cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21916128
title: An integrated approach to explore the monophyletic status of the cosmopolitan genus <i>Hexabathynella</i> (Crustacea, Bathynellacea, Parabathynellidae): two new species from Rottnest Island (Wadjemup), Western Australia

description: The <i>Hexabathynella</i> genus is the only genus of the family Parabathynellidae that has supposedly a worldwide distribution. Currently, there are 23 species described from five continents. In Australia, only two <i>Hexabathynella</i> species have been named from the eastern coast, however, a few taxa have been collected from Western Australia during stygofauna sampling as part of research studies and legislated compliance-based Environmental Impact Assessments. One of these areas includes Rottnest Island (Wadjemup), located offshore of Perth in Western Australia. Unpublished data on stygofaunal communities inhabiting the groundwater of the island refer to discrete abundances of copepods and syncarids, but no species description has been carried out. In this study, we describe two new species: <i>Hexabathynella quokkai</i> and <i>H. bisetosa</i>, expanding the characterization of the subterranean aquatic community at Rottnest Island, and using a COI, 18S and 12S sequence-based phylogeny to test the monophyletic status of the genus. Our findings shed new light on the distribution of <i>Hexabathynella</i> and its reported cosmopolitan distribution. http://zoobank.org/urn:lsid:zoobank.org:act:03634EAD-4D27-4446-AE53-4248303D5020 http://zoobank.org/urn:lsid:zoobank.org:act:1B325914-90FD-471E-AC03-20741C7C925A
DOI: 10.6084/m9.figshare.21916128.v1
title: An integrated approach to explore the monophyletic status of the cosmopolitan genus <i>Hexabathynella</i> (Crustacea, Bathynellacea, Parabathynellidae): two new species from Rottnest Island (Wadjemup), Western Australia

description: The <i>Hexabathynella</i> genus is the only genus of the family Parabathynellidae that has supposedly a worldwide distribution. Currently, there are 23 species described from five continents. In Australia, only two <i>Hexabathynella</i> species have been named from the eastern coast, however, a few taxa have been collected from Western Australia during stygofauna sampling as part of research studies and legislated compliance-based Environmental Impact Assessments. One of these areas includes Rottnest Island (Wadjemup), located offshore of Perth in Western Australia. Unpublished data on stygofaunal communities inhabiting the groundwater of the island refer to discrete abundances of copepods and syncarids, but no species description has been carried out. In this study, we describe two new species: <i>Hexabathynella quokkai</i> and <i>H. bisetosa</i>, expanding the characterization of the subterranean aquatic community at Rottnest Island, and using a COI, 18S and 12S sequence-based phylogeny to test the monophyletic status of the genus. Our findings shed new light on the distribution of <i>Hexabathynella</i> and its reported cosmopolitan distribution. http://zoobank.org/urn:lsid:zoobank.org:act:03634EAD-4D27-4446-AE53-4248303D5020 http://zoobank.org/urn:lsid:zoobank.org:act:1B325914-90FD-471E-AC03-20741C7C925A
DOI: 10.13145/bacdive14086.20230509.8
title: Shewanella indica Verma et al. 2011

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.6084/m9.figshare.22657053
title: Molecular phylogeny of the genus <i>Dorometra</i> Clark, 1917 (Crinoidea: Comatulida: Antedonidae): a new genus and new insights for future taxonomic revisions of Antedonidae

description: <i>Dorometra</i> Clark, 1917 (Comatulida: Antedonidae) is an Indo-Pacific genus of small-sized cryptic feather stars currently comprising nine species. The monophyly of this crinoid genus has been widely questioned, although only few studies have investigated the phylogeny of Antedonidae in depth. In this study we used an integrated approach combining molecular phylogenetic, morphology, and multivariate analyses to clarify the taxonomic placement of the genus <i>Dorometra</i> within family Antedonidae. Eight of the nine known species of the genus collected from Australia to the Sea of Japan were included in analyses. Phylogenetic analyses using sequences from two mitochondrial (COI, 16S) and one nuclear (28S) genes demonstrate that <i>Dorometra</i> is polyphyletic, and its species are divided into three main clades, which are spread within other Antedonidae. As a result, we herein describe <i>Nesometra</i> gen. nov. Four different species delimitation methods on single and multi-locus alignments also showed higher diversity than previously thought. In particular, our results highlighted the presence of cryptic diversity within the species <i>Dorometra nana</i> (Hartlaub, 1890) in geographically close localities within southern Japan. By multivariate analysis of morphological matrix, we confirmed the homoplasy and plasticity of the taxonomic characters used in the description of <i>Dorometra</i> species, providing a path forward for the general taxonomic revision of this genus and of Antedonidae and related families. http://zoobank.org/urn:lsid:zoobank.org:pub:DB7C239C-5CA0-485B-B4A8-205288FC4080
DOI: 10.6084/m9.figshare.22657053.v1
title: Molecular phylogeny of the genus <i>Dorometra</i> Clark, 1917 (Crinoidea: Comatulida: Antedonidae): a new genus and new insights for future taxonomic revisions of Antedonidae

description: <i>Dorometra</i> Clark, 1917 (Comatulida: Antedonidae) is an Indo-Pacific genus of small-sized cryptic feather stars currently comprising nine species. The monophyly of this crinoid genus has been widely questioned, although only few studies have investigated the phylogeny of Antedonidae in depth. In this study we used an integrated approach combining molecular phylogenetic, morphology, and multivariate analyses to clarify the taxonomic placement of the genus <i>Dorometra</i> within family Antedonidae. Eight of the nine known species of the genus collected from Australia to the Sea of Japan were included in analyses. Phylogenetic analyses using sequences from two mitochondrial (COI, 16S) and one nuclear (28S) genes demonstrate that <i>Dorometra</i> is polyphyletic, and its species are divided into three main clades, which are spread within other Antedonidae. As a result, we herein describe <i>Nesometra</i> gen. nov. Four different species delimitation methods on single and multi-locus alignments also showed higher diversity than previously thought. In particular, our results highlighted the presence of cryptic diversity within the species <i>Dorometra nana</i> (Hartlaub, 1890) in geographically close localities within southern Japan. By multivariate analysis of morphological matrix, we confirmed the homoplasy and plasticity of the taxonomic characters used in the description of <i>Dorometra</i> species, providing a path forward for the general taxonomic revision of this genus and of Antedonidae and related families. http://zoobank.org/urn:lsid:zoobank.org:pub:DB7C239C-5CA0-485B-B4A8-205288FC4080
DOI: 10.6084/m9.figshare.23671458
title: Marine teleost fishes of the northeastern Brazilian coast: 166 years of compiled data

description: The richness of marine teleost fishes from the tropical northeastern Brazilian coast was compiled through an extensive search of published species records and of voucher specimens in collections. Results are presented in a systematic list that includes 571 marine species across 98 families considered as valid records in coastal and estuarine environments. 516 species (90.4%) are represented by voucher specimens in collections. Species reported in the literature with pending confirmation, or known only from vouchers, may add 72 species to the list, 18 of them without previous mention in the literature representing new records for the study region. Brazilian endemic species are also reported, seven of which are exclusive to the northeastern coast. Additionally, 91 species belonging to 41 families are treated as erroneous or doubtful records for the region, and their geographic distribution or taxonomic status commented upon. Among the valid species recorded, 21 are listed as threatened according to the IUCN Red List and 24 by the Brazilian official list of threatened species. At least four species introduced in the Western Atlantic are now considered invasive in northeastern Brazil. The data presented herein result from the most comprehensive survey of the coastal marine ichthyofauna of northeastern Brazil. It adds 154 species records when compared to the maximum species richness previously reported for the study region in a single publication and serves as a baseline to promote future studies in fish systematics, biogeography, ecology and conservation. Notwithstanding, the species richness of this region remains an underestimate pending additional taxonomic research and the availability of online data for regional collections.
DOI: 10.6084/m9.figshare.23671458.v1
title: Marine teleost fishes of the northeastern Brazilian coast: 166 years of compiled data

description: The richness of marine teleost fishes from the tropical northeastern Brazilian coast was compiled through an extensive search of published species records and of voucher specimens in collections. Results are presented in a systematic list that includes 571 marine species across 98 families considered as valid records in coastal and estuarine environments. 516 species (90.4%) are represented by voucher specimens in collections. Species reported in the literature with pending confirmation, or known only from vouchers, may add 72 species to the list, 18 of them without previous mention in the literature representing new records for the study region. Brazilian endemic species are also reported, seven of which are exclusive to the northeastern coast. Additionally, 91 species belonging to 41 families are treated as erroneous or doubtful records for the region, and their geographic distribution or taxonomic status commented upon. Among the valid species recorded, 21 are listed as threatened according to the IUCN Red List and 24 by the Brazilian official list of threatened species. At least four species introduced in the Western Atlantic are now considered invasive in northeastern Brazil. The data presented herein result from the most comprehensive survey of the coastal marine ichthyofauna of northeastern Brazil. It adds 154 species records when compared to the maximum species richness previously reported for the study region in a single publication and serves as a baseline to promote future studies in fish systematics, biogeography, ecology and conservation. Notwithstanding, the species richness of this region remains an underestimate pending additional taxonomic research and the availability of online data for regional collections.
DOI: 10.6084/m9.figshare.23735823
title: Two new species of Atopobathynella (Parabathynellidae, Bathynellacea) from the Pilbara region, Australia

description: Fifteen species of the Gondwanan genus <i>Atopobathynella</i> have been described so far from four countries. The position of the genus within the family Parabathynellidae and its species relationships are controversial due to the different characters and species considered by different authors, however most of the phylogenetic reconstructions are based solely on morphological characters. In the past few decades, the arid zones of Western Australia, including the Pilbara region, have been recognized as a hotspot for subterranean fauna. Material is constantly collected to produce Environmental Impact Assessments to protect and manage the subterranean environment. In 2009 the Cleaverville Iron Formation, in the Pilbara region, northern Western Australia, was proposed to be mined, therefore subterranean fauna sampling was conducted as per legislation. Preliminary molecular studies of stygofauna identified two distinct Parabathynellidae lineages from two ridges, however no morphological descriptions were carried out at that time. In this study, we describe two new species from Yarrie and Callawa ridges, respectively: <i>Atopobathynella yarriensis</i> sp. nov. and <i>A. degreyensis</i> sp. nov.. The new species show differences in male antennal organ, ventral tooth of mandible, number of teeth on distal endite of maxillula, absence or presence of epipod of thoracopod I, number of setae on article 4 of thoracopod II, length of distal external seta of exopod of all thoracopods, outer lobe of male thoracopod VIII, number of spines on uropodal sympod and furcal rami, length of the external dorsal plumose seta of the furcal rami. Additionally, we integrated the morphological data with sequences of three genetic loci, Cytochrome Oxidase c Subunit I (<i>COI</i>), <i>12S</i> rRNA (<i>12S</i>), and nuclear <i>18S</i> rRNA (<i>18S</i>), calculating p-distances and constructing a multigene molecular phylogeny to support morphology, and explore the monophyletic status of the genus and the relationship amongst its species. The two new species were well supported in our phylogeny, however they appear distantly related. http://zoobank.org/urn:lsid:zoobank.org:act:2D8DA822-6C08-45B5-B707-6F63A1B69DE2
DOI: 10.6084/m9.figshare.23735823.v1
title: Two new species of Atopobathynella (Parabathynellidae, Bathynellacea) from the Pilbara region, Australia

description: Fifteen species of the Gondwanan genus <i>Atopobathynella</i> have been described so far from four countries. The position of the genus within the family Parabathynellidae and its species relationships are controversial due to the different characters and species considered by different authors, however most of the phylogenetic reconstructions are based solely on morphological characters. In the past few decades, the arid zones of Western Australia, including the Pilbara region, have been recognized as a hotspot for subterranean fauna. Material is constantly collected to produce Environmental Impact Assessments to protect and manage the subterranean environment. In 2009 the Cleaverville Iron Formation, in the Pilbara region, northern Western Australia, was proposed to be mined, therefore subterranean fauna sampling was conducted as per legislation. Preliminary molecular studies of stygofauna identified two distinct Parabathynellidae lineages from two ridges, however no morphological descriptions were carried out at that time. In this study, we describe two new species from Yarrie and Callawa ridges, respectively: <i>Atopobathynella yarriensis</i> sp. nov. and <i>A. degreyensis</i> sp. nov.. The new species show differences in male antennal organ, ventral tooth of mandible, number of teeth on distal endite of maxillula, absence or presence of epipod of thoracopod I, number of setae on article 4 of thoracopod II, length of distal external seta of exopod of all thoracopods, outer lobe of male thoracopod VIII, number of spines on uropodal sympod and furcal rami, length of the external dorsal plumose seta of the furcal rami. Additionally, we integrated the morphological data with sequences of three genetic loci, Cytochrome Oxidase c Subunit I (<i>COI</i>), <i>12S</i> rRNA (<i>12S</i>), and nuclear <i>18S</i> rRNA (<i>18S</i>), calculating p-distances and constructing a multigene molecular phylogeny to support morphology, and explore the monophyletic status of the genus and the relationship amongst its species. The two new species were well supported in our phylogeny, however they appear distantly related. http://zoobank.org/urn:lsid:zoobank.org:act:2D8DA822-6C08-45B5-B707-6F63A1B69DE2
DOI: 10.13145/bacdive14087.20230509.8
title: Solirubrobacter pauli Singleton et al. 2003

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.6084/m9.figshare.22713862
title: Total evidence phylogenetic analysis of Leiosauridae (Squamata) with focus on the ‘para-anoles’ and description of a new <i>Urostrophus</i> species from the Bolivian Andes

description: Only since the late 1980s have lizard specialists begun incorporating phylogenetic information to the classification of leiosaurids. These are among the most enigmatic South American lizards, with 35 currently recognised species arranged in six genera. To evaluate their relationships, we assembled a data set based on published and novel information containing 135 morphological characters and 11,235 DNA base pairs (14 loci) for up to 52 terminals, including outgroups. We performed 13 analyses based on different optimality criteria (parsimony, maximum likelihood, and coalescent approach) and indel coding strategies (gaps coded as missing data or as a fifth state). We also evaluated the impact of phenotypic evidence on the phylogeny of leiosaurids, and investigated the level of informativeness and potential sources of topological conflict using a Quartet Sampling analysis. Phylogenetic analyses supported the monophyly of major leiosaurid clades, including subfamilies Enyaliinae and Leiosaurinae, and the ‘para-anoles’ clade (<i>Urostrophus</i> + <i>Anisolepis</i>). However, <i>Urostrophus</i> was inferred as paraphyletic, with <i>U. vautieri</i> forming a clade with <i>Anisolepis</i>. These relationships motivate the synonymization of <i>Anisolepis</i> Boulenger, 1885 with <i>Urostrophus</i> Duméril & Bibron, 1837. The monophyly of <i>Pristidactylus</i> and, surprisingly, of <i>Enyalius</i>, were also challenged, underscoring the need for additional phylogenetic work. Finally, we described <i>Urostrophus chungarae</i> sp. nov. from the Torotoro National Park, Potosí, Bolivia. This apparently rare leiosaurid was inferred as sister to <i>U. gallardoi</i>, a Chacoan species distributed in northern Argentina and southeastern Bolivia. We conclude with a revised classification of Leiosauridae and by pointing out a number of unresolved issues that require further systematic investigation. http://www.zoobank.org/urn:lsid:zoobank.org:pub:F60EB6CB-62B2-4EE3-B1A8-BEE3B2ED7A65
DOI: 10.6084/m9.figshare.22713862.v1
title: Total evidence phylogenetic analysis of Leiosauridae (Squamata) with focus on the ‘para-anoles’ and description of a new <i>Urostrophus</i> species from the Bolivian Andes

description: Only since the late 1980s have lizard specialists begun incorporating phylogenetic information to the classification of leiosaurids. These are among the most enigmatic South American lizards, with 35 currently recognised species arranged in six genera. To evaluate their relationships, we assembled a data set based on published and novel information containing 135 morphological characters and 11,235 DNA base pairs (14 loci) for up to 52 terminals, including outgroups. We performed 13 analyses based on different optimality criteria (parsimony, maximum likelihood, and coalescent approach) and indel coding strategies (gaps coded as missing data or as a fifth state). We also evaluated the impact of phenotypic evidence on the phylogeny of leiosaurids, and investigated the level of informativeness and potential sources of topological conflict using a Quartet Sampling analysis. Phylogenetic analyses supported the monophyly of major leiosaurid clades, including subfamilies Enyaliinae and Leiosaurinae, and the ‘para-anoles’ clade (<i>Urostrophus</i> + <i>Anisolepis</i>). However, <i>Urostrophus</i> was inferred as paraphyletic, with <i>U. vautieri</i> forming a clade with <i>Anisolepis</i>. These relationships motivate the synonymization of <i>Anisolepis</i> Boulenger, 1885 with <i>Urostrophus</i> Duméril & Bibron, 1837. The monophyly of <i>Pristidactylus</i> and, surprisingly, of <i>Enyalius</i>, were also challenged, underscoring the need for additional phylogenetic work. Finally, we described <i>Urostrophus chungarae</i> sp. nov. from the Torotoro National Park, Potosí, Bolivia. This apparently rare leiosaurid was inferred as sister to <i>U. gallardoi</i>, a Chacoan species distributed in northern Argentina and southeastern Bolivia. We conclude with a revised classification of Leiosauridae and by pointing out a number of unresolved issues that require further systematic investigation. http://www.zoobank.org/urn:lsid:zoobank.org:pub:F60EB6CB-62B2-4EE3-B1A8-BEE3B2ED7A65
DOI: 10.13145/bacdive14088.20230509.8
title: Solirubrobacter soli Kim et al. 2007

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.6084/m9.figshare.24018972
title: Unity in diversity: morphological and genetic variability, integrative systematics, and phylogeography of the widespread nudibranch mollusc <i>Onchidoris muricata</i>

description: <i>Onchidoris muricata</i> (Gastropoda: Nudibranchia: Onchidorididae) is a well-known nudibranch species, which has a wide amphiboreal range confirmed by molecular data. However, <i>O. muricata</i> shows a high degree of variation in external morphology among distant populations, which may indicate the presence of cryptic diversity within this species. There are also two closely related species with an unconfirmed taxonomic status, which were recently described from the northwestern Pacific based on morphological data. In this paper we study the taxonomic status and population structure of <i>O. muricata</i> based on an integrative approach combining morphological and molecular data and using <i>O. muricata</i> as a model we explore issues of boreal marine fauna connectivity and glaciation-driven isolation. The external morphology, spicule composition, and features of the buccal armature and the reproductive system were studied using light microscopy, scanning electron microscopy and mCT scan technology. The molecular study included various population genetic analyses as well as divergence time estimation and ancestral area reconstruction analyses. <i>Onchidoris muricata</i> represents a true amphiboreal species, which shows a high degree of heterogeneity in morphological characters, especially in the radular morphology and in features of the reproductive system. Our new data question the validity of the North-West Pacific species <i>O. macropompa</i> and <i>O. pavli</i> as the morphology of both these species fall within the phenotypic diversity of <i>O. muricata.</i> Although our sampling does not include the type localities of these two species, the observed morphological variability in <i>O. muricata</i> and the lack of molecular data for the North Pacific species <i>O. macropompa</i> and <i>O. pavli</i> suggest the latter two species are in fact part of <i>O. muricata</i> morphological diversity. Phylogeographic analyses indicate a genetic separation of the North Pacific and North Atlantic-Arctic populations of <i>O. muricata</i>, suggesting restricted gene flow between these areas. We show that this divergence may be a result of glacial cycles during the late Pleistocene, which were a key factor in the reduction of gene flow across the Arctic Ocean. Our molecular results also suggest that the White Sea population experienced a bottleneck event during the last Glacial Maximum.