cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.3535/nsa-d5s-am4
title: Solidosagitta planctonis (Steinhaus, 1896)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ngd-ccf-blt
title: Paramphistomum cervi (Zeder, 1790) Fischoeder, 1901

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/08v-wj9-44z
title: Allonais Sperber, 1948

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ve6-193-qyr
title: Planariidae Stimpson, 1857

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3938161_d1
title: Additional file 1 of A post-gene silencing bioinformatics protocol for plant-defence gene validation and underlying process identification: case study of the Arabidopsis thaliana NPR1

description: Experimental data from Arabidopsis wild type and npr1 mutant plants. Leaf bacteria spore count (phenotype) dataset of 31 Arabidopsis wild type (control) and 29 npr1 mutant (case) plants 48 h post Pst-DC3000 infection. (XLS 10 kb)
DOI: 10.3535/kna-3w1-qep
title: Dero pectinata Aiyer, 1929

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7gf-wf3-z14
title: Girardia tigrina (Girard, 1850)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/8tc-kl6-l76
title: Namanereis pontica (Bobretzky, 1872)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/9f2-zjr-rv4
title: Erpobdella

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/pr8-9jk-1zn
title: Erpobdella

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/91k-a9f-7y2
title: Eurystomina terricola (de Man, 1907) Filipjev, 1921

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/jkc-yn4-jey
title: Glossiphonia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/66a-zfh-q5p
title: Leucocephalonemertes aurantiaca (Grube, 1855)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/aqb-s95-hql
title: Dugesia japonica Ichikawa & Kawakatsu, 1964

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/dfh-7q8-h5p
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0gz-4ch-ck7
title: Dugesia Girard, 1850

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/bm8-g5a-xqa
title: Hydroides alatalateralis (Jones, 1962)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/0nk-knt-mx6
title: Pentacoelum kazukolinda (Kawakatsu & Mitchell, 1984)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7dk-3c4-hlh
title: Lanice conchilega (Pallas, 1766)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/m47-jy7-qrg
title: Baseodiscus unistriatus (Isler, 1900)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/ent-elb-eg4
title: Polynoidae Kinberg, 1856

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/xdd-wq3-4fb
title: Polynoidae Kinberg, 1856

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/brr-a24-tap
title: Drepanophorus rubrostriatus

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/gy7-1n7-sp4
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/29q-89c-nz7
title: Pristina (Pristina) Ehrenberg, 1831

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/et8-1a6-zdy
title: Heteromastus filiformis (Claparède, 1864)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/mkf-zej-w3m
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/dvv-xjh-pm9
title: Hediste diversicolor (O.F. Müller, 1776)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/khf-p4y-xxq
title: Annelida

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/87t-22x-3t9
title: Alitta virens (M. Sars, 1835)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/qk2-tzl-gse
title: Valdivianemertes Stiasny-Wijnhoff, 1923

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/1jt-kcz-alp
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/dkn-tns-95f
title: Molineus patens (Dujardin, 1845) Petrow, 1928

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/70k-t0e-wey
title: Perinereis nuntia (Lamarck, 1818)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zp1-g80-e1j
title: Convoluta Ørsted, 1843

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/q2f-y8y-ymw
title: Pomatostegus stellatus (Abildgaard, 1789)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/gk9-w98-05d
title: Lineus obscurus (Desor, 1848)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/r9s-b4d-yf4
title: Nectonemertes mirabilis Verrill, 1892

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/r8q-94g-t3s
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/5wf-l4k-szc
title: Dinobothrium paciferum Sproston, 1948

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/wjw-hdm-amw
title: Dugesia Girard, 1850

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/lbx-bn0-v9v
title: Spengelia sibogae Spengel, 1907

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/lx4-l49-zv5
title: Cerebratulus [Renier], [1804]

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3938188_d2
title: Additional file 2: Table S2. of Assessing S. mansoni prevalence in Biomphalaria snails in the Gombe ecosystem of western Tanzania: the importance of DNA sequence data for clarifying species identification

description: Sampling locations and infection status of snails found in Gombe National Park and surrounding villages, showing the village/site and sampling points along the focal stream within each village, the individual code for the sample, the season sampled and whether schistosomes were detected through experimental shedding (microscopy) or presence of the 500Â bp PCR band. Presence of the 1000Â bp band is also indicated, along with the species identification of snails and parasites based on sequencing. Mtanga stream in Mtanga villages where no snails were found has been excluded from this list. (XLSX 24Â kb)
DOI: 10.3535/bpc-t52-zq0
title: Peripatus Guilding, 1826

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/yy1-v9e-sm2
title: Spengelia sibogae Spengel, 1907

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3938194_d1
title: Additional file 1: of Intermediate PSA half-life after neoadjuvant hormone therapy predicts reduced risk of castration-resistant prostate cancer development after radical prostatectomy

description: Raw cohort data. Raw patient parameters used in the analysis (XLSX 68 kb)
DOI: 10.15468/dl.snnpza
title: Occurrence Download

description: A dataset containing 159 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "TaxonKey is one of (Batrachoseps gabrieli Wake, 1996)"
 ]
}

 The dataset includes 159 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0039619-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/d8s-trz-g1y
title: Chloeia amphora Horst, 1910

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/7xr-d5p-l5a
title: Golfingia (Golfingia) vulgaris (de Blainville, 1827)

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/cdy-p5k-kdj
title: Planariidae Stimpson, 1857

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3938188_d3.v1
title: Additional file 3:  of Assessing S. mansoni prevalence in Biomphalaria snails in the Gombe ecosystem of western Tanzania: the importance of DNA sequence data for clarifying species identification

description: Supplementary Sequence Information. This file provides the sequences (in FASTA format) that were obtained from sequencing each of the band sizes found using the primers ETTS2 and ETTS17, which target the ITS1 region of the ribosomal DNA array. For the 1000 bp band, the sequences were not of sufficient quality to sequence through the entire fragment. For the other bands (approximately 600 bp for snails and 500 bp for trematodes), the size of the consensus sequence for the two primers is indicated, along with the sequence identity, as determined using BLAST. For the 1000 bp product, only the sequence from the ETTS2 primer is provided. For B. pfeifferi, the type 1 and type 2 sequences only differ by a single nucleotide. For each sequence type, the closest matching sequences in GenBank are included. Alignment is only possible within and not between, sequence types, due to the large length variation. (TXT 20 kb)
DOI: 10.3535/3wn-gb8-lm9
title: Contracaecum Railliet & Henry, 1912

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/69s-alw-qvk
title: Nephtys longosetosa Örsted, 1842

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3938182_d4.v1
title: Additional file 4: of Phylogeography of Nasutitermes corniger (Isoptera: Termitidae) in the Neotropical Region

description: Dataset used in this study. Nucleotide sequences of the specimens used in this study. (TXT 110 kb)
DOI: 10.3535/fr9-xfg-3rs
title: Nephtys longosetosa Örsted, 1842

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/p2b-pl6-5kk
title: Animalia

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/cj7-sqb-vdp
title: Dero Oken, 1815

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3938188_d3
title: Additional file 3:  of Assessing S. mansoni prevalence in Biomphalaria snails in the Gombe ecosystem of western Tanzania: the importance of DNA sequence data for clarifying species identification

description: Supplementary Sequence Information. This file provides the sequences (in FASTA format) that were obtained from sequencing each of the band sizes found using the primers ETTS2 and ETTS17, which target the ITS1 region of the ribosomal DNA array. For the 1000 bp band, the sequences were not of sufficient quality to sequence through the entire fragment. For the other bands (approximately 600 bp for snails and 500 bp for trematodes), the size of the consensus sequence for the two primers is indicated, along with the sequence identity, as determined using BLAST. For the 1000 bp product, only the sequence from the ETTS2 primer is provided. For B. pfeifferi, the type 1 and type 2 sequences only differ by a single nucleotide. For each sequence type, the closest matching sequences in GenBank are included. Alignment is only possible within and not between, sequence types, due to the large length variation. (TXT 20 kb)
DOI: 10.3535/38s-5tt-y40
title: Erpobdella

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/zca-24w-b2h
title: Salifidae

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.6084/m9.figshare.c.3938182_d4
title: Additional file 4: of Phylogeography of Nasutitermes corniger (Isoptera: Termitidae) in the Neotropical Region

description: Dataset used in this study. Nucleotide sequences of the specimens used in this study. (TXT 110 kb)
DOI: 10.3535/5j8-qqs-tkr
title: Heterakis Schrank, 1790

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/w50-rzx-zrj
title: Dugesia japonica Ichikawa & Kawakatsu, 1964

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/6gh-239-bb0
title: Hydroides crucigera Mörch, 1863

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/htb-n9d-dwr
title: Rhabdias bufonis (Schrank, 1788) Stiles & Hassall, 1905

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/9mk-cxb-lce
title: Dugesia japonica Ichikawa & Kawakatsu, 1964

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.5281/zenodo.11263482
title: Invasive macroalgae shape chemical and microbial waterscapes on coral reefs

description: On coral reefs, the tight coupling between microorganisms and metabolites drives reef biogeochemical processes and mediates ecological interactions. In the wake of the widespread shift from coral to macroalgal dominance, deciphering the unseen diversity of microbes and chemicals and their spatial distribution is paramount to understand the consequences of benthic community changes on coral reef ecosystem function and resilience. This study demonstrates that macroalgal assemblages modify the multiomic signature of reef boundary layers. It reveals a spatial structuration of planktonic microbial communities and identifies specific classes of compounds characterizing two invasive macroalgal species and their surrounding waters. Results support that macroalgae release chemicals which select for specific planktonic microbial communities, thereby creating a detrimental environment for corals.
DOI: 10.5281/zenodo.11263539
title: Invasive macroalgae shape chemical and microbial waterscapes on coral reefs

description: On coral reefs, the tight coupling between microorganisms and metabolites drives reef biogeochemical processes and mediates ecological interactions. In the wake of the widespread shift from coral to macroalgal dominance, deciphering the unseen diversity of microbes and chemicals and their spatial distribution is paramount to understand the consequences of benthic community changes on coral reef ecosystem function and resilience. This study demonstrates that macroalgal assemblages modify the multiomic signature of reef boundary layers. It reveals a spatial structuration of planktonic microbial communities and identifies specific classes of compounds characterizing two invasive macroalgal species and their surrounding waters. Results support that macroalgae release chemicals which select for specific planktonic microbial communities, thereby creating a detrimental environment for corals.
DOI: 10.5281/zenodo.14366152
title: Invasive macroalgae shape chemical and microbial waterscapes on coral reefs

description: Over the past decades, human impacts have changed the structure of tropical benthic reef communities towards coral depletion and macroalgal proliferation. However, how these changes have modified chemical and microbial waterscapes is poorly known. Here, we assessed how the experimental removal of macroalgal assemblages influences the chemical and microbial composition of two reef boundary layers, the benthic and the momentum. Chemical and microbial waterscapes were spatially structured, both horizontally and vertically, according to macroalgal dominance and boundary layers. Microbes associated with reef degradation were enriched in the boundary layers surrounding macroalgal-dominated substrata. Dominant macroalgae were surrounded by a distinct chemical pool of diverse lipid classes (e.g., diterpenoids and glycerolipids) and labile organic matter (e.g., organooxygen compounds), which diffused from algal tissues to boundary layers according to their polarity. Finally, our results highlighted strong co-variations between specific algal-derived metabolites and planktonic microbes, giving insight into their roles in coral reef functioning and resilience.
description: Data and scripts for the manuscript "Invasive macroalgae shape chemical and microbial waterscapes on coral reefs"



Reefwater microbiome and metabolome analysis










Microbiome : seqtab.no1.rds, taxa_NS.rds and reefwater_sampleMetadata.csv. To use with script "reefwater microbiome analysis.R"




Metabolome : reefwater_posMZmine_wblanksQC.csv (MS1 feature intensities) and eaux_pos.sampleMetadata.csv. To use with script " reefwater metabolome_posMS analysis.R"




Multiomic :  "multiomic_processed data". To use with script "multiomic_reefwater_DIABLO.R"







Algal metabolites diffusion and molecular network analysis










Venn Diagrams, Compounds polarity: endosurf_posMZmine_MS1_quant.csv (MS1 feature peak intensities). To use with script "algal metabolites MS1.R"




Discriminant features, Molecular network analysis and annotations in positive ionization mode: endosurf_posMZmine_GNPS_wblanksQC_gap_quant.csv (MS1 features with MS2 peak intensities),endosurf_sw_pos_fbmnextra_gap.csv (FBMN output), sirius_classif_pos.xlsx, sirius_compID_pos.xlsx. To use with script "algal metabolites MS2_FBMN.R"


Discriminant features, Molecular network analysis and annotations in negative ionization mode: endosurf_sw_neg_quant_table.csv, endosurf_sw_neg_fbmn.csv, sirius_classif_neg.csv, sirius_compID_neg.csv. To use with script "algal metabolites MS2_FBMN_neg".R
DOI: 10.5281/zenodo.8422550
title: Invasive macroalgae shape chemical and microbial waterscapes on coral reefs

description: On coral reefs, the tight coupling between microorganisms and metabolites drives reef biogeochemical processes and mediates ecological interactions. In the wake of the widespread shift from coral to macroalgal dominance, deciphering the unseen diversity of microbes and chemicals and their spatial distribution is paramount to understand the consequences of benthic community changes on coral reef ecosystem function and resilience. This study demonstrates that macroalgal assemblages modify the multiomic signature of reef boundary layers. It reveals a spatial structuration of planktonic microbial communities and identifies specific classes of compounds characterizing two invasive macroalgal species and their surrounding waters. Results support that macroalgae release chemicals which select for specific planktonic microbial communities, thereby creating a detrimental environment for corals.
DOI: 10.3535/h3h-66h-4l3
title: Theromyzon

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.3535/qea-jmz-qmt
title: Dugesia japonica Ichikawa & Kawakatsu, 1964

description: Digital Specimen for the physical specimen hosted at Naturalis Biodiversity Center.
DOI: 10.5281/zenodo.11263451
title: Invasive macroalgae shape chemical and microbial waterscapes on coral reefs

description: On coral reefs, the tight coupling between microorganisms and metabolites drives reef biogeochemical processes and mediates ecological interactions. In the wake of the widespread shift from coral to macroalgal dominance, deciphering the unseen diversity of microbes and chemicals and their spatial distribution is paramount to understand the consequences of benthic community changes on coral reef ecosystem function and resilience. This study demonstrates that macroalgal assemblages modify the multiomic signature of reef boundary layers. It reveals a spatial structuration of planktonic microbial communities and identifies specific classes of compounds characterizing two invasive macroalgal species and their surrounding waters. Results support that macroalgae release chemicals which select for specific planktonic microbial communities, thereby creating a detrimental environment for corals.
DOI: 10.5281/zenodo.11400913
title: Invasive macroalgae shape chemical and microbial waterscapes on coral reefs

description: On coral reefs, the tight coupling between microorganisms and metabolites drives reef biogeochemical processes and mediates ecological interactions. In the wake of the widespread shift from coral to macroalgal dominance, deciphering the unseen diversity of microbes and chemicals and their spatial distribution is paramount to understand the consequences of benthic community changes on coral reef ecosystem function and resilience. This study demonstrates that macroalgal assemblages modify the multiomic signature of reef boundary layers. It reveals a spatial structuration of planktonic microbial communities and identifies specific classes of compounds characterizing two invasive macroalgal species and their surrounding waters. Results support that macroalgae release chemicals which select for specific planktonic microbial communities, thereby creating a detrimental environment for corals.
DOI: 10.5281/zenodo.14026997
title: Invasive macroalgae shape chemical and microbial waterscapes on coral reefs

description: On coral reefs, the tight coupling between microorganisms and metabolites drives reef biogeochemical processes and mediates ecological interactions. In the wake of the widespread shift from coral to macroalgal dominance, deciphering the unseen diversity of microbes and chemicals and their spatial distribution is paramount to understand the consequences of benthic community changes on coral reef ecosystem function and resilience. This study demonstrates that macroalgal assemblages modify the multiomic signature of reef boundary layers. It reveals a spatial structuration of planktonic microbial communities and identifies specific classes of compounds characterizing two invasive macroalgal species and their surrounding waters. Results support that macroalgae release chemicals which select for specific planktonic microbial communities, thereby creating a detrimental environment for corals.