Gymnosperms on the EDGE

Driven by limited resources and a sense of urgency, the prioritization of species for conservation has been a persistent concern in conservation science. Gymnosperms (comprising ginkgo, conifers, cycads, and gnetophytes) are one of the most threatened groups of living organisms, with 40% of the species at high risk of extinction, about twice as many as the most recent estimates for all plants (i.e. 21.4%). This high proportion of species facing extinction highlights the urgent action required to secure their future through an objective prioritization approach. The Evolutionary Distinct and Globally Endangered (EDGE) method rapidly ranks species based on their evolutionary distinctiveness and the extinction risks they face. EDGE is applied to gymnosperms using a phylogenetic tree comprising DNA sequence data for 85% of gymnosperm species (923 out of 1090 species), to which the 167 missing species were added, and IUCN Red List assessments available for 92% of species. The effect of different extinction probability transformations and the handling of IUCN data deficient species on the resulting rankings is investigated. Although top entries in our ranking comprise species that were expected to score well (e.g. Wollemia nobilis, Ginkgo biloba), many were unexpected (e.g. Araucaria araucana). These results highlight the necessity of using approaches that integrate evolutionary information in conservation science

Acclimation and Hardening of a Slow-Growing Woody Species Emblematic to Western North America From in Vitro Plantlets

Premise: Determining the tolerance of plant populations to climate change requires the development of biotechnological protocols producing genetically identical individuals used for genotype-by-environment experiments. Such protocols are missing for slow-growth, woody plants; to address this gap, this study uses Artemisia tridentata, a western North American keystone shrub, as model. Methods and Results: The production of individual lines is a two-step process: in vitro propagation under aseptic conditions followed by ex vitro acclimation and hardening. Due to aseptic growth conditions, in vitro plantlets exhibit maladapted phenotypes, and this protocol focuses on presenting an approach promoting morphogenesis for slow-growth, woody species. Survival was used as the main criterion determining successful acclimation and hardening. Phenotypic changes were confirmed by inspecting leaf anatomy, and shoot water potential was used to ensure that plantlets were not water stressed. Conclusions: Although our protocol has lower survival rates (11–41%) compared to protocols developed for herbaceous, fast-growing species, it provides a benchmark for slow-growth, woody species occurring in dry ecosystems

The abrupt climate change at the Eocene-Oligocene boundary and the emergence of South-East Asia triggered the spread of sapindaceous lineages

Background and Aims Paleoclimatic data indicate that an abrupt climate change occurred at the Eocene-Oligocene (E-O) boundary affecting the distribution of tropical forests on Earth. The same period has seen the emergence of South-East (SE) Asia, caused by the collision of the Eurasian and Australian plates. How the combination of these climatic and geomorphological factors affected the spatio-temporal history of angiosperms is little known. This topic is investigated by using the worldwide sapindaceous clade as a case study. Methods Analyses of divergence time inference, diversification and biogeography (constrained by paleogeography) are applied to a combined plastid and nuclear DNA sequence data set. Biogeographical and diversification analyses are performed over a set of trees to take phylogenetic and dating uncertainty into account. Results are analysed in the context of past climatic fluctuations. Key Results An increase in the number of dispersal events at the E-O boundary is recorded, which intensified during the Miocene. This pattern is associated with a higher rate in the emergence of new genera. These results are discussed in light of the geomorphological importance of SE Asia, which acted as a tropical bridge allowing multiple contacts between areas and additional speciation across landmasses derived from Laurasia and Gondwana. Conclusions This study demonstrates the importance of the combined effect of geomorphological (the emergence of most islands in SE Asia approx. 30 million years ago) and climatic (the dramatic E-O climate change that shifted the tropical belt and reduced sea levels) factors in shaping species distribution within the sapindaceous clad

Centralized Project-Specific Metadata Platforms: Toolkit Provides New Perspectives on Open Data Management within Multi-Institution and Multidisciplinary Research Projects

Open science and open data within scholarly research programs are growing both in popularity and by requirement from grant funding agencies and journal publishers. A central component of open data management, especially on collaborative, multidisciplinary, and multi-institutional science projects, is documentation of complete and accurate metadata, workflow, and source code in addition to access to raw data and data products to uphold FAIR (Findable, Accessible, Interoperable, Reusable) principles. Although best practice in data/metadata management is to use established internationally accepted metadata schemata, many of these standards are discipline-specific making it difficult to catalog multidisciplinary data and data products in a way that is easily findable and accessible. Consequently, scattered and incompatible metadata records create a barrier to scientific innovation, as researchers are burdened to find and link multidisciplinary datasets. One possible solution to increase data findability, accessibility, interoperability, reproducibility, and integrity within multi-institutional and interdisciplinary projects is a centralized and integrated data management platform. Overall, this type of interoperable framework supports reproducible open science and its dissemination to various stakeholders and the public in a FAIR manner by providing direct access to raw data and linking protocols, metadata and supporting workflow materials

Shedding new light on the origin and spread of the brinjal eggplant (Solanum melongena L.; Solanaceae) and its wild relatives

• While brinjal eggplant (Solanum melongena L.) is the second most important solanaceaous vegetable crop, we lack firm knowledge of its evolutionary relationships. This in turn limits efficient use of crop wild relatives in eggplant improvement. Here, we examine the hypothesis of linear step-wise expansion of the eggplant group from Africa to Asia. • We use museum collections to generate nuclear and full-plastome data for all species of the eggplant clade. We combine a phylogenomic approach with distribution data to infer a biogeographic scenario for the clade. • The eggplant clade has Pleistocene origins in northern Africa. Dispersions to tropical Asia gave rise to Solanum insanum, the wild progenitor of the eggplant, and to Africa distinct lineages of widespread and southern-African species. Results suggest that spread of species to southern Africa is recent and was likely facilitated by large mammal herbivores feeding on Solanum fruits (African elephant, impala). • Rather than a linear ‘Out Of Africa’ sequence, our results are more consistent with an initial event into Asia, and subsequent wide dispersion and differentiation across Africa driven by large mammalian herbivores. Our evolutionary results will impact future work on eggplant domestication and use of wild relatives in breeding of this increasingly important solanaceous crop.Peer reviewe

Otto Warburg and his contributions to the screw pine family (Pandanaceae)

Otto Warburg (1859–1938) had a great interest in tropical botany. He travelled in South-East Asia and the South Pacific between 1885 and 1889 and brought back a considerable collection of plant specimens from this expedition later donated to the Royal Botanical Museum in Berlin. Warburg published the first comprehensive monograph on the family Pandanaceae in 1900 in the third issue of Das Pflanzenreich established and edited by Adolf Engler (1844–1930). The aim of this article is to clarify the taxonomy, nomenclature and typification of Warburg's contributions to the Pandanaceae. Considerable parts of Warburg's original material was destroyed in Berlin during World War II but duplicates survived, shared by Engler and Warburg with Ugolino Martelli (1860–1934). Martelli was an expert on the family and he assembled a precious herbarium of Pandanaceae that was later donated to the Museo di Storia Naturale dell'Università degli Studi di Firenze. Warburg published 86 new names in Pandanaceae between 1898 and 1909 (five new sections, 69 new species, five new varieties, two new combinations and five replacement names). A complete review of the material extant in B and FI led to the conclusion that 38 names needed a nomenclatural act: 34 lectotypes, three neotypes and one epitype are designated here. Twenty new synonyms are also proposed. One Freycinetia name and six Pandanus names are considered as incertae sedis. A total of 21 names published by Warburg are accepted: 11 in Freycinetia and ten in Pandanus. In addition, four names published in Pandanus by Warburg serve as the basionyms of accepted names in the genus Benstonea

Malagasy Dracaena Vand. ex L. (Ruscaceae): an investigation of discrepancies between morphological features and spatial genetic structure at a small evolutionary scale

Malagasy Dracaena (Ruscaceae) are divided into four species and 14 varieties, all of them showing a high level of morphological diversity and a putatively artefactual circumscription. In order to reveal relationships between those entangled entities, a span of Malagasy Dracaena were sampled and analyzed using cpDNA sequences and AFLP. The cpDNA analyses resolved three biogeographic clades that are mostly inconsistent with morphology, since similar phenotypes are found across the three clades. Bayesian inference clustering analyses based on the AFLP were not in accordance with the cpDNA analysis. This result might be explained by (1) a recent origin of the Malagasy species of Dracaena with an incomplete sorting of chloroplast lineages; (2) a high amount of hybridizations; (3) a complex migration pattern. Interestingly, when the AFLP are analyzed using the parsimony criterion, a trend towards a directional evolution of inflorescence types and ecological features was observed. This might be considered either as phenotypic plasticity and/or as the result of fast evolution in flower characters according to habitat preferences. Overall, our results point to the difficulty of defining evolutionarily significant units in Malagasy Dracaena, emphasizing the complex speciation processes taking place in tropical region

Testing for Genomic Control of Ephemeral Leaf Phenotypes in \u3cem\u3eArtemisia tridentata\u3c/em\u3e

Climate change is driving ever increasing ecological stresses on native plant communities. Furthering our understanding of how plants, particularly keystone species of important ecosystems, deal with these stresses will be essential for the success of conservation and restoration efforts Artemisia tridentate is a keystone species of western North America and has experience sharp population declines in recent decades due to human activity. During the late winter and early spring months, A. tridentate grows large ephemeral leaves that provide more surface area for light capture and photosynthesis while resources are abundant. Then, during the onset of drought stress during the summer months, the ephemeral leaves will drop. We hypothesize that the timing of ephemeral leaf dropping is correlated to important water use efficiency traits and are under genomic control. To test these hypotheses, plants of a population of A. tridentate near Marsing, ID were tracked and phenotyped from late spring though summer. Early and late ephemeral leaf dropping individuals then had their genomes sequenced for genetic association tests. We find that there are statistically significant differences for leaf phenotypes among individuals, suggesting that the water use efficiency will vary within the population. Genetic tests are on-going to determine if these traits are genetically determined

\u3cem\u3eAlectryon vitiensis\u3c/em\u3e: A New Species of Sapindaceae Endemic to Fiji

A new species of Alectryon Gaertn. (Sapindaceae) endemic to the Fijian archipelago is described as A. vitiensis Buerki, Lowry, Munzinger & Callm. based on morphological and molecular evidence. It can easily be distinguished from the two congeners currently known from Fiji by its smaller leaves, subsessile leaflets, apetalous flowers, and crested fruits. A phylogenetic analysis using ITS sequence data shows that the new species is closely related to two Australian endemics, A. diversifolius (F. Muell.) S. T. Reynolds and A. oleifolius (Desf.) S. T. Reynolds, but differs in having compound leaves covered with a golden indument. Moreover, the Australian taxa are associated with dry habitats, whereas the new species from Fiji is confined to evergreen humid forests. Among apetalous species (all of which belong to a well-supported clade), A. vitiensis morphologically most closely resembles the generic type, A. excelsus Gaertn., endemic to New Zealand, but they differ from one another in the type of indument covering their branches and leaves and the arrangement, shape, and nature of the indument on their leaflets; and they belong to different clades. The new species is provisionally assigned a conservation status of “Endangered” according to the IUCN Red List criteria