cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17876/plate/dr.3/envelopes/109_88113
title: Digital object identifier (DOI) for the envelope 88113 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88114
title: Digital object identifier (DOI) for the envelope 88114 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88115
title: Digital object identifier (DOI) for the envelope 88115 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88116
title: Digital object identifier (DOI) for the envelope 88116 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88117
title: Digital object identifier (DOI) for the envelope 88117 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88118
title: Digital object identifier (DOI) for the envelope 88118 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88119
title: Digital object identifier (DOI) for the envelope 88119 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88120
title: Digital object identifier (DOI) for the envelope 88120 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88121
title: Digital object identifier (DOI) for the envelope 88121 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88122
title: Digital object identifier (DOI) for the envelope 88122 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88123
title: Digital object identifier (DOI) for the envelope 88123 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88124
title: Digital object identifier (DOI) for the envelope 88124 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88125
title: Digital object identifier (DOI) for the envelope 88125 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88126
title: Digital object identifier (DOI) for the envelope 88126 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88127
title: Digital object identifier (DOI) for the envelope 88127 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88128
title: Digital object identifier (DOI) for the envelope 88128 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88129
title: Digital object identifier (DOI) for the envelope 88129 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88130
title: Digital object identifier (DOI) for the envelope 88130 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88131
title: Digital object identifier (DOI) for the envelope 88131 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88132
title: Digital object identifier (DOI) for the envelope 88132 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88133
title: Digital object identifier (DOI) for the envelope 88133 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88134
title: Digital object identifier (DOI) for the envelope 88134 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88135
title: Digital object identifier (DOI) for the envelope 88135 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88136
title: Digital object identifier (DOI) for the envelope 88136 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88137
title: Digital object identifier (DOI) for the envelope 88137 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88138
title: Digital object identifier (DOI) for the envelope 88138 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88139
title: Digital object identifier (DOI) for the envelope 88139 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88140
title: Digital object identifier (DOI) for the envelope 88140 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88141
title: Digital object identifier (DOI) for the envelope 88141 in archive 109 from the APPLAUSE DR3
DOI: 10.17876/plate/dr.3/envelopes/109_88142
title: Digital object identifier (DOI) for the envelope 88142 in archive 109 from the APPLAUSE DR3
DOI: 10.6084/m9.figshare.21333180
title: Two new species of <i>Pyramimonas</i> (Pyramimonadophyceae, Chlorophyta) associated with the subgenus <i>Trichocystis</i> from coral lagoons of the Ryukyu Archipelago, Japan

description: The characteristics of two new benthic species of <i>Pyramimonas</i> isolated from coral rubble have been determined. One, <i>P. superba</i> sp. nov., most similar to <i>P. lunata</i>, has a morphological character suite and molecular phylogenetic signal supporting it as a member of the subgenus <i>Trichocystis</i>, despite its uniqueness in producing mucilage. The other, <i>P. lamellipunctata</i> sp. nov., also shows phylogenetic affiliation with the subgenus <i>Trichocystis</i> using partial SSU data. However, this second species aligns with muciferous punctate species using <i>rbc</i>L data, although the clade is problematic as it includes the genus <i>Pterosperma</i>. Morphologically, cells of <i>P. lamellipunctata</i> share many features with muciferous punctate species but also exhibit important disparities with this group, most notably a lack of mucilage, suggesting that they form a unique lineage. HIGHLIGHTS ● Two new species of <i>Pyramimonas</i> are indicated as members of the subgenus <i>Trichocystis</i> using SSU data.● <i>rbc</i>L data only supports this association for one of the new species and affiliates the other with muciferous species of the subgenus Punctatae.● Morphological data only partially supports the second affiliation with punctate species, thereby inferring a unique lineage.
DOI: 10.17876/plate/dr.3/envelopes/109_88143
title: Digital object identifier (DOI) for the envelope 88143 in archive 109 from the APPLAUSE DR3
DOI: 10.6084/m9.figshare.21436090
title: DNA barcoding reveals cryptic diversity, taxonomic conflicts and novel biogeographical insights in <i>Cystoseira</i> s.l. (Phaeophyceae)

description: <i>Cystoseira</i> sensu lato (s.l.) – encompassing the genera <i>Cystoseira</i> sensu stricto (s.s.), <i>Ericaria</i> and <i>Gongolaria</i> – is a diverse group of forest-forming brown macroalgae endemic to the warm-temperate North-east Atlantic. These algae have immense biogeographic and ecological significance and have been experiencing recent regional declines. Most <i>Cystoseira</i> s.l. display important morphological plasticity and can be confused with similar species. Therefore, species boundaries, geographic ranges and phylogenetic affinities remain imprecise for most. In the face of persistent taxonomic difficulties, several authors underlined the necessity for new molecular-based approaches, but studies so far lacked representativity, resolution and standardization. To fill in these gaps, in this study we sequenced a comprehensive collection of <i>Cystoseira</i> s.l. spanning its entire North-east Atlantic range for a ~1200 bp cox1 barcode, and sequenced selected individuals representing major genetic entities for a few additional plastid markers. Phylogeographic, phylogenetic and species delimitation methods revealed 27 Molecular Operational Taxonomic Units, including unaccounted cryptic diversity, and elucidated with unprecedented resolution species compositions and phylogenetic relationships within each genus. Some entities within the lineages <i>Cystoseira compressa/humilis</i>, <i>Ericaria brachycarpa/crinita</i>, <i>E. selaginoides</i> and tophulose <i>Gongolaria</i>, as well as among free-living algae, conflicted with a priori taxonomic assignments, and required the redefinition, reinstatement and recognition of new taxa. For some, diagnostic mutations and biogeography were more useful for species identifications than morphological characters or conventional barcoding gaps. A few species showed narrow geographic ranges and others were the sole representatives of their respective lineages. Several sister-species showed Atlantic vs Mediterranean complementary ranges. Phylogenetic signal of <i>cox</i>1 was nevertheless insufficient to confidently determine patterns of lineage splitting in several lineages and species complexes and did not improve significantly with additional plastid markers. We discuss novel systematics and biogeography insights considering the advantages and shortcomings of the barcoding approach employed, and how this comprehensive baseline study can be expanded to address multiple questions still left unanswered. HIGHLIGHTS Identification of major genetic entities of <i>Cystoseira</i> s.s., <i>Ericaria</i> and <i>Gongolaria.</i>A comprehensive reference <i>cox</i>1 barcode library for <i>Cystoseira</i> s.l.Updated systematics and biogeography of <i>Cystoseira</i> s.l. Identification of major genetic entities of <i>Cystoseira</i> s.s., <i>Ericaria</i> and <i>Gongolaria.</i> A comprehensive reference <i>cox</i>1 barcode library for <i>Cystoseira</i> s.l. Updated systematics and biogeography of <i>Cystoseira</i> s.l.
DOI: 10.6084/m9.figshare.20729146
title: Regional microbiome differentiation of the invasive <i>Sargassum muticum</i> (Fucales, Phaeophyceae) follows the generalist host hypothesis across the North East Atlantic

description: Over 90% of introduced marine species are seaweeds. Seaweeds rely on their microbiome for host settlement, nutrition, development and health. As such, it is likely that microbiomes are involved in seaweed invasions. <i>Sargassum muticum</i>, indigenous to Southeast Asia, inhabits the North-east Atlantic from Norway to Morocco. This is the only known successful case of a non-clonal marine invader with almost no genetic variation over its large NE Atlantic introduced range. This makes it a very interesting model to study an invasive seaweeds microbiome, as it practically uncouples host genetic variation from microbiome variation. Associated bacteria potentially contribute to the plasticity and acclimation of <i>S. muticum</i> leading to its success over the last 50 years. Dispersing host organisms can either bring their acquired microbes along or obtain new ones locally, following the mutualist and generalist host hypothesis, respectively. We used partial 16S rRNA gene amplicon sequencing to characterize the total and core microbiome across <i>S. muticum</i> structures/tissues from five NE Atlantic regions, from Norway to Morocco, covering over 30° of latitude. In contrast to host genotypes, highly diverse, regional, total and core microbiomes, with differentiation levels depending on tissue, bacterial community structure were detected. Atlantic <i>S. muticum</i> follows the generalist host hypothesis, possibly recruiting a new microbiome in each new region. This host promiscuity may promote the invasiveness of <i>S. muticum</i>. Diversity was lower in the young/annual tissues compared with the older tissues for the total bacterial community, suggesting that these are mostly transitory bacteria accumulating over time in the older parts. The total core microbiome included 10 OTUs, representing dominant community members commonly found in other seaweeds’ cores. The core <i>Granulosicoccus</i> OTU followed a clear regional pattern where northern and southern regions clustered differentially, suggesting a regional signature even at an OTU level. North-east (NE) Atlantic <i>Sargassum muticum</i> microbiome differentiation does not match host genetic background.NE Atlantic <i>S. muticum</i> shows a geographic region and tissue-specific total and core bacterial community matching bestthe generalist host hypothesis.Core OTU – the bacterium <i>Granulosicoccu</i>s – shows a strong regional specialization. North-east (NE) Atlantic <i>Sargassum muticum</i> microbiome differentiation does not match host genetic background. NE Atlantic <i>S. muticum</i> shows a geographic region and tissue-specific total and core bacterial community matching bestthe generalist host hypothesis. Core OTU – the bacterium <i>Granulosicoccu</i>s – shows a strong regional specialization.
DOI: 10.6084/m9.figshare.21333180.v2
title: Two new species of <i>Pyramimonas</i> (Pyramimonadophyceae, Chlorophyta) associated with the subgenus <i>Trichocystis</i> from coral lagoons of the Ryukyu Archipelago, Japan

description: The characteristics of two new benthic species of <i>Pyramimonas</i> isolated from coral rubble have been determined. One, <i>P. superba</i> sp. nov., most similar to <i>P. lunata</i>, has a morphological character suite and molecular phylogenetic signal supporting it as a member of the subgenus <i>Trichocystis</i>, despite its uniqueness in producing mucilage. The other, <i>P. lamellipunctata</i> sp. nov., also shows phylogenetic affiliation with the subgenus <i>Trichocystis</i> using partial SSU data. However, this second species aligns with muciferous punctate species using <i>rbc</i>L data, although the clade is problematic as it includes the genus <i>Pterosperma</i>. Morphologically, cells of <i>P. lamellipunctata</i> share many features with muciferous punctate species but also exhibit important disparities with this group, most notably a lack of mucilage, suggesting that they form a unique lineage. HIGHLIGHTS ● Two new species of <i>Pyramimonas</i> are indicated as members of the subgenus <i>Trichocystis</i> using SSU data.● <i>rbc</i>L data only supports this association for one of the new species and affiliates the other with muciferous species of the subgenus Punctatae.● Morphological data only partially supports the second affiliation with punctate species, thereby inferring a unique lineage.
DOI: 10.6084/m9.figshare.21333180.v3
title: Two new species of <i>Pyramimonas</i> (Pyramimonadophyceae, Chlorophyta) associated with the subgenus <i>Trichocystis</i> from coral lagoons of the Ryukyu Archipelago, Japan

description: The characteristics of two new benthic species of <i>Pyramimonas</i> isolated from coral rubble have been determined. One, <i>P. superba</i> sp. nov., most similar to <i>P. lunata</i>, has a morphological character suite and molecular phylogenetic signal supporting it as a member of the subgenus <i>Trichocystis</i>, despite its uniqueness in producing mucilage. The other, <i>P. lamellipunctata</i> sp. nov., also shows phylogenetic affiliation with the subgenus <i>Trichocystis</i> using partial SSU data. However, this second species aligns with muciferous punctate species using <i>rbc</i>L data, although the clade is problematic as it includes the genus <i>Pterosperma</i>. Morphologically, cells of <i>P. lamellipunctata</i> share many features with muciferous punctate species but also exhibit important disparities with this group, most notably a lack of mucilage, suggesting that they form a unique lineage. HIGHLIGHTS ● Two new species of <i>Pyramimonas</i> are indicated as members of the subgenus <i>Trichocystis</i> using SSU data.● <i>rbc</i>L data only supports this association for one of the new species and affiliates the other with muciferous species of the subgenus Punctatae.● Morphological data only partially supports the second affiliation with punctate species, thereby inferring a unique lineage.
DOI: 10.17876/plate/dr.3/envelopes/109_88144
title: Digital object identifier (DOI) for the envelope 88144 in archive 109 from the APPLAUSE DR3
DOI: 10.6084/m9.figshare.20729146.v1
title: Regional microbiome differentiation of the invasive <i>Sargassum muticum</i> (Fucales, Phaeophyceae) follows the generalist host hypothesis across the North East Atlantic

description: Over 90% of introduced marine species are seaweeds. Seaweeds rely on their microbiome for host settlement, nutrition, development and health. As such, it is likely that microbiomes are involved in seaweed invasions. <i>Sargassum muticum</i>, indigenous to Southeast Asia, inhabits the North-east Atlantic from Norway to Morocco. This is the only known successful case of a non-clonal marine invader with almost no genetic variation over its large NE Atlantic introduced range. This makes it a very interesting model to study an invasive seaweeds microbiome, as it practically uncouples host genetic variation from microbiome variation. Associated bacteria potentially contribute to the plasticity and acclimation of <i>S. muticum</i> leading to its success over the last 50 years. Dispersing host organisms can either bring their acquired microbes along or obtain new ones locally, following the mutualist and generalist host hypothesis, respectively. We used partial 16S rRNA gene amplicon sequencing to characterize the total and core microbiome across <i>S. muticum</i> structures/tissues from five NE Atlantic regions, from Norway to Morocco, covering over 30° of latitude. In contrast to host genotypes, highly diverse, regional, total and core microbiomes, with differentiation levels depending on tissue, bacterial community structure were detected. Atlantic <i>S. muticum</i> follows the generalist host hypothesis, possibly recruiting a new microbiome in each new region. This host promiscuity may promote the invasiveness of <i>S. muticum</i>. Diversity was lower in the young/annual tissues compared with the older tissues for the total bacterial community, suggesting that these are mostly transitory bacteria accumulating over time in the older parts. The total core microbiome included 10 OTUs, representing dominant community members commonly found in other seaweeds’ cores. The core <i>Granulosicoccus</i> OTU followed a clear regional pattern where northern and southern regions clustered differentially, suggesting a regional signature even at an OTU level. North-east (NE) Atlantic <i>Sargassum muticum</i> microbiome differentiation does not match host genetic background.NE Atlantic <i>S. muticum</i> shows a geographic region and tissue-specific total and core bacterial community matching bestthe generalist host hypothesis.Core OTU – the bacterium <i>Granulosicoccu</i>s – shows a strong regional specialization. North-east (NE) Atlantic <i>Sargassum muticum</i> microbiome differentiation does not match host genetic background. NE Atlantic <i>S. muticum</i> shows a geographic region and tissue-specific total and core bacterial community matching bestthe generalist host hypothesis. Core OTU – the bacterium <i>Granulosicoccu</i>s – shows a strong regional specialization.
DOI: 10.6084/m9.figshare.21081241
title: Vegetative cell enlargement in selected centric diatom species – an alternative way to propagate an individual genotype

description: Vegetative cell enlargement (VCE) and structures involved are documented for the first time using epifluorescence and electron microscopy. We examined three centric diatom species with polar and non-polar valve outlines. VCE progressed in two ways. The first involved liberation of the protoplast, nearly isodiametric expansion, and building of the large frustule in a more or less spherical cell. Protoplast retraction as observed in sexual auxospores before the formation of initial valves was never observed. Cell walls produced a variety of scales, including valve-like scales before the first enlarged epivalve was deposited. VCE wall structures were not similar to auxospore walls of the same species. The morphology of the first enlarged valve, the epivalve, differed from that of typical vegetative valves to a varying degree, depending on the species. The second way to vegetatively enlarge cells involved expansion of the girdle region of the existing small frustule. The circumference of the girdle region grew due to the deposition of irregular, supernumerary copulae. These copulae produced one or more protuberances, resulting in a misshapen cell. This misshapen cell then divided mitotically, and the first enlarged valve was a hypovalve. Hypovalve morphology strongly differed from that of typical vegetative valves. Several subsequent mitotic divisions were required to restore normal, species-specific frustules. Over time, irrespective of the manner of enlargement, the enlarged cells grew well and eventually became more frequent than small cells in our cultures. The scale factors of enlarged cells compared with pre-enlargement size in our experiments (1.1–5.2) were similar to those reported for other species (1.4–7.5). Additionally, we found that size increases from VCE were comparable to those resulting from sexual reproduction of the same species. Therefore, VCE can potentially expand the resident time of the population in the environment to the same degree as would production of sexual initial cells. Species vegetatively restore large cell size in different ways.Scale factors in sexually and vegetatively enlarged cells are similar.VCE may not be as rare as reported in nature. Species vegetatively restore large cell size in different ways. Scale factors in sexually and vegetatively enlarged cells are similar. VCE may not be as rare as reported in nature.
DOI: 10.6084/m9.figshare.21081241.v1
title: Vegetative cell enlargement in selected centric diatom species – an alternative way to propagate an individual genotype

description: Vegetative cell enlargement (VCE) and structures involved are documented for the first time using epifluorescence and electron microscopy. We examined three centric diatom species with polar and non-polar valve outlines. VCE progressed in two ways. The first involved liberation of the protoplast, nearly isodiametric expansion, and building of the large frustule in a more or less spherical cell. Protoplast retraction as observed in sexual auxospores before the formation of initial valves was never observed. Cell walls produced a variety of scales, including valve-like scales before the first enlarged epivalve was deposited. VCE wall structures were not similar to auxospore walls of the same species. The morphology of the first enlarged valve, the epivalve, differed from that of typical vegetative valves to a varying degree, depending on the species. The second way to vegetatively enlarge cells involved expansion of the girdle region of the existing small frustule. The circumference of the girdle region grew due to the deposition of irregular, supernumerary copulae. These copulae produced one or more protuberances, resulting in a misshapen cell. This misshapen cell then divided mitotically, and the first enlarged valve was a hypovalve. Hypovalve morphology strongly differed from that of typical vegetative valves. Several subsequent mitotic divisions were required to restore normal, species-specific frustules. Over time, irrespective of the manner of enlargement, the enlarged cells grew well and eventually became more frequent than small cells in our cultures. The scale factors of enlarged cells compared with pre-enlargement size in our experiments (1.1–5.2) were similar to those reported for other species (1.4–7.5). Additionally, we found that size increases from VCE were comparable to those resulting from sexual reproduction of the same species. Therefore, VCE can potentially expand the resident time of the population in the environment to the same degree as would production of sexual initial cells. Species vegetatively restore large cell size in different ways.Scale factors in sexually and vegetatively enlarged cells are similar.VCE may not be as rare as reported in nature. Species vegetatively restore large cell size in different ways. Scale factors in sexually and vegetatively enlarged cells are similar. VCE may not be as rare as reported in nature.