areas of Malesia, where PARLs are often concentrated. Ordination outliers represented more seasonal locations. Species distribution models showed that potential future distributions of ancient lineages are constrained by increasing rainfall seasonality and higher seasonal temperatures, with significant differences among exemplar genera. Notably, potential distributions often mapped onto de facto inaccessible areas, where forest clearing and the ubiquitous marine dispersal barriers that characterize the region will drastically inhibit potential relocation. These realities gravely threaten paleo‐conservation values and contemporary rainforest community assembly processes in Southeast Asia.","PeriodicalId":101317,"journal":{"name":"JOURNAL OF SYSTEMATICS AND EVOLUTION","volume":"40 1","pages":""},"PeriodicalIF":3.7,"publicationDate":"2022-04-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"84495840","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Herbarium phylogenomics: Resolving the generic status of the enigmatic Pseudobartsia (Orobanchaceae)","authors":"N. Jiang, Li Dong, Jun-bo Yang, Yun‐Hong Tan, Hong Wang, C. P. Randle, De‐Zhu Li, Wen-bin Yu","doi":"10.1111/jse.12829","DOIUrl":"https://doi.org/10.1111/jse.12829","url":null,"abstract":"The millions of herbarium specimens in collections around the world provide historical resources for phylogenomics and evolutionary studies. Many rare and endangered species exist only as historical specimens. Here, we report a case study of the monotypic Pseudobartsia yunnanensis D. Y. Hong (=Pseudobartsia glandulosa[Bentham] W. B. Yu & D. Z. Li: Orobanchaceae) known from a single Chinese collection taken in 1940. We obtained genomic data of Pseudobartsia glandulosa using high‐throughput short‐read sequencing, and then assembled a complete chloroplast genome and nuclear ribosome DNA region in this study. We found that the newly assembled three plastid DNA regions (atpB‐rbcL, rpl16, and trnS‐G) and nuclear ribosomal internal transcribed spacer (nrITS) of Pseudobartsia glandulosa were more than 99.98% similar to published sequences obtained by target sequencing. Phylogenies of Orobanchaceae using 30 plastomes (including 10 new plastomes), using both supermatrix and multispecies coalescent approaches following a novel plastid phylogenomic workflow, recovered seven recognized tribes and two unranked groups, both of which were proposed as new tribes, that is, Brandisieae and Pterygielleae. Within Pterygielleae, all analyses strongly supported Xizangia D. Y. Hong as the first diverging genus, with Pseudobartsia D. Y. Hong as sister to Pterygiella Oliver + Phtheirospermum Bunge (excluding Phtheirospermum japonicum [Thunberg] Kanitz); this supports reinstatement of Pseudobartsia and Xizangia. Although elements of Buchnereae‐Cymbarieae‐Orobancheae and Brandisieae‐Pterygielleae‐Rhinantheae showed incongruence among gene trees, the topology of the supermatrix tree was congruent with the majority of gene trees and functional‐group trees. Therefore, most plastid genes are evolving as a linkage group, allowing the supermatrix tree approach to yield internally consistent phylogenies for Orobanchaceae.","PeriodicalId":101317,"journal":{"name":"JOURNAL OF SYSTEMATICS AND EVOLUTION","volume":"93 1","pages":""},"PeriodicalIF":3.7,"publicationDate":"2022-03-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"88546931","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A molecular approach to the phylogeny of the moss genus Pseudocrossidium (Pottiaceae, Bryopsida) and its taxonomic implications","authors":"M. Cano, J. A. Jiménez, M. Gallego, J. Guerra","doi":"10.1111/jse.12801","DOIUrl":"https://doi.org/10.1111/jse.12801","url":null,"abstract":"Pseudocrossidium is a genus of 21 species belonging to the Pottiaceae with the highest concentration of taxa and morphological variation found in South America. To investigate the evolutionary relationships among the species of Pseudocrossidium and other members of the Pottioideae, molecular phylogenetic reconstructions, using the nuclear ITS1‐5.8S‐ITS2, and the plastid atpB‐rbcL, trnG, and trnL‐F, has been performed because this genus has only been partially tested using molecular markers. Bayesian and maximum likelihood topologies show that the genus, as presently circumscribed, is polyphyletic. Consequently, the circumscription of Pseudocrossidium is amended and numerous taxonomic changes resulting from the molecular, morphological, and nomenclatural studies are proposed. The phylogenetic and morphologically divergent Pseudocrossidium mendozense is renamed as Gertrudiella mendozensis. Pseudocrossidium linearifolium and P. porphyreoneurum are representatives of the new genera Barbulastrum and Helicobarbula, respectively. Pseudocrossidium carinatum and P. santiagense are accommodated in a new genus Austrobarbula. Aloinella, nested in a paraphyletic Pseudocrossidium, is maintained at generic rank, apparently derived from Pseudocrossidium. Barbula integrifolia, B. riograndensis, and Tortula jaffuelii are transferred to Pseudocrossidium. The remaining species of Pseudocrossidium are maintained in this genus, pending further studies. Conflicts of the trees observed could be evidence of interspecific or intergeneric gene flow in various lineages in the Pottioideae.","PeriodicalId":101317,"journal":{"name":"JOURNAL OF SYSTEMATICS AND EVOLUTION","volume":"99 1","pages":""},"PeriodicalIF":3.7,"publicationDate":"2021-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"82711854","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Novel classification and biogeography of Leptolejeunea (Lejeuneaceae, Marchantiophyta) with implications for the origin and evolution of the Asian evergreen broad‐leaved forests","authors":"L. Shu, Xinjie Jin, R. Zhu","doi":"10.1111/jse.12798","DOIUrl":"https://doi.org/10.1111/jse.12798","url":null,"abstract":"Although recent molecular phylogenetic analyses have greatly improved our understanding of the classification of the large liverwort family Lejeuneaceae, the frequent incongruencies between morphology‐based taxonomy and molecular phylogeny have hindered our understanding of evolutionary diversification within the group. Here we focus on Leptolejeunea (Spruce) Steph., a pantropical epiphyllous genus in Lejeuneaceae with 40 species. Phylogenetic studies on the genus have been hampered by insufficient taxon sampling, leaving the deep phylogenetic relationships within this group unresolved. We present the most comprehensive phylogenetic analysis of the genus to date with sampling of over 80% of species, including the enigmatic Leptolejeunea spinistipula (Mizut.) X.L.He endemic to Borneo. Based on data from three molecular markers with representatives of Leptolejeunea and its allies, Leptolejeunea appeared to be monophyletic following the exclusion of L. spinistipula and its transfer to Soella R.L.Zhu, L.Shu, Qiong He & Y.M.Wei. A total‐evidence approach was taken to resolve the backbone phylogeny of Leptolejeunea and a first infrageneric classification of Leptolejeunea, including a new subgenus and three new sections, is proposed based on integrated molecular and morphological evidence. Reconstruction of the evolutionary history showed a wide ancestral area of Leptolejeunea during the Paleogene that arose in mainland Asia, followed by an accelerated speciation rate. Across the biogeographical history of Leptolejeunea, long‐distance dispersal had profound effects on population expansion. Our findings suggest that Australasia is a source of biodiversity of Asian evergreen broad‐leaved forests that have been established since the Oligocene and rose after the early Miocene.","PeriodicalId":101317,"journal":{"name":"JOURNAL OF SYSTEMATICS AND EVOLUTION","volume":"34 1","pages":""},"PeriodicalIF":3.7,"publicationDate":"2021-05-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"82370690","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Miocene Ethiopian amber: A new source of fossil cryptogams","authors":"Valentine Bouju, K. Feldberg, Ulla Kaasalainen, A. Schäfer‐Verwimp, L. Hedenäs, W. Buck, Bo Wang, V. Perrichot, A. Schmidt","doi":"10.1111/jse.12796","DOIUrl":"https://doi.org/10.1111/jse.12796","url":null,"abstract":"Amber is renowned for the exceptional preservation state of its inclusions, allowing detailed morphological analysis and providing relevant environmental, palaeoecological, geographical, and geological information. Amber deposits are predominantly known from North America, Europe, and Asia, and are considered to be rare on the continents that formed Gondwana. The recent discovery of fossiliferous amber deposits in Ethiopia, therefore, provides an inimitable opportunity to close gaps in the fossil record of African terrestrial biota and to study organisms which are otherwise rare in the fossil record. Here we show that diverse cryptogams are preserved in highest fidelity in Miocene Ethiopian amber. We describe gametophyte fragments of four liverworts: Thysananthus aethiopicus sp. nov. (Porellales, Lejeuneaceae), Lejeunea abyssinicoides sp. nov. (Porellales, Lejeuneaceae), Frullania shewanensis sp. nov. (Porellales, Frullaniaceae), and Frullania palaeoafricana sp. nov. (Porellales, Frullaniaceae). Furthermore, we describe a pleurocarpous moss of the extant genus Isopterygium (Hypnales, Pylaisiadelphaceae) and a lichen representing the order Lecanorales. These new specimens represent the first amber fossils of liverworts, mosses, and lichens from the African continent and render Ethiopian amber as one of the few worldwide amber deposits preserving bryophytes (mosses and liverworts) or lichens. Fossil species of Thysananthus were recorded in Eocene Baltic and Oligocene Bitterfeld as well as Miocene Dominican and probably also Miocene Mexican ambers. Fossils that can unequivocally be assigned to Lejeunea have only been found in Dominican amber so far. Neotropical ambers contain only one taxon of Frullania to date, while the genus is most diverse in Baltic, Bitterfeld, and Rovno ambers, formed in temperate regions. The new fossils support a tropical to subtropical origin of Ethiopian amber. The new African liverwort fossils are included in an updated list of leafy liverworts described from worldwide Cenozoic ambers to date.","PeriodicalId":101317,"journal":{"name":"JOURNAL OF SYSTEMATICS AND EVOLUTION","volume":"27 1","pages":""},"PeriodicalIF":3.7,"publicationDate":"2021-05-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"72842909","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Polyploidy in Cupressaceae: Discovery of a new naturally occurring tetraploid, Xanthocyparis vietnamensis","authors":"Perla Farhat, S. Siljak-Yakovlev, O. Hidalgo, K. Rushforth, J. A. Bartel, Nicolas Valentin, I. Leitch, R. P. Adams","doi":"10.1111/jse.12751","DOIUrl":"https://doi.org/10.1111/jse.12751","url":null,"abstract":"While polyploidy (whole‐genome multiplication) is generally considered rare in extant gymnosperms (with the exception of Ephedra, Ephedraceae), the occurrence of sporadic polyploid individuals belonging to various genera in the conifer family Cupressaceae has been reported in the literature. In addition, recent studies have revealed that polyploidy is not uncommon in the genus Juniperus (Cupressaceae), with tetraploid and hexaploid individuals reported in individuals collected from wild populations. Given these findings, we undertook a comprehensive screening of ploidy levels in 32 species belonging to the four genera that are phylogenetically closest to Juniperus (i.e., Callitropsis, Hesperocyparis, Xanthocyparis, and Cupressus), referred to as the CaHXCu complex. In addition, we also determined the ploidy level of two accessions in the poorly studied tetraploid, Fitzroya cupressoides. Using flow cytometry together with published chromosome counts to assign ploidy levels, we show that all species of the CaHXCu complex are diploid except Xanthocyparis vietnamensis, which is tetraploid, with a genome size of 44.60 pg/2 C. This study opens up new opportunities for studying the impact and consequences of polyploidy on the evolution and adaptation of species in Cupressaceae.","PeriodicalId":101317,"journal":{"name":"JOURNAL OF SYSTEMATICS AND EVOLUTION","volume":"9 4","pages":""},"PeriodicalIF":3.7,"publicationDate":"2021-04-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"72611924","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Deciphering the global phylogeography of a coastal shrub (Scaevola taccada) reveals the influence of multiple forces on contemporary population structure","authors":"A. Banerjee, Haidan Wu, Wuxia Guo, W. Ng, Weixi Li, Yan Ma, Hui Feng, Ye-lin Huang","doi":"10.1111/jse.12746","DOIUrl":"https://doi.org/10.1111/jse.12746","url":null,"abstract":"The phylogeography of coastal plant species is heavily influenced by past sealevel fluctuations, dispersal barriers, and life‐history traits, such as long‐distance dispersal ability of the propagules. Unlike the widely studied mangroves, phylogeographic patterns have remained mostly obscure for other coastal plant species. In this study, we sampled 42 populations of Scaevola taccada (Gaertn.) Roxb., a coastal shrub of the family Goodeniaceae, from 17 countries across its distribution range. We used five chloroplast DNA (cpDNA) and 14 nuclear microsatellite (simple sequence repeat [SSR]) markers to assess the influence of abiotic factors and population genetic processes on the phylogeographic pattern of the species. Geographical distribution of cpDNA haplotypes suggests that the species originated in Australia, followed by historical dispersal and expansion of its geographic range. Multiple abiotic factors, including the sealevel changes during the Pleistocene, the presence of landmasses like the Malay Peninsula, and contemporary oceanic circulation patterns, restricted gene flow between geographically distinct populations, thereby creating low haplotype diversity and a strong population structure. Population genetic processes acted on these isolated populations, leading to high nuclear genetic diversity and population differentiation, as revealed from analyzing the polymorphic SSR loci. Although genetic divergence was mostly concordant between cpDNA and SSR data, asymmetrical gene flow and ancestral polymorphism could explain the discordance in the detailed genetic structure. Overall, our findings indicate that abiotic factors and population genetic processes interactively influenced the evolutionary history and current phylogeographic pattern of S. taccada across its distribution range.","PeriodicalId":101317,"journal":{"name":"JOURNAL OF SYSTEMATICS AND EVOLUTION","volume":"28 1","pages":""},"PeriodicalIF":3.7,"publicationDate":"2021-04-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"78339693","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Integrative taxonomy of herbaceous plants with narrow fragmented distributions: A case study on Primula merrilliana species complex","authors":"Xiao He, Jinghua Cao, Wei Zhang, Yongqaing Li, Chao Zhang, Xiao-hong Li, G. Xia, J. Shao","doi":"10.1111/jse.12726","DOIUrl":"https://doi.org/10.1111/jse.12726","url":null,"abstract":"An accurate understanding of species diversity is essential to studies across a wide range of biological subdisciplines. However, species delimitation remains challenging in evolutionary radiations, particularly in those herbaceous plants associated with microendemic, naturally fragmented distribution systems, where genotypic and phenotypic traits likely evolved discordantly. The Primula merrilliana complex, which is endemic to eastern China and has high horticultural value, used to be treated as one species but several clues suggested it might be composed of multiple species. Here we used multiple lines of evidence, including molecular, morphological, reproductive isolation, and geographic data, to assess independently evolving lineages within this complex. Our results indicated that the species diversity in the complex was underestimated previously, and four species (independently evolving lineages) can be recognized, including two new species described here. The extensive variation of the breeding system, especially the floral morph transition from distyled (outcrossing) to homostyled (selfing) multiple times, possibly promoted the rapid speciation within such a small geographic scale. This study case indicated that the phenomenon of genetically highly divergent but morphologically indistinguishable is perhaps shown in herbs with fragmented distributions; the alternative extreme evolutionary phenomenon, in which complete reproductive barriers have been accumulated but with little genetic differentiation, also exists. Thus we highlight the importance of incorporating other characters, such as postzygotic reproductive isolation and geographic data, with commonly used molecular and morphological traits to infer species boundaries through an integrative taxonomic approach in such systems.","PeriodicalId":101317,"journal":{"name":"JOURNAL OF SYSTEMATICS AND EVOLUTION","volume":"1 1","pages":""},"PeriodicalIF":3.7,"publicationDate":"2021-03-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"88134672","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}