cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh1404670.10fu
title: SH1404670.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404671.10fu
title: SH1404671.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404672.10fu
title: SH1404672.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.5281/zenodo.17672578
title: Data and Source Code for Publication "Decoding Odor Responses: Universal Patterns and Individual Signatures in Psychophysiology using Nonlinear Models"

description: Zip file with source code and data to replicate the nonlinear models in "Decoding Odor Responses: Universal Patterns and Individual Signatures in Psychophysiology using Nonlinear Models".

File Description:



compute-models.R: R source code for the computation of the nonlinear models, including:



Final data processing

Model fitting

Model performance check

Model structure examination using sequentialle reduced models

Participant- and odor-wise individual predictions

Odor-wise marginal predictions



.here: Reference file for the R package "here". Does not entail any further information

data/demographics.csv: General demographics of the participants



Variables



participant: Participant identifier

age: Participant age in years [18 - 28]

sex: Participant sex [Male, Female]

identification_score: Sniffin' Sticks Identification subtest scores [9 - 16]





data/physio_data_wide_6sec.arrow: Psychophysiological and perceptual responses to odors



Variables



participant: Participant identifier

Condition: Presented odor [benzyl, maltol, decan, amycap, tolyl, carvon]

test_half: Half of the experiment in which the trial occured [first_half, second_half]

MR1: Perceptual Dimension "Valence" [-1.76 - 2.26]

MR2: Perceptual Dimension "Temperature" [-1.93 - 1.78]

MR3: Perceptual Dimension "Intensity" [-2.07 - 1.78]

Label: Trial identifier

item_order: Trial order

RSP_ts0.2 - RSP_ts6: Psychophys. signal "Respiration"; ts describes the time-resolved sampling point in seconds

ECG_ts0.2 - ECG_ts6: Psychophys. signal "Hear Rate"; ts describes the time-resolved sampling point in seconds

EMG_zyg_ts0.2 - EMG_zyg_ts6: Psychophys. signal "EMG Zygomaticus Major"; ts describes the time-resolved sampling point in seconds

EMG_cor_ts0.2 - EMG_cor_ts6: Psychophys. signal "EMG Corrugator Supercilii "; ts describes the time-resolved sampling point in seconds
DOI: 10.5281/zenodo.17672579
title: Data and Source Code for Publication "Decoding Odor Responses: Universal Patterns and Individual Signatures in Psychophysiology using Nonlinear Models"

description: Zip file with source code and data to replicate the nonlinear models in "Decoding Odor Responses: Universal Patterns and Individual Signatures in Psychophysiology using Nonlinear Models".

File Description:



compute-models.R: R source code for the computation of the nonlinear models, including:



Final data processing

Model fitting

Model performance check

Model structure examination using sequentialle reduced models

Participant- and odor-wise individual predictions

Odor-wise marginal predictions



.here: Reference file for the R package "here". Does not entail any further information

data/demographics.csv: General demographics of the participants



Variables



participant: Participant identifier

age: Participant age in years [18 - 28]

sex: Participant sex [Male, Female]

identification_score: Sniffin' Sticks Identification subtest scores [9 - 16]





data/physio_data_wide_6sec.arrow: Psychophysiological and perceptual responses to odors



Variables



participant: Participant identifier

Condition: Presented odor [benzyl, maltol, decan, amycap, tolyl, carvon]

test_half: Half of the experiment in which the trial occured [first_half, second_half]

MR1: Perceptual Dimension "Valence" [-1.76 - 2.26]

MR2: Perceptual Dimension "Temperature" [-1.93 - 1.78]

MR3: Perceptual Dimension "Intensity" [-2.07 - 1.78]

Label: Trial identifier

item_order: Trial order

RSP_ts0.2 - RSP_ts6: Psychophys. signal "Respiration"; ts describes the time-resolved sampling point in seconds

ECG_ts0.2 - ECG_ts6: Psychophys. signal "Hear Rate"; ts describes the time-resolved sampling point in seconds

EMG_zyg_ts0.2 - EMG_zyg_ts6: Psychophys. signal "EMG Zygomaticus Major"; ts describes the time-resolved sampling point in seconds

EMG_cor_ts0.2 - EMG_cor_ts6: Psychophys. signal "EMG Corrugator Supercilii "; ts describes the time-resolved sampling point in seconds
DOI: 10.15156/bio/sh1404674.10fu
title: SH1404674.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404679.10fu
title: SH1404679.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404680.10fu
title: SH1404680.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.6084/m9.figshare.30946573
title: <i>Sivoneniella epilithica</i> gen. et sp. nov., (Leptolyngbyaceae, Cyanobacteria), from Suomenlinna Fortress (UNESCO World Heritage Site), Finland

description: Cyanobacteria are an ancient and diverse group of oxyphototrophic bacteria found across a wide range of environments. The taxonomic diversity of terrestrial cyanobacteria inhabiting rock surfaces remains poorly studied despite their key role as pioneering species in ecological succession. We isolated two phycoerythrin-rich strains resembling the genus <i>Leptolyngbya</i> in a survey of filamentous cyanobacteria from previously unstudied epilithic habitats on the Suomenlinna Fortress (UNESCO World Heritage site) in Finland. We employed a comprehensive polyphasic approach to characterize these isolates to account for the known polyphyletic nature of <i>Leptolyngbya</i> and the presence of cryptic taxa. Our analyses revealed that the two strains form a distinct and well-supported clade within the family Leptolyngbyaceae. Therefore, we propose a new monospecific genus, <i>Sivoneniella</i>, following the International Code of Nomenclature for Algae, Fungi, and Plants. Secondary structures of conserved 16S–23S ITS regions (D1–D1’, box B and V3 helices), ITS per cent dissimilarity, multi-locus phylogenies (16S rRNA, <i>rbc</i>LX, <i>rpo</i>C1), and genome-based phylogenomic analyses all support the recognition of this novel cryptic genus. Genome mining and LC-MS analyses revealed the absence of known cyanotoxins in both strains (UHCC 1019<sup>T</sup> and UHCC 1020), and their cell extracts exhibited no inhibitory effects on the growth of relevant pathogenic bacteria and fungi. These findings advance our understanding of cyanobacterial diversity in terrestrial ecosystems, support the establishment of <i>Sivoneniella</i> as a new genus within the order Leptolyngbyales and explore the biotechnological potential of phycoerythrin-rich strains of <i>S. epilithica</i>. We describe a new cryptic genus of epilithic, phycoerythrin-rich cyanobacteria, <i>Sivoneniella</i>.<i>Sivoneniella</i> is the first genus of cyanobacteria described from an UNESCO monument in Finland.The proposed unification of <i>Plectolyngbya</i> and <i>Radiculonema</i> with <i>Leptolyngbya</i> warrants re-evaluation. We describe a new cryptic genus of epilithic, phycoerythrin-rich cyanobacteria, <i>Sivoneniella</i>. <i>Sivoneniella</i> is the first genus of cyanobacteria described from an UNESCO monument in Finland. The proposed unification of <i>Plectolyngbya</i> and <i>Radiculonema</i> with <i>Leptolyngbya</i> warrants re-evaluation.
DOI: 10.6084/m9.figshare.30946573.v1
title: <i>Sivoneniella epilithica</i> gen. et sp. nov., (Leptolyngbyaceae, Cyanobacteria), from Suomenlinna Fortress (UNESCO World Heritage Site), Finland

description: Cyanobacteria are an ancient and diverse group of oxyphototrophic bacteria found across a wide range of environments. The taxonomic diversity of terrestrial cyanobacteria inhabiting rock surfaces remains poorly studied despite their key role as pioneering species in ecological succession. We isolated two phycoerythrin-rich strains resembling the genus <i>Leptolyngbya</i> in a survey of filamentous cyanobacteria from previously unstudied epilithic habitats on the Suomenlinna Fortress (UNESCO World Heritage site) in Finland. We employed a comprehensive polyphasic approach to characterize these isolates to account for the known polyphyletic nature of <i>Leptolyngbya</i> and the presence of cryptic taxa. Our analyses revealed that the two strains form a distinct and well-supported clade within the family Leptolyngbyaceae. Therefore, we propose a new monospecific genus, <i>Sivoneniella</i>, following the International Code of Nomenclature for Algae, Fungi, and Plants. Secondary structures of conserved 16S–23S ITS regions (D1–D1’, box B and V3 helices), ITS per cent dissimilarity, multi-locus phylogenies (16S rRNA, <i>rbc</i>LX, <i>rpo</i>C1), and genome-based phylogenomic analyses all support the recognition of this novel cryptic genus. Genome mining and LC-MS analyses revealed the absence of known cyanotoxins in both strains (UHCC 1019<sup>T</sup> and UHCC 1020), and their cell extracts exhibited no inhibitory effects on the growth of relevant pathogenic bacteria and fungi. These findings advance our understanding of cyanobacterial diversity in terrestrial ecosystems, support the establishment of <i>Sivoneniella</i> as a new genus within the order Leptolyngbyales and explore the biotechnological potential of phycoerythrin-rich strains of <i>S. epilithica</i>. We describe a new cryptic genus of epilithic, phycoerythrin-rich cyanobacteria, <i>Sivoneniella</i>.<i>Sivoneniella</i> is the first genus of cyanobacteria described from an UNESCO monument in Finland.The proposed unification of <i>Plectolyngbya</i> and <i>Radiculonema</i> with <i>Leptolyngbya</i> warrants re-evaluation. We describe a new cryptic genus of epilithic, phycoerythrin-rich cyanobacteria, <i>Sivoneniella</i>. <i>Sivoneniella</i> is the first genus of cyanobacteria described from an UNESCO monument in Finland. The proposed unification of <i>Plectolyngbya</i> and <i>Radiculonema</i> with <i>Leptolyngbya</i> warrants re-evaluation.
DOI: 10.6084/m9.figshare.30521528
title: Observation of the temporal dynamics of the cytoskeleton during cytokinesis in the brown alga <i>Sphacelaria rigidula</i> (Sphacelariales, Phaeophyceae)

description: In cytokinesis of brown algae, the site at which microtubules (MTs) extending from centrosomes attached to daughter nuclei following nuclear division cross each other develops into a future division plane. An actin plate appears at this site, and a new cell partition membrane is formed. Cytokinesis progresses with outgrowth of the new cell partition membrane and not by ingrowth of furrows in the plasma membrane. The cytokinesis apparatus, composed of MTs and an actin plate, is thought to be involved in vesicle transport, accumulation and fusion to form a new cell partition membrane at the division plane; however, it remains unclear how they interact with each other to promote cytokinesis. To understand the relationship between the cytoskeleton and development of a new cell partition membrane, the behaviour of the cytoskeleton was observed during cytokinesis in living subapical cells of <i>Sphacelaria rigidula</i> by injecting fluorescently labelled phalloidin, actin or tubulin, and staining membranous structures with FM4-64FX. Double staining with Alexa Fluor 488-phalloidin and FM4-64FX revealed that the starting point of formation of a new cell partition membrane corresponded to the position where the actin plate would appear, and both expanded simultaneously, as observed in our previous studies. Cells injected with rhodamine-conjugated actin and HiLyte Fluor 488-conjugated tubulin showed a region of concentrated MTs extending from each centrosome, which appeared to be associated with the initiation of actin plate formation. The areas of the concentrated MTs changed with expansion of the actin plate. Double staining with HiLyte Fluor 488-conjugated tubulin and FM4-64FX revealed that MTs extended towards the edge of the new cell partition membrane. Although it was not possible to observe all three simultaneously, MTs were likely involved in the formation and expansion of the actin plate, and actin was involved in the new cell partition membrane formation. First observation of cytokinesis in living cells of brown algae. The actin plate is involved in membrane formation. Microtubules determine the position of actin plate formation.
DOI: 10.6084/m9.figshare.30521528.v1
title: Observation of the temporal dynamics of the cytoskeleton during cytokinesis in the brown alga <i>Sphacelaria rigidula</i> (Sphacelariales, Phaeophyceae)

description: In cytokinesis of brown algae, the site at which microtubules (MTs) extending from centrosomes attached to daughter nuclei following nuclear division cross each other develops into a future division plane. An actin plate appears at this site, and a new cell partition membrane is formed. Cytokinesis progresses with outgrowth of the new cell partition membrane and not by ingrowth of furrows in the plasma membrane. The cytokinesis apparatus, composed of MTs and an actin plate, is thought to be involved in vesicle transport, accumulation and fusion to form a new cell partition membrane at the division plane; however, it remains unclear how they interact with each other to promote cytokinesis. To understand the relationship between the cytoskeleton and development of a new cell partition membrane, the behaviour of the cytoskeleton was observed during cytokinesis in living subapical cells of <i>Sphacelaria rigidula</i> by injecting fluorescently labelled phalloidin, actin or tubulin, and staining membranous structures with FM4-64FX. Double staining with Alexa Fluor 488-phalloidin and FM4-64FX revealed that the starting point of formation of a new cell partition membrane corresponded to the position where the actin plate would appear, and both expanded simultaneously, as observed in our previous studies. Cells injected with rhodamine-conjugated actin and HiLyte Fluor 488-conjugated tubulin showed a region of concentrated MTs extending from each centrosome, which appeared to be associated with the initiation of actin plate formation. The areas of the concentrated MTs changed with expansion of the actin plate. Double staining with HiLyte Fluor 488-conjugated tubulin and FM4-64FX revealed that MTs extended towards the edge of the new cell partition membrane. Although it was not possible to observe all three simultaneously, MTs were likely involved in the formation and expansion of the actin plate, and actin was involved in the new cell partition membrane formation. First observation of cytokinesis in living cells of brown algae. The actin plate is involved in membrane formation. Microtubules determine the position of actin plate formation.
DOI: 10.6084/m9.figshare.30801252
title: A revision of the genus <i>Halosaccion</i> (Palmariaceae, Rhodophyta) from the Russian Pacific coast with description of the genus <i>Nothohalosaccion</i> gen. nov.

description: This study evaluates the diversity and distribution of species of the genus <i>Halosaccion</i> along the Russian Pacific coast using morphological data and molecular analyses. <i>Halosaccion minjaii</i> was found to be genetically distant from other species in the genus; this and its unique morphological features – namely the development of tetrasporangia in elevated sori between long sterile filaments (which are much longer than tetrasporangia) and the mode of spermatangia formation – led to the proposal of a new genus, <i>Nothohalosaccion</i>, with a single species <i>N. minjaii</i>. Data on species distribution in the north-western Pacific were refined. <i>Halosaccion americanum</i> was recorded for the first time in the Okhotsk Sea. This extended the species range north-westward. In contrast, the distribution of <i>Halosaccion microsporum</i> was restricted to northern and western parts of the Okhotsk Sea, the eastern Kamchatka coast and western Bering Sea. The distribution patterns of species of the genera <i>Halosaccion</i> and <i>Nothohalosaccion</i> are discussed in relation to the oceanography of the region. Types of the names <i>H. microsporum, Dumontia hydrophora</i> (≡ <i>Halosaccion hydrophorum</i>) and <i>Ulva glandiformis</i> (≡ <i>Halosaccion glandiforme</i>) are designated to guarantee their unambiguous use and to stabilize the nomenclature. A new genus <i>Nothohalosaccion</i> for <i>Halosaccion minjaii</i>.First record of <i>Halosaccion americanum</i> in the Okhotsk Sea.Typification of specific names in the genus <i>Halosaccion.</i> A new genus <i>Nothohalosaccion</i> for <i>Halosaccion minjaii</i>. First record of <i>Halosaccion americanum</i> in the Okhotsk Sea. Typification of specific names in the genus <i>Halosaccion.</i>