Background: Eriocaulonis a wetland plant genus with important ecological value, and one of the famous taxonomically challenging groups among angiosperms, mainly due to the high intraspecific diversity and low interspecific variation in the morphological characters of species within this genus. In this study, 22 samples representing 15Eriocaulonspecies from China, were sequenced and combined with published samples ofEriocaulonto test the phylogenetic resolution using the complete chloroplast genome. Furthermore, comparative analyses of the chloroplast genomes were performed to investigate the chloroplast genome evolution ofEriocaulon.Results: The 22Eriocaulonchloroplast genomes and the nine published samples were proved highly similar in genome size, gene content, and order. TheEriocaulonchloroplast genomes exhibited typical quadripartite structures with lengths from 150,222 bp to 151,584 bp. Comparative analyses revealed that four mutation hotspot regions (psbK-trnS,trnE-trnT,ndhF-rpl32, andycf1) could serve as effective molecular markers for further phylogenetic analyses and species identification ofEriocaulonspecies. Phylogenetic results supportedEriocaulonas a monophyletic group. The identified relationships supported the taxonomic treatment of sectionHeterochitonandLeucantherae, and the sectionHeterochitonwas the first divergent group. Phylogenetic tree supportedEriocaulonwas divided into five clades. The divergence times indicated that all the sections diverged in the later Miocene and most of the extantEriocaulonspecies diverged in the Quaternary. The phylogeny and divergence times supported rapid radiation occurred in the evolution history ofEriocaulon.Conclusion: Our study mostly supported the taxonomic treatment at the section level forEriocaulonspecies in China and demonstrated the power of phylogenetic resolution using whole chloroplast genome sequences. Comparative analyses of theEriocaulonchloroplast genome developed molecular markers that can help us better identify and understand the evolutionary history ofEriocaulonspecies in the future.

Populus not only has significant economic and ecological values, but also serves as a model tree that is widely used in the basic research of tree growth, physiology, and genetics. However, high levels of morphological variation and extensive interspecific hybridization of Populus pose an obstacle for taxonomy, and also to the understanding of phylogenetic interspecific relationships and biogeographical history. In this study, a total of 103 accessions representing almost all the wild species of Populus were collected and whole-genome re-sequenced to examine the phylogenetic relationships and biogeography history. On the basis of 12,916,788 nuclear single nucleotide polymorphisms (SNPs), we reconstructed backbone phylogenies using concatenate and coalescent methods, we highly disentangled the species relationships of Populus, and several problematic taxa were treated as species complexes. Furthermore, the phylogeny of the chloroplast genome showed extensive discordance with the trees from the nuclear genome data, and due to extensive chloroplast capture and hybridization of Populus species, plastomes could not accurately evaluate interspecies relationships. Ancient gene flow between clades and some hybridization events were also identified by ABBA–BABA analysis. The reconstruction of chronogram and ancestral distributions suggested that North America was the original region of this genus, and subsequent long dispersal and migration across land bridges were contributed to the modern range of Populus. The diversification of Populus mainly occurred in East Asia in recent 15 Ma, possibly promoted by the uplift of the Tibetan Plateau. This study provided comprehensive evidence on the phylogeny of Populus and proposed a four-subgeneric classification and a new status, subgenus Abaso. Meanwhile, ancestral distribution reconstruction with nuclear data advanced the understanding of the biogeographic history of Populus.

Climate change is an important driver of biodiversity patterns and species distributions, understanding how organisms respond to climate change will shed light on the conservation of endangered species. In this study, we modeled the distributional dynamics of a critically endangered montane shrub Lonicera oblata in response to climate change under different periods by building a comprehensive habitat suitability model considering the effects of soil and vegetation conditions. Our results indicated that the current suitable habitats for L. oblata are located scarcely in North China. Historical modeling indicated that L. oblata achieved its maximum potential distribution in the last interglacial period which covered southwest China, while its distribution area decreased for almost 50% during the last glacial maximum. It further contracted during the middle Holocene to a distribution resembling the current pattern. Future modeling showed that the suitable habitats of L. oblata contracted dramatically, and populations were fragmentedly distributed in these areas. As a whole, the distribution of L. oblata showed significant migration northward in latitude but no altitudinal shift. Several mountains in North China may provide future stable climatic areas for L. oblata, particularly, the intersections between the Taihang and Yan mountains. Our study strongly suggested that the endangered montane shrub L. oblata are sensitive to climate change, and the results provide new insights into the conservation of it and other endangered species.

Context: Habitat connectivity is essential for the long-term persistence of species, but is commonly disregarded in climate change impact studies. The Tibetan Plateau contains a biome rich in endemic ungulates, which are highly sensitive to climatic variations and deserve particular attention in conservation planning against climate change. Objectives: We evaluated the response and vulnerability of habitat connectivity to climate change for four ungulate species endemic to the Tibetan Plateau, and examined the robustness of protected areas (PAs) for the conservation of these species under climate change. Methods: For each focal species, we developed ecological niche models to predict the spatial variations in habitat under climate change and conducted a network-theoretical analysis to estimate the consequent changes in habitat connectivity. Moreover, we used the circuit theory to characterize dispersal patterns of these species and conducted gap analyses to estimate the contribution of existing PAs to the conservation of these species. Results: The four focal species will experience a remarkable connectivity loss that outpaced their habitat loss in response to climate change. Currently, 53.39 and 46.64% of the areas that could contribute to the habitat suitability and connectivity, respectively, of these species are unprotected. These values could further increase under future climate conditions. Conclusions: Climate-driven habitat variations may lead to the loss of key connectivity areas between the habitats of ungulates, causing disproportionate decrease in habitat connectivity. The existing PAs on the Tibetan Plateau are not robust for the conservation of the four ungulates. Adjustment of certain key PAs may help to address the conservation gaps.