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  • Journals
  • Articles  (19)
  • taxonomy  (9)
  • Biodiversity  (6)
  • Small-scale Fisheries  (5)
  • 1
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    Navigating taxonomic complexity: a use-case report on FAIR scientific name-matching service usage in ENVRI Research infrastructures (2024)
    Pensoft Publishers
    In:  Research Ideas and Outcomes vol. 10 no. e121871
    Details
    Publication Date: 2024-04-12
    Description: This paper presents a use-case conducted within the ENVRI FAIR project, examining challenges and opportunities in deploying FAIR-aligned (ensuring Findability, Accessibility, Interoperability and Reusability) scientific name-matching services across Environmental Research Infrastructures (RIs). Six services were tested using various name variations, revealing inconsistencies in match types, status reporting and handling of canonical forms and typos. These diversities pose challenges for RI data pipelines and interoperability. The paper underscores the importance of standardised tools, enhanced communication, training, collaboration and shared resources. Addressing these needs can facilitate more effective FAIR implementation within the ENVRI community and biodiversity research. This, in turn, will empower RIs to seamlessly integrate and leverage scientific names, unlocking the full potential of their data for research and policy implementation.
    Keywords: scientific names ; taxonomy ; biodiversity ; FAIR ; ENVRI
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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  • 2
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    Multiple gene genealogies and phenotypic characters differentiate several novel species of Mycosphaerella and related anamorphs\non banana (2008)
    In:  Persoonia - Molecular Phylogeny and Evolution of Fungi vol. 20 no. 1, pp. 19-37
    Details
    Publication Date: 2024-01-12
    Description: Three species of Mycosphaerella, namely M. eumusae, M. fijiensis, and M. musicola are involved in the Sigatoka disease complex of bananas. Besides these three primary pathogens, several additional species of Mycosphaerella or their anamorphs have been described from Musa. However, very little is known about these taxa, and for the majority of these species no culture or DNA is available for study. In the present study, we collected a global set of Mycosphaerella strains from banana, and compared them by means of morphology and a multi-gene nucleotide sequence data set. The phylogeny inferred from the ITS region and the combined data set containing partial gene sequences of the actin gene, the small subunit mitochondrial ribosomal DNA and the histone H3 gene revealed a rich diversity of Mycosphaerella species on Musa. Integration of morphological and molecular data sets confirmed more than 20 species of Mycosphaerella (incl. anamorphs) to occur on banana. This study reconfirmed the previously described presence of Cercospora apii, M. citri and M. thailandica, and also identified Mycosphaerella communis, M. lateralis and Passalora loranthi on this host. Moreover, eight new species identified from Musa are described, namely Dissoconium musae, Mycosphaerella mozambica, Pseudocercospora assamensis, P. indonesiana, P. longispora, Stenella musae, S. musicola, and S. queenslandica.
    Keywords: Mycosphaerella ; phylogeny ; Sigatoka disease complex ; taxonomy
    Repository Name: National Museum of Natural History, Netherlands
    Type: info:eu-repo/semantics/article
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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: 2024-05-11
    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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    Samudra Report No.88, December 2022 (2023)
    International Collective in Support of Fishworkers (ICSF) | India
    Details
    Publication Date: 2023-04-07
    Description: The International Collective in Support of Fishworkers (ICSF) has released the latest edition of its popular fisheries publication – SAMUDRA Report, its triannual journal on fisheries, communities and livelihoods. SAMUDRA Report No. 88, dated December 2022, has a special focus on the International Year of Artisanal Fisheries and Aquaculture (IYAFA 2022), with reports from several regions of how the year was celebrated as well as the ICSF Statements made at the IYAFA 2022 Asia Workshop. The editorial Comment points to how the abiding message of IYAFA 2022 should be that the social pillar of sustainable development ought to be strengthened to protect the future of lives and livelihoods in the small-scale fisheries subsector. A report from the United Nations Oceans Conference 2022 details how representatives of small-scale fishing communities – the most numerous ocean users –launched a Call to Action in a conerence that brought together two main protagonists: those clamouring for reforms in ocean governance to ‘Save Our Ocean’, and those clamouring for reforms to open up the ‘Blue Economy’. The article from Taiwan says that securing the rights of migrant workers in the nation’s fisheries is an ongoing and evolving process... SAMUDRA Report No. 88 can be accessed at https://www.icsf.net/samudra-articles.php?id=9537
    Description: Published
    Description: Refereed
    Keywords: ICSF ; Samudra Report ; IYAFA ; SSF Guidelines ; Small-scale Fisheries ; Sustainable Development ; Asia ; COFI ; Nigeria ; Taiwan ; Forced Labour ; Migrant workers ; Livelihoods ; Tamil Nadu ; Shrimp ; India ; Aquaculture ; Bangladesh ; Hilsa ; IPC ; Lake Victoria ; MPA ; Conservation ; Obituary ; Film Festival ; France ; Fishing Communities ; Small-scale Fisheries
    Repository Name: AquaDocs
    Type: Book/Monograph/Conference Proceedings
    Format: 68pp.
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  • 8
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    Taxonomy, ecology, and conservation status of Philippine Rafflesia\n(Rafflesiaceae) (2009)
    In:  Blumea: Biodiversity, Evolution and Biogeography of Plants vol. 54 no. 1/3, pp. 77-93
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    Publication Date: 2024-01-12
    Description: The number of Rafflesia species (Rafflesiaceae) reported for the Philippines has grown explosively from two before 2002 to ten or eleven presently. We present an overview of the current knowledge of Philippine Rafflesia by providing a comprehensive account of all the recognized species with their taxonomy, distribution and ecology, plus a key and photographs to aid in identification. Their conservation status and that of the rain forest habitats they require is discussed.
    Keywords: Conservation ; ecology ; Philippines ; Rafflesia ; Rafflesiaceae ; taxonomy
    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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    Baffling shades of blue: Addressing the impacts of the blue economy on small-scale fisheries in Latin America (2024)
    International Collective in Support of Fishworkers (ICSF) | India
    Details
    Publication Date: 2024-01-08
    Description: The incessant noise over ‘Blue Economy’ and ‘Blue Growth’ leaves artisanal and small-scale fishers dazed and confused. This report works through that confusion. It draws on scholarship from the trenches and the research centres across ten Latin American countries. From extensive interviews, policy reviews, analyses of finances and online datasets. In granular detail, it examines how Blue Growth affects artisanal fishers and their need for equity and justice. Through the baffling shades of blue—conflicts, priorities, the politics of managing our coasts and seas—this report finds clear light. It lays down the agenda for fishworkers and organizations working for them.
    Description: Published
    Description: Refereed
    Keywords: Latin America ; Small-scale Fisheries ; Coastal States ; Artisanal Fisheries ; Equity ; Fishworkers ; Brazil ; Chile ; Peru ; Ecuador ; Colombia ; Panama ; Costa Rica ; Nicaragua ; Honduras ; Guatemala ; ICSF ; Small-scale Fisheries
    Repository Name: AquaDocs
    Type: Book/Monograph/Conference Proceedings
    Format: 125p.
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