cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28054860.v1
title: Four freshwater cyrtophorids from the Lake Weishan Wetland, China (Protozoa, Ciliophora): taxonomy, phylogeny, and description of a new species

description: It has long been recognized that ciliates play a crucial role in microbial food webs in all kinds of biotopes. However, basic information about their species diversity, geographic distribution, and ecological function is scant, and molecular data are unavailable for most species. As a new contribution, a comprehensive survey of the diversity of ciliates in the Lake Weishan freshwater Wetland in northern China has recently been undertaken. In the present study, four species of the subclass Cyrtophoria were morphologically investigated including a new one, <i>Phascolodon paravorticella</i> sp. nov., which is characterized by having a body size 40–55 × 25–40 μm, 4 or 5 right and 4–7 left kineties, 20–22 nematodesmal rods, and two diagonally positioned contractile vacuoles. Three known forms, namely <i>Gastronauta aloisi</i>, <i>Trithigmostoma cucullulus</i>, and <i>Trithigmostoma steini</i>, are re-described based on the Lake Weishan Wetland populations. Additionally, phylogenetic analyses based on 18S rRNA gene sequences support the validity of the family Gastronautidae and imply that <i>Trithigmostoma cucullulus</i> contains cryptic species. The phylogenetic relationship between the families Chilodonellidae and Gastronautidae remains uncertain. http://zoobank.org/urn:lsid:zoobank.org:pub:6AF4F5E2-A7F1-4E32-A080-2B6B2435DC2A
DOI: 10.3535/zsk-l7k-zvw
title: Iphione muricata (Lamarck, 1818)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.25551195
title: Integrative taxonomy of <i>Micrurus ibiboboca</i> (Merrem, 1820) (Serpentes, Elapidae) reveals three new species of coral snake

description: The elapid coral snake genus <i>Micrurus</i> is a group of Neotropical venomous snakes divided into two clades composed of species with monadal and triadal colour patterns. Historically, several studies have considered the triadal <i>Micrurus ibiboboca</i> a species complex. Here, we evaluate the cryptic diversity of the <i>M. ibiboboca</i> species complex based on a molecular phylogenetic analysis performed on a dataset that comprised 25 described species of <i>Micrurus</i> and five sequenced genes (one nuclear and four mitochondrial). Furthermore, we contrasted our molecular results with a comprehensive morphological study using external and hemipenial characters. Our phylogenetic results recovered three well-supported clades for triadal colour patterns: (1) <i>M. ortoni</i>, <i>M. surinamensis</i>, <i>M. potyguara</i>, <i>M. filiformis</i>, <i>M. lemniscatus</i>, <i>M. carvalhoi</i>, <i>M. diutius</i>, and <i>M. helleri</i>; (2) <i>M. dissoleucus</i> and <i>M. mipartitus</i>; and (3) <i>M. frontalis</i>, <i>M. brasiliensis</i>, <i>M. obscurus</i>, <i>M. altirostris</i>, <i>M. baliocoryphus</i>, <i>M. pyrrhocryptus</i>, and the <i>M. ibiboboca</i> species complex. Based on our results, we redescribe <i>M. ibiboboca</i> and describe three new species of coral snake from Northeastern and Southeastern Brazil, previously confused with <i>M. ibiboboca.</i> http://zoobank.org/urn:lsid:zoobank.org:pub:44DE4ADA-1DE3-46E1-A288-CBC5E37105E5
DOI: 10.6084/m9.figshare.25551195.v1
title: Integrative taxonomy of <i>Micrurus ibiboboca</i> (Merrem, 1820) (Serpentes, Elapidae) reveals three new species of coral snake

description: The elapid coral snake genus <i>Micrurus</i> is a group of Neotropical venomous snakes divided into two clades composed of species with monadal and triadal colour patterns. Historically, several studies have considered the triadal <i>Micrurus ibiboboca</i> a species complex. Here, we evaluate the cryptic diversity of the <i>M. ibiboboca</i> species complex based on a molecular phylogenetic analysis performed on a dataset that comprised 25 described species of <i>Micrurus</i> and five sequenced genes (one nuclear and four mitochondrial). Furthermore, we contrasted our molecular results with a comprehensive morphological study using external and hemipenial characters. Our phylogenetic results recovered three well-supported clades for triadal colour patterns: (1) <i>M. ortoni</i>, <i>M. surinamensis</i>, <i>M. potyguara</i>, <i>M. filiformis</i>, <i>M. lemniscatus</i>, <i>M. carvalhoi</i>, <i>M. diutius</i>, and <i>M. helleri</i>; (2) <i>M. dissoleucus</i> and <i>M. mipartitus</i>; and (3) <i>M. frontalis</i>, <i>M. brasiliensis</i>, <i>M. obscurus</i>, <i>M. altirostris</i>, <i>M. baliocoryphus</i>, <i>M. pyrrhocryptus</i>, and the <i>M. ibiboboca</i> species complex. Based on our results, we redescribe <i>M. ibiboboca</i> and describe three new species of coral snake from Northeastern and Southeastern Brazil, previously confused with <i>M. ibiboboca.</i> http://zoobank.org/urn:lsid:zoobank.org:pub:44DE4ADA-1DE3-46E1-A288-CBC5E37105E5
DOI: 10.6084/m9.figshare.27925315
title: <i>Pampacladius</i>, a new genus of Orthocladiinae (Diptera: Chironomidae) and comments on the Gondwana biogeography

description: <i>Pampacladius gaucho</i> Donato, Zanotto, Arpellino et Siri gen. nov., sp. nov. is described and illustrated based on all life stages from the Pampean province in Central Argentina. This genus can be separated from all other male adult Orthocladiinae by absence of virga; anal point placed slightly forward on tergite IX with apical part short and reduced to a hump with posterior elongation; more than two scalpellate median acrostichals; bare wings; straight Cu<sub>1</sub>; presence of a squamal fringe; and well developed pulvilli. Molecular analyses support the status of <i>Pampacladius</i> as a new genus within Orthocladiinae. The analyses place the new form closely related to <i>Echinocladius</i> Cranston, <i>Paulfreemania</i> Cranston and Krosch, genus ‘Australia’ (called by Cranston after Brundin’s notebook name for two very distinctive pupae), <i>Tonnoirocladius</i> Cranston, and <i>Naonella</i> Boothroyd. Event-based biogeographical analysis found this clade as part of a major clade whose ancestral distribution was on continents that were part of Gondwana. This ‘late Gondwanan’ clade was dated in 76.4 Mya (95% HPD: 90.4–61.5 Mya) and in such scenario several events took place linking <i>Pampacladius gaucho</i> with other species belonging to Austral areas, mainly Australia and New Zealand. Genus <i>Pampacladius</i>: http://zoobank.org/urn:lsid:zoobank.org:act:A396B0B1-C1CD-4D31-96A7-8D44A650D6F5 Species <i>Pampacladius gaucho</i>: http://zoobank.org/urn:lsid:zoobank.org:act:B426694E-3EDA-4E32-AFB9-AD8E272546CF
DOI: 10.6084/m9.figshare.27925315.v1
title: <i>Pampacladius</i>, a new genus of Orthocladiinae (Diptera: Chironomidae) and comments on the Gondwana biogeography

description: <i>Pampacladius gaucho</i> Donato, Zanotto, Arpellino et Siri gen. nov., sp. nov. is described and illustrated based on all life stages from the Pampean province in Central Argentina. This genus can be separated from all other male adult Orthocladiinae by absence of virga; anal point placed slightly forward on tergite IX with apical part short and reduced to a hump with posterior elongation; more than two scalpellate median acrostichals; bare wings; straight Cu<sub>1</sub>; presence of a squamal fringe; and well developed pulvilli. Molecular analyses support the status of <i>Pampacladius</i> as a new genus within Orthocladiinae. The analyses place the new form closely related to <i>Echinocladius</i> Cranston, <i>Paulfreemania</i> Cranston and Krosch, genus ‘Australia’ (called by Cranston after Brundin’s notebook name for two very distinctive pupae), <i>Tonnoirocladius</i> Cranston, and <i>Naonella</i> Boothroyd. Event-based biogeographical analysis found this clade as part of a major clade whose ancestral distribution was on continents that were part of Gondwana. This ‘late Gondwanan’ clade was dated in 76.4 Mya (95% HPD: 90.4–61.5 Mya) and in such scenario several events took place linking <i>Pampacladius gaucho</i> with other species belonging to Austral areas, mainly Australia and New Zealand. Genus <i>Pampacladius</i>: http://zoobank.org/urn:lsid:zoobank.org:act:A396B0B1-C1CD-4D31-96A7-8D44A650D6F5 Species <i>Pampacladius gaucho</i>: http://zoobank.org/urn:lsid:zoobank.org:act:B426694E-3EDA-4E32-AFB9-AD8E272546CF
DOI: 10.3535/hkd-sfs-ekz
title: Tomopteris (Johnstonella) helgolandica (Greeff, 1879)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/4l8-0ct-k2g
title: Tomopteris (Johnstonella) helgolandica (Greeff, 1879)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/sxm-nxf-why
title: Neoamphitrite figulus (Dalyell, 1853)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.25690247
title: Multiple sources of evidence unravel a complex taxonomic history: the new genus <i>Leonoria</i> of the Spermacoce clade (Spermacoceae-Rubiaceae)

description: For a long time, the taxonomic status of <i>Denscantia</i>, a genus endemic to the Atlantic Forest along the Brazilian coast, has been a topic of discussion. Phylogenetic analyses using two nuclear and four chloroplast DNA markers from 82 accessions representing 19 genera of the Spermacoce clade (tribe Spermacoceae, Rubiaceae) confirm that the Brazilian genus <i>Denscantia</i> is biphyletic. Together with the recovered phylogenetic relationships, the analyses of reproductive morphological characters, leaf morphology and anatomy, histochemical, geographic distribution ranges, and ecological niche derived from climatic space further demonstrate that <i>Denscantia calcicola</i> is a distinct lineage from the other <i>Denscantia</i> species. Therefore, the above-mentioned species should be taxonomically designated as a new monospecific genus, <i>Leonoria</i>. Significant morphological differences between <i>Leonoria</i> and <i>Denscantia</i> were found in inflorescence organization, style shape, fruit dehiscence and pollen morphology. Morphological and anatomical variation among leaf traits was found in epidermal cells, trichome distribution, mesophyll histochemistry and vascular organization. The analysis of occurrence records of 207 specimens demonstrates a clear ecological distinction between of <i>Denscantia</i> s.s. and <i>Leonoria</i>, which is ecologically confined to limestone outcrops associated with seasonally dry forests. The current study highlights the importance of an integrative taxonomic approach combining multiple sources of evidence to unravel complex taxonomic history within Spermacoceae.
DOI: 10.6084/m9.figshare.25889098
title: Molecular and morphological examinations show diversity in the genus <i>Amphidromus</i> (Camaenidae: Stylommatophora) in Bangladesh

description: Establishing a robust taxonomic foundation is crucial for biodiversity conservation. Bangladesh harbours potentially unique biodiversity that remains inadequately explored. Concurrently, its biodiversity faces substantial pressure owing to environmental changes; thus, an urgent assessment of its current status is required. In this study, we focused on the understudied land snails of Bangladesh, the genus <i>Amphidromus</i>. Utilizing 45 samples collected from 13 sites during a 2018–2022 survey, as well as museum specimens and literature sources, we conducted molecular phylogenetic analyses and the haplotype network of the mitochondrial 16S ribosomal RNA, cytochrome c oxidase subunit I and nuclear internal transcribed spacer 1, examined shell shapes using elliptical Fourier features, and evaluated shell size and band patterns. Based on the molecular and morphological examinations, we identified five <i>Amphidromus</i> species in Bangladesh, including two potentially undescribed species, each recorded at a single site in the Chittagong Division. The dominant species, <i>A. globonevilli</i>, is widely distributed in central and eastern Bangladesh, revealing a geographically structured mitochondrial DNA diversity. Furthermore, in the museum specimens, we confirmed the occurrence of <i>A. sinensis vicaria</i> and <i>A. sylheticus</i>, the latter being newly discovered in Bangladesh. These two species may be limited to the eastern part of Bangladesh and represent low-density species. Although the taxonomic relationship of these species with <i>A. globonevilli</i> remains unclear and further studies with molecular data are warranted, our findings provide the basis for further understanding and conservation of biodiversity in Bangladesh.
DOI: 10.6084/m9.figshare.25889098.v1
title: Molecular and morphological examinations show diversity in the genus <i>Amphidromus</i> (Camaenidae: Stylommatophora) in Bangladesh

description: Establishing a robust taxonomic foundation is crucial for biodiversity conservation. Bangladesh harbours potentially unique biodiversity that remains inadequately explored. Concurrently, its biodiversity faces substantial pressure owing to environmental changes; thus, an urgent assessment of its current status is required. In this study, we focused on the understudied land snails of Bangladesh, the genus <i>Amphidromus</i>. Utilizing 45 samples collected from 13 sites during a 2018–2022 survey, as well as museum specimens and literature sources, we conducted molecular phylogenetic analyses and the haplotype network of the mitochondrial 16S ribosomal RNA, cytochrome c oxidase subunit I and nuclear internal transcribed spacer 1, examined shell shapes using elliptical Fourier features, and evaluated shell size and band patterns. Based on the molecular and morphological examinations, we identified five <i>Amphidromus</i> species in Bangladesh, including two potentially undescribed species, each recorded at a single site in the Chittagong Division. The dominant species, <i>A. globonevilli</i>, is widely distributed in central and eastern Bangladesh, revealing a geographically structured mitochondrial DNA diversity. Furthermore, in the museum specimens, we confirmed the occurrence of <i>A. sinensis vicaria</i> and <i>A. sylheticus</i>, the latter being newly discovered in Bangladesh. These two species may be limited to the eastern part of Bangladesh and represent low-density species. Although the taxonomic relationship of these species with <i>A. globonevilli</i> remains unclear and further studies with molecular data are warranted, our findings provide the basis for further understanding and conservation of biodiversity in Bangladesh.
DOI: 10.6084/m9.figshare.26075930
title: Underestimated diversity in <i>Characidium</i> (Characiformes: Crenuchidae) from Neotropical rivers revealed by an integrative approach

description: <i>Characidium</i> represents the most widely distributed and species-rich fish genus within the family Crenuchidae in the Neotropical region, with numerous species described over the last decade. Despite this taxonomic progress, the understanding of species boundaries and population variation within the genus remains limited. In response, an integrative study was undertaken, utilizing both morphological and molecular data from neotropical freshwater ecoregions with rivers that drain the Brazilian northeastern. The primary objective of this investigation was to elucidate taxonomic delimitations and, where relevant, propose new species hypotheses. Our results propose the existence of 15 operational taxonomic units (OTUs) as species hypotheses. Among these, 10 were identified as valid species, four represented morphotypes that hold the potential of constituting new species, and one OTU was determined as a new species, corroborated by all proposed delimitation methods. Our results demonstrated discrepancies between morphological and molecular data, highlighting the challenges in defining taxonomic boundaries within <i>Characidium</i>. Moreover, our findings provided insights into the intricate diversification history of <i>Characidium</i> species, applied to the species that occur in northeastern Brazilian drainages. We proposed that historical events, such as river connections and barriers, have played a significant role in shaping the current distribution patterns of the genus.
DOI: 10.6084/m9.figshare.26075930.v1
title: Underestimated diversity in <i>Characidium</i> (Characiformes: Crenuchidae) from Neotropical rivers revealed by an integrative approach

description: <i>Characidium</i> represents the most widely distributed and species-rich fish genus within the family Crenuchidae in the Neotropical region, with numerous species described over the last decade. Despite this taxonomic progress, the understanding of species boundaries and population variation within the genus remains limited. In response, an integrative study was undertaken, utilizing both morphological and molecular data from neotropical freshwater ecoregions with rivers that drain the Brazilian northeastern. The primary objective of this investigation was to elucidate taxonomic delimitations and, where relevant, propose new species hypotheses. Our results propose the existence of 15 operational taxonomic units (OTUs) as species hypotheses. Among these, 10 were identified as valid species, four represented morphotypes that hold the potential of constituting new species, and one OTU was determined as a new species, corroborated by all proposed delimitation methods. Our results demonstrated discrepancies between morphological and molecular data, highlighting the challenges in defining taxonomic boundaries within <i>Characidium</i>. Moreover, our findings provided insights into the intricate diversification history of <i>Characidium</i> species, applied to the species that occur in northeastern Brazilian drainages. We proposed that historical events, such as river connections and barriers, have played a significant role in shaping the current distribution patterns of the genus.
DOI: 10.3535/mr4-5f8-p8e
title: Polydora ciliata (Johnston, 1838)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.25690247.v1
title: Multiple sources of evidence unravel a complex taxonomic history: the new genus <i>Leonoria</i> of the Spermacoce clade (Spermacoceae-Rubiaceae)

description: For a long time, the taxonomic status of <i>Denscantia</i>, a genus endemic to the Atlantic Forest along the Brazilian coast, has been a topic of discussion. Phylogenetic analyses using two nuclear and four chloroplast DNA markers from 82 accessions representing 19 genera of the Spermacoce clade (tribe Spermacoceae, Rubiaceae) confirm that the Brazilian genus <i>Denscantia</i> is biphyletic. Together with the recovered phylogenetic relationships, the analyses of reproductive morphological characters, leaf morphology and anatomy, histochemical, geographic distribution ranges, and ecological niche derived from climatic space further demonstrate that <i>Denscantia calcicola</i> is a distinct lineage from the other <i>Denscantia</i> species. Therefore, the above-mentioned species should be taxonomically designated as a new monospecific genus, <i>Leonoria</i>. Significant morphological differences between <i>Leonoria</i> and <i>Denscantia</i> were found in inflorescence organization, style shape, fruit dehiscence and pollen morphology. Morphological and anatomical variation among leaf traits was found in epidermal cells, trichome distribution, mesophyll histochemistry and vascular organization. The analysis of occurrence records of 207 specimens demonstrates a clear ecological distinction between of <i>Denscantia</i> s.s. and <i>Leonoria</i>, which is ecologically confined to limestone outcrops associated with seasonally dry forests. The current study highlights the importance of an integrative taxonomic approach combining multiple sources of evidence to unravel complex taxonomic history within Spermacoceae.
DOI: 10.3535/d8r-y26-k95
title: Nereis pelagica Linnaeus, 1758

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/sx1-a7f-l69
title: Theromyzon

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.27223616
title: Integrative taxonomy of <i>Tethya</i>: description of four new species based on morphology, phylogeny and microbiome diversity

description: The genus <i>Tethya</i>, one of the most iconic groups in the phylum Porifera. includes nearly 100 valid species. <i>Tethya</i> shows a nearly cosmopolitan distribution, and thus this clade could help elucidate global mechanisms of speciation in sponges. Contrasting with many other marine organisms, <i>Tethya</i> peaks in diversity in the temperate region, with only ∼30% of diversity occurring in the tropics. This pattern may however be related to a lack of studies in the tropics, masked by dubious taxonomic identifications. To address this question, we studied new collections from the Western Atlantic (Caribbean and Brazil) and the Northeastern Atlantic, as well as museum material from the Indian Ocean. Combining morphological investigation with molecular phylogenetics and the study of the sponge’s microbial communities, we conclude that four constitute new species that we describe here: <i>Tethya martini</i> Riesgo, Giribet, & Santodomingo, sp. nov.; <i>Tethya simoni</i> Santodomingo, Zea, & Riesgo, sp. nov.; <i>Tethya erici</i> Díez-Vives, Santodomingo, Moles, & Riesgo, sp. nov.; <i>Tethya orioni</i> Kenny, Santodomingo & Riesgo, sp. nov. Some species thought to be widespread (e.g., <i>T. aurantium</i> and <i>T. seychellensis</i>), each represent multiple species with unique geographic distributions. A phylogenetic analysis of <i>Tethya</i> (based on COI and 28S rRNA sequence data) recovered five main clades, which were also characterized by distinct prokaryotic communities. This suggests that microbiomes could be used as a guide for taxonomic identification in <i>Tethya</i>. We finally explored the existence of a phylosymbiotic pattern in sponges at different levels of prokaryotic taxonomic resolution (i.e., at phylum, class, and genus-level analysis of prokaryotes). Remarkably, our analysis revealed high levels of coevolution of <i>Tethya</i> and their associated microbial communities, even when microbiomes were analysed at the genus level. Our findings support the use of an integrative approach to better understand the evolutionary history of sponges. http://zoobank.org/urn:lsid:zoobank.org:pub:54F80E5E-99A4-43CE-BA3A-BCD01E715595