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  • 1
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    Global consortium for the classification of fungi and fungus-like taxa (2023)
    Mushroom Research Foundation
    In:  Mycosphere vol. 14 no. 1, pp. 1960-2012
    Details
    Publication Date: 2024-04-22
    Description: The Global Consortium for the Classification of Fungi and fungus-like taxa is an international initiative of more than 550 mycologists to develop an electronic structure for the classification of these organisms. The members of the Consortium originate from 55 countries/regions worldwide, from a wide range of disciplines, and include senior, mid-career and early-career mycologists and plant pathologists. The Consortium will publish a biannual update of the Outline of Fungi and funguslike taxa, to act as an international scheme for other scientists. Notes on all newly published taxa at or above the level of species will be prepared and published online on the Outline of Fungi website (https://www.outlineoffungi.org/), and these will be finally published in the biannual edition of the Outline of Fungi and fungus-like taxa. Comments on recent important taxonomic opinions on controversial topics will be included in the biannual outline. For example, ‘to promote a more stable taxonomy in Fusarium given the divergences over its generic delimitation’, or ‘are there too many genera in the Boletales?’ and even more importantly, ‘what should be done with the tremendously diverse ‘dark fungal taxa?’ There are undeniable differences in mycologists’ perceptions and opinions regarding species classification as well as the establishment of new species. Given the pluralistic nature of fungal taxonomy and its implications for species concepts and the nature of species, this consortium aims to provide a platform to better refine and stabilise fungal classification, taking into consideration views from different parties. In the future, a confidential voting system will be set up to gauge the opinions of all mycologists in the Consortium on important topics. The results of such surveys will be presented to the International Commission on the Taxonomy of Fungi (ICTF) and the Nomenclature Committee for Fungi (NCF) with opinions and percentages of votes for and against. Criticisms based on scientific evidence with regards to nomenclature, classifications, and taxonomic concepts will be welcomed, and any recommendations on specific taxonomic issues will also be encouraged; however, we will encourage professionally and ethically responsible criticisms of others’ work. This biannual ongoing project will provide an outlet for advances in various topics of fungal classification, nomenclature, and taxonomic concepts and lead to a community-agreed classification scheme for the fungi and fungus-like taxa. Interested parties should contact the lead author if they would like to be involved in future outlines.
    Keywords: Plant Science ; Ecology ; Evolution ; Behavior and Systematics
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 2
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    Disentangling a complex genus: systematics, biogeography and bioactivity of the genus Phyllanthus L. and related genera of tribe Phyllantheae (Phyllanthaceae) (2022)
    Details
    Publication Date: 2024-01-12
    Description: The largest genus within the Phyllanthaceae family is a group called Phyllanthus L. Recent studies have shown, that Phyllanthus is paraphyletic with the genera Glochidion, Breynia and Synostemon nested within it. In this thesis, I study the evolution and systematics of Phyllanthus and how to solve the apparent paraphyly. First we explore past morphological subgroups to come to a subdivision, which was tested using molecular phylogenetics. Several species of Phyllanthus are also used in traditional medicine and by utilizing the living collections of the Hortus botanicus Leiden, we tested for antibacterial and antifungal bioactivity. The phylogeny resulting from this study is used to study the historical biogeography and diversification of the tribe and to propose a new classification where Phyllanthus is separated into several smaller genera.
    Keywords: Taxonomy ; Systematics ; Botany ; Evolution ; Biogeography ; Phyllanthus ; Phyllanthaceae
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/doctoralThesis
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  • 3
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    Numerous new records of tropical non-indigenous species in the Eastern Mediterranean highlight the challenges of their recognition and identification (2021)
    Pensoft Publishers
    In:  ZooKeys vol. 1010, pp. 1-95
    Details
    Publication Date: 2024-01-12
    Description: New data on 52 non-indigenous mollusks in the Eastern Mediterranean Sea is reported. Fossarus sp. (aff. aptus sensu Blatterer 2019), Coriophora lessepsiana Albano, Bakker & Sabelli, sp. nov., Cerithiopsis sp. aff. pulvis, Joculator problematicus Albano & Steger, sp. nov., Cerithiopsis sp., Elachisina sp., Iravadia aff. elongata, Vitrinella aff. Vitrinella sp. 1 (sensu Blatterer 2019), Melanella orientalis, Parvioris aff. dilecta, Odostomia cf. dalli, Oscilla virginiae, Parthenina cossmanni, Parthenina typica, Pyrgulina craticulata, Turbonilla funiculata, Cylichna collyra, Musculus coenobitus, Musculus aff. viridulus, Chavania erythraea, Scintilla cf. violescens, Iacra seychellarum and Corbula erythraeensis are new records for the Mediterranean. An unidentified gastropod, Skeneidae indet., Triphora sp., Hypermastus sp., Sticteulima sp., Vitreolina cf. philippi, Odostomia (s.l.) sp. 1, Henrya (?) sp., and Semelidae sp. are further potential new non-indigenous species although their status should be confirmed upon final taxonomic assessment. Additionally, the status of Dikoleps micalii, Hemiliostraca clandestina comb. nov. and H. athenamariae comb. nov. is changed to non-indigenous, range extensions for nine species and the occurrence of living individuals for species previously recorded from empty shells only are reported. Opimaphora blattereri Albano, Bakker & Sabelli, sp. nov. is described from the Red Sea for comparison with the morphologically similar C. lessepsiana Albano, Bakker & Sabelli, sp. nov. The taxonomic part is followed by a discussion on how intensive fieldwork and cooperation among institutions and individuals enabled such a massive report, and how the poor taxonomic knowledge of the Indo-Pacific fauna hampers non-indigenous species detection and identification. Finally, the hypothesis that the simultaneous analysis of quantitative benthic death assemblages can support the assignment of non-indigenous status to taxonomically undetermined species is discussed.
    Keywords: Animal Science and Zoology ; Ecology ; Evolution ; Behavior and Systematics ; Cerithiopsidae ; invasion biology ; Lessepsian invasion ; Mollusca ; new species ; Red Sea ; taxonomy ; Triphoridae
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 4
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    Shifts in dominance of benthic communities along a gradient of water temperature and turbidity in tropical coastal ecosystems (2024)
    In:  PeerJ vol. 12 no. e17132
    Details
    Publication Date: 2024-05-02
    Description: Tropical coastal benthic communities will change in species composition and relative dominance due to global (e.g., increasing water temperature) and local (e.g., increasing terrestrial influence due to land-based activity) stressors. This study aimed to gain insight into possible trajectories of coastal benthic assemblages in Raja Ampat, Indonesia, by studying coral reefs at varying distances from human activities and marine lakes with high turbidity in three temperature categories (〈31 °C, 31–32 °C, and 〉32 °C). The benthic community diversity and relative coverage of major benthic groups were quantified via replicate photo transects. The composition of benthic assemblages varied significantly among the reef and marine lake habitats. The marine lakes 〈31 °C contained hard coral, crustose coralline algae (CCA), and turf algae with coverages similar to those found in the coral reefs (17.4–18.8% hard coral, 3.5–26.3% CCA, and 15–15.5% turf algae, respectively), while the higher temperature marine lakes (31–32 °C and 〉32 °C) did not harbor hard coral or CCA. Benthic composition in the reefs was significantly influenced by geographic distance among sites but not by human activity or depth. Benthic composition in the marine lakes appeared to be structured by temperature, salinity, and degree of connection to the adjacent sea. Our results suggest that beyond a certain temperature (〉31 °C), benthic communities shift away from coral dominance, but new outcomes of assemblages can be highly distinct, with a possible varied dominance of macroalgae, benthic cyanobacterial mats, or filter feeders such as bivalves and tubeworms. This study illustrates the possible use of marine lake model systems to gain insight into shifts in the benthic community structure of tropical coastal ecosystems if hard corals are no longer dominant.
    Keywords: Benthic cover ; Biodiversity ; Coral reef ; Marine lake ; Anthropogenic pressures ; Raja ; Ampat (Indonesia)
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 5
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    Mollusc species response to drivers in space and time: Rise and demise of the unique Pontocaspian fauna (2020)
    Details
    Publication Date: 2024-01-12
    Description: The evolution of the Pontocaspian lakes and seas (Caspian Sea, Black Sea, Aral Sea) is characterised by major changes in water levels, which developed into a pulsating system of connected and isolated basins. During the late Quaternary (Late Pleistocene and Holocene), these basins have hosted a unique endemic biodiversity that experienced species turnover events. There are indications that the Pontocaspian species diversity is now in demise because of anthropogenic modifications of the ecosystem, such as habitat alteration, poaching, pollution and invasive species. Little data is available on faunal changes and resilience of Pontocaspian species to help discerning the effect of natural drivers and anthropogenic drivers on the endemic fauna, which is of direct relevance for conservation strategies. \nThis thesis aims to characterize species richness and abundance of fossil faunas to establish a baseline for comparison with the changing biodiversity of today. Mollusc species are used as the study group as they easily fossilize and are abundant in the geological record. They inform us about the composition of communities and how they change, and enable us to reconstruct environments (\xe2\x80\x98habitats\xe2\x80\x99). This is necessary in order to compare biodiversity through different time intervals and establish whether comparable habitats existed as those of today. A baseline of Pontocaspian mollusc faunas was achieved by analysing snapshots from the Caspian Sea basin and the Black Sea basin. Caspian mollusc assemblages are analysed from late Pleistocene (corresponding to the late Khazarian, Hyrcanian, early Khvalynian and late Khvalynian regional stages) and pre-20th century Holocene (Novocaspian) assemblages. Black Sea assemblages from the late Neoeuxinian and late Holocene are described. They are both compared with modern day assemblages. \nThis study shows clear indications of a Pontocaspian mollusc diversity crisis. Overall, in the 20th\xe2\x80\x9321st century, Pontocaspian molluscs have experienced a severe decline in species richness and abundance: a strong turnover towards invasive species in the Caspian basin, a strong habitat decline in parts of the Black Sea basin and a total obliteration in the Aral basin. The late Quaternary mollusc fauna snapshots demonstrate that endemic species dominated the Caspian communities with minor contributions of native species until the late Holocene. The Pontocaspian mollusc species richness in the Caspian Sea basin is higher than in the Pontocaspian habitats of the Black Sea basin, or the Aral Sea basin. Throughout the Late Quaternary, the strong natural fluctuations of Caspian Sea level affected shallow water bivalve species of the genus Didacna, but barely changed the overall composition of the mollusc faunas. Late Quaternary mollusc fauna snapshots of the Black Sea basin show very little change in the Pontocaspian species community since humans impacted the habitats. However, the Black Sea Pontocaspian mollusc communities are currently under severe threat of habitat deterioration and destruction. \nThis research indicates that the Caspian Sea could act as a source for Pontocaspian biota, hence conservation efforts are imperative there. The deeper parts (〉50 m water depth) possibly present a (partial) refuge, and urgent research is required to assess these habitats and their faunas. Future research should focus on improving the taxonomic framework to elucidate the identity of some Pontocaspian cryptic and sister species. We need more distribution and ecological data of current Pontocaspian species and more detailed biodiversity time series coupled with detailed environmental proxies to assess the nature of the Pontocaspian biodiversity crisis more comprehensively and plan conservation actions accordingly.
    Keywords: Pontocaspian ; Biodiversity ; Quaternary ; Mollusca ; Marie Sk\xc5\x82odowska-Curie Actions ; Action: H2020-MSCA-ITN-2014 ; PRIDE ; Grant agreement no: 642973
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/doctoralThesis
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  • 6
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    Patterns of coral species richness and reef connectivity in Malaysia (2016)
    Details
    Publication Date: 2024-01-12
    Description: Much remains to be discovered about the biodiversity of coral reefs in Malaysia, making this area a priority for coral reef research. This thesis aims to provide insights into the patterns of reef coral species richness and the degree of reef connectivity across Malaysia. For the species richness study, the scleractinian coral families Fungiidae, Agariciidae and Euphylliidae were selected as model taxa. Species of these families have a wide geographical distribution in the Indo-Pacific, and they can be found in a large range of reef habitats, from shallow coastal reefs to deep offshore environments. The connectivity of reefs were inferred by examining the genetic population structures of three reef invertebrate species, the mushroom coral Heliofungia actiniformis, the blue seastar Linckia laevigata, and the boring giant clam Tridacna crocea. Data on coral species and specimens of reef invertebrates were collected from reef areas along a geographical range from east to west Malaysia. Reef coral species richness patterns were revealed and indicated common and rare species, as well as potential endemics. Factors to explain the population structure and connectivity patterns across Malaysia are discussed. The findings in this thesis may be relevant for conservation and management of coral reef areas in Malaysia.
    Keywords: coral ; reef ; Malaysia ; Biodiversity ; Coral Triangle ; Population genetics ; Reef invertebrates ; Species distribution ; Scleractinia
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/doctoralThesis
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  • 7
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    Eight new Halophytophthora species from marine and brackish-water ecosystems in Portugal and an updated phylogeny for the genus (2022)
    In:  Persoonia - Molecular Phylogeny and Evolution of Fungi vol. 48, pp. 54-90
    Details
    Publication Date: 2024-03-24
    Description: During an oomycete survey in December 2015, 10 previously unknown Halophytophthora taxa were isolated from marine and brackish water of tidal ponds and channels in saltmarshes, lagoon ecosystems and river estuaries at seven sites along the Algarve coast in the South of Portugal. Phylogenetic analyses of LSU and ITS datasets, comprising all described Halophytophthora species, the 10 new Halophytophthora taxa and all relevant and distinctive sequences available from GenBank, provided an updated phylogeny of the genus Halophytophthora s.str. showing for the first time a structure of 10 clades designated as Clades 1–10. Nine of the 10 new Halophytophthora taxa resided in Clade 6 together with H. polymorphica and H. vesicula. Based on differences in morphology and temperature-growth relations and a multigene (LSU, ITS, Btub, hsp90, rpl10, tigA, cox1, nadh1, rps10) phylogeny, eight new Halophytophthora taxa from Portugal are described here as H. brevisporangia, H. celeris, H. frigida, H. lateralis, H. lusitanica, H. macrosporangia, H. sinuata and H. thermoambigua. Three species, H. frigida, H. macrosporangia and H. sinuata, have a homothallic breeding system while the remaining five species are sterile. Pathogenicity and litter decomposition tests are underway to clarify their pathological and ecological role in the marine and brackish-water ecosystems. More oomycete surveys in yet undersurveyed regions of the world and population genetic or phylogenomic analyses of global populations are needed to clarify the origin of the new Halophytophthora species.
    Keywords: Ecology ; Evolution ; Behavior and Systematics ; breeding system ; ecological role ; evolution ; lifestyle ; oomycetes ; Peronosporaceae ; Phytophthora
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 8
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    A quantitative assessment of the vegetation types on the island of St. Eustatius, Dutch Caribbean (2016)
    Elsevier BV
    In:  Global Ecology and Conservation vol. 7, pp. 59-69
    Details
    Publication Date: 2024-01-12
    Description: Caribbean dry forests are among the most endangered tropical ecosystems on earth. Several studies exist on their floristic composition and their recovery after natural or man-made disturbances, but little is known on the small Dutch Caribbean islands. In this study, we present quantitative data on plant species richness and abundance on St. Eustatius, one of the smallest islands of the Lesser Antilles. We collected and identified trees, shrubs, lianas and herbs in 11 plots of 25 x 25 m in different vegetation types. We compared their floristic composition and structure to vegetation surveys from roughly the same locations in the 1990s and 1950s. We found substantial differences among our 11 plots: vegetation types varied from evergreen forests to deciduous shrubland and open woodland. The number of tree species \xe2\x89\xa5 10 cm DBH ranged between one and 17, and their density between three and 82 per plot. In spite that all plots were subject to grazing by free roaming cattle, canopy height and floristic diversity have increased in the last decades. Invasive species are present in the open vegetation types, but not under (partly) closed canopy. Comparison with the earlier surveys showed that the decline of agriculture and conservation efforts resulted in the regeneration of dry forests between the 1950s and 2015. This process has also been reported from nearby islands and offers good opportunities for the future conservation of Caribbean dry forests.
    Keywords: Nature and Landscape Conservation ; Ecology ; Ecology ; Evolution ; Behavior and Systematics
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 9
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    Unforeseen importance of historical collections as baselines to determine biotic change of coral reefs: the Saba Bank case (2011)
    In:  Marine Ecology vol. 32, pp. 135-141
    Details
    Publication Date: 2024-01-12
    Description: Botanical and zoological collections may serve as archives for historical ecological research on the effects of global change and human impact on coral reef biota. Museum collections may harbour old specimens of reef-dwelling species that have become locally extinct. Such collections also help to determine whether early records of invasive species can be obtained from times when they were not yet recognized as such. A case study (2006) involving Saba Bank, Caribbean Netherlands (former Netherlands Antilles), suggests that the coral reef fauna here may have become impoverished when compared with data obtained during an earlier expedition in 1972. However, the 1972 sampling may have been incomplete, as it was performed by professional divers who were not trained taxonomists, whereas the collecting in 2006 was done by experienced marine biologists who knew the taxa they were sampling. As Saba Bank has been under stress due to the anchoring of large vessels, and invasive species have been a potential threat as well, future studies are needed to obtain more insights into the changing reef biota of Saba Bank. Using this Saba Bank example, we want to address the importance of natural history collections as reservoirs of valuable data relevant to coral reef biodiversity studies in a time of global change. As such, these collections are still underexplored and underexploited.
    Keywords: Biodiversity ; global change biology ; historical ecology ; invasive species ; local extinctions ; natural history museums
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 10
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    Dispatch from the field: ecology of ground-web-building spiders with description of a new species (Araneae, Symphytognathidae) (2014)
    Pensoft Publishers
    In:  Biodiversity Data Journal vol. 2, pp. e1076-e1076
    Details
    Publication Date: 2024-01-12
    Keywords: Ecology ; Ecology ; Evolution ; Behavior and Systematics
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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