cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.17541468
title: A catalog of genes, genomes and species of the cat (Felis catus) intestinal microbiota

description: Data sourcesThis dataset was constructed using two different bioprojects:PRJNA758898 from Ma et al. 2022. 16 samples from 16 animals.PRJEB9357 from Deusch et al. 2015. 88 samples from 30 animals.PRJEB4391 from Deusch et al. 2014. 36 samples from 18 animals.PRJNA944553. 30 samples from 30 animals.PRJNA908260 from Bai et al. 2023. 8 samples from 8 animals.PRJNA923753 from Ho et al. 2023. 1 sample.
Metagenomic assemblyDe novo metagenomic assembly was performed on samples listed above. First, sequencing adapters removal and read trimming was performed with fastp. Reads mapped on the host genome (GCF_018350175.1) with bowtie2 were removed with samtools. Finally, Metagenomic assembly was performed with metaSPAdes. Contigs of less than 1500 bp were removed.
MAGs recoveryMAGs were generated with COMEBin (multi-coverage mode) and MAGs quality was assessed with CheckM2. MAGs with completeness < 70% or contamination > 5% or N50 < 5Kb were discarded. Pairwise Average Nucleotide Identity (ANI) was computed for all recovered MAGs with fastANI and dereplication at species level (ANI cutoff = 95%).
Non-redundant gene catalogGenes were predicted on all contigs from metagenomic assemblies with Prodigal (parameters : -m -p meta). Genes were pooled and clustered with cd-hit-est (parameters -c 0.95 -aS 0.90 -G 0 -d 0 -M 0 -T 0) by choosing those from the longest contigs as representatives.
MSPs recoverySamples from multiple cohorts (listed above + PRJNA906124 from Lee et al. 2022) were aligned against the non-redundant gene catalog with the Meteor software suite to produce a raw gene abundance table (1,3M genes quantified in 212 samples). Then, co-abundant genes were binned in 344 Metagenomic Species Pan-genomes (MSPs, i.e. gene clusters that likely belong to the same microbial species) using MSPminer.
MAGs and MSPs taxonomic annotationDereplicated MAGs were annotated with GTDB-Tk based on GTDB r214. Then, MAGs taxonomic annotation was propagated to the corresponding MSPs.
Construction of the phylogenetic tree39 universal phylogenetic markers genes were extracted from the dereplicated MAGs with fetchMGs. Then, the markers were separately aligned with MUSCLE. The 40 alignments were merged and trimmed with trimAl (parameters: -automated1). Finally, the phylogenetic tree was computed with FastTreeMP (parameters: -gamma -pseudo -spr -mlacc 3 -slownni).
Mapping rate distribution across public cohortsWe generated mapping rate distribution plots using Meteor2 (default parameters) for PRJEB4391, PRJEB9357, PRJNA758898, PRJNA906124, PRJNA908260, PRJNA923753 and PRJNA944553 used in catalogue assembly.
DOI: 10.3334/cdiac/spruce.042
title: SPRUCE Geochemical Changes in Porewater from Northern Peatlands at Multiple Depths in Field Samples and over Time in Peat Incubations

description: This data set reports the results of the analysis of dissolved organic matter (DOM) in porewater samples collected from multiple depths in northern peatlands and during laboratory peat incubations to characterize the gain or loss of specific chemical moieties (e.g. CH2, H2, CH2O, etc.) that may be attributed to microbial degradation. During incubations, CO2 and CH4 concentrations and stable isotopes were determined by isotope ratio mass spectrometry. Porewater samples were collected from the S1 Bog (April 2015), a Sphagnum-dominated site at northern Minnesota peatland in the Marcell Experimental Forest, using permanently-installed piezometers, which provided profiles from the watertable surface to 200 cm depth. This is the site of the SPRUCE experiment. Porewater and peat samples were collected in July 2015 from an additional Sphagnum-dominated site within Stordalen Mire, Sweden, a palsa mire underlain by thawing permafrost, using perforated stainless steel tubes that were inserted into the peat to the desired depths (13 cm and 32 cm). Porewater samples were analyzed by Fourier transform ion cyclotron resonance mass spectrometry (FTICRMS) followed by Kendrick mass transform analysis. The Kendrick mass (i.e., Kendrick 1963) transform analysis identifies the gain or loss of specific chemical moieties (e.g. CH2, H2, CH2O, etc.) via mass differences, and was used to infer potential microbial degradation pathways by which compounds were consumed in these samples. Increasing depth would suggest more degradation of DOM with the greater length of time for peat accumulation and similarly, with increasing length of peat incubation. During incubations, CO2 and CH4 concentrations and stable isotopes were determined by isotope ratio mass spectrometry.
DOI: 10.6084/m9.figshare.30540317.v2
title: Defining Wealth in Europe: A Cross-National Analysis of Top 10% Income Thresholds and Purchasing Power (EU-27 + EFTA, 2024)

description: This study, conducted by the accounting software provider <b>BuchhaltungsButler</b> in collaboration with the research experts at <b>DataPulse Research</b>, analyzes income inequality and wealth perception across Europe using <b>Eurostat (EU-SILC, 2024)</b> and <b>OECD</b> data. It estimates the <b>net household income thresholds</b> required to enter the top 10% of earners across 30 European countries (EU-27 + EFTA).All values are adjusted for <b>purchasing power parity (PPP)</b> and standardized for a three-person household, providing a harmonized cross-country comparison.Findings reveal stark contrasts: the entry threshold to the richest decile ranges from €175 000 in Luxembourg to €19 000 in Turkey, narrowing but persisting after PPP adjustment. The study further quantifies how much of each nation’s total income and economic power is concentrated within the top 10%, revealing that in several European countries this group accounts for over one-quarter of all income.This dataset offers a quantitative foundation for comparative research on <b>income distribution, purchasing power, and inequality</b> in Europe.<br><br><b>Original source:</b> What it takes to be rich in Europe<br><b></b><b>Sources: </b>OECD, Eurostat
DOI: 10.5281/zenodo.17541390
title: A catalog of genes, genomes and species of the dog (Canis lupus familiaris) intestinal microbiota

description: Data sourcesThis dataset was constructed using metagenomic sequencing data from the bioproject PRJEB20308 from Coelho et al. 2018 (129 samples)
Metagenomic assemblyFirst, sequencing adapters removal and read trimming was performed with fastp. Reads mapped on the host genome (ROS_Cfam_1.0 GCF_014441545.1) with bowtie2 were removed with samtools. Finally, Metagenomic assembly was performed with metaSPAdes. Contigs of less than 1500 bp were removed.
MAGs recoveryMAGs were generated with COMEBin (multi-coverage mode) and MAGs quality was assessed with CheckM2. MAGs with completeness < 70% or contamination > 5% or N50 < 5Kb were discarded. Pairwise Average Nucleotide Identity (ANI) was computed for all recovered MAGs with fastANI and dereplication at species level (ANI cutoff = 95%).
Non-redundant gene catalogGenes were predicted on all contigs from metagenomic assemblies with Prodigal (parameters : -m -p meta). Genes were pooled and clustered with cd-hit-est (parameters -c 0.95 -aS 0.90 -G 0 -d 0 -M 0 -T 0) by choosing those from the longest contigs as representatives.
MSPs recoveryReads were aligned against the non-redundant gene catalog with the Meteor software suite to produce a raw gene abundance table (1,0M genes quantified in 129 samples). Then, co-abundant genes were binned in 234 Metagenomic Species Pan-genomes (MSPs, i.e. gene clusters that likely belong to the same microbial species) using MSPminer.
MAGs and MSPs taxonomic annotationDereplicated MAGs were annotated with GTDB-Tk based on GTDB r220. Then, MAGs taxonomic annotation was propagated to the corresponding MSPs.
Construction of the phylogenetic tree39 universal phylogenetic markers genes were extracted from the dereplicated MAGs with fetchMGs. Then, the markers were separately aligned with MUSCLE. The 40 alignments were merged and trimmed with trimAl (parameters: -automated1). Finally, the phylogenetic tree was computed with FastTreeMP (parameters: -gamma -pseudo -spr -mlacc 3 -slownni).
Mapping rate distribution across public cohortsWe generated mapping rate distribution plots using Meteor2 (default parameters), comparing performance between: PRJEB20308 (cohort used in catalogue assembly) and PRNJNA714112 (independent cohort not used in assembly).
DOI: 10.5683/sp2/w0fipu
title: Hawaii Pyroxenite Data

description: Data for publication in Communications Earth and Environment
DOI: 10.5517/ccdc.csd.cc27gb8b
title: CCDC 2069351: Experimental Crystal Structure Determination

description: Related Article: Nurunnisa Atceken, Imogen L. Christopher, Gary S. Nichol, Carole A. Morrison, Colin R. Pulham|2025|Cryst.Growth Des.|||doi:10.1021/acs.cgd.5c01228
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc27gb9c
title: CCDC 2069352: Experimental Crystal Structure Determination

description: Related Article: Nurunnisa Atceken, Imogen L. Christopher, Gary S. Nichol, Carole A. Morrison, Colin R. Pulham|2025|Cryst.Growth Des.|||doi:10.1021/acs.cgd.5c01228
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc27gbbd
title: CCDC 2069353: Experimental Crystal Structure Determination

description: Related Article: Nurunnisa Atceken, Imogen L. Christopher, Gary S. Nichol, Carole A. Morrison, Colin R. Pulham|2025|Cryst.Growth Des.|||doi:10.1021/acs.cgd.5c01228
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc27gbcf
title: CCDC 2069354: Experimental Crystal Structure Determination

description: Related Article: Nurunnisa Atceken, Imogen L. Christopher, Gary S. Nichol, Carole A. Morrison, Colin R. Pulham|2025|Cryst.Growth Des.|||doi:10.1021/acs.cgd.5c01228
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc28sfp6
title: CCDC 2108858: Experimental Crystal Structure Determination

description: Related Article: Xiaowan Han, Xiangchuan Meng, Xiang Wang, Shan Leng, Qian Liu, Leilei Zhang, Pingping Li, Qingyang Zhang, Hai-Yu Hu|2023|Anal.Chem.|95|7715|doi:10.1021/acs.analchem.3c00827
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc29lrc1
title: CCDC 2133183: Experimental Crystal Structure Determination

description: Related Article: Hongxu Lv, Leiyang Bai, Xuefeng Jiang|2025|J.Am.Chem.Soc.|||doi:10.1021/jacs.5c14209
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc29lrf3
title: CCDC 2133185: Experimental Crystal Structure Determination

description: Related Article: Hongxu Lv, Leiyang Bai, Xuefeng Jiang|2025|J.Am.Chem.Soc.|||doi:10.1021/jacs.5c14209
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2bv09j
title: CCDC 2169947: Experimental Crystal Structure Determination

description: Related Article: Houli Jiang, Wang Hua, Yingying Ren, Letian Cui, Lingyi Kong, Jun Luo|2025|Bioorg.Chem.|166|109082|doi:10.1016/j.bioorg.2025.109082
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2dk93d
title: CCDC 2221153: Experimental Crystal Structure Determination

description: Related Article: Jingyuan Song, Renwei Xiao, Hui He, Li Wang, Fanping Huang, Menglong Zhao, Donghuang Liu, Shao-Fei Ni, Gen-Qiang Chen, Xumu Zhang|2025|Chem Cat.|5||doi:10.1016/j.checat.2025.101438
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2lz4qg
title: CCDC 2412256: Experimental Crystal Structure Determination

description: Related Article: Noah D. McMillion, Mehrnaz Aliahmadi, Quinton J. Bruch, Chun-Hsing Chen, Alexander S. Hegg, Patrick L. Holland, Alexander J. M. Miller|2025|Inorg.Chem.|||doi:10.1021/acs.inorgchem.5c03010
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2lz4rh
title: CCDC 2412257: Experimental Crystal Structure Determination

description: Related Article: Noah D. McMillion, Mehrnaz Aliahmadi, Quinton J. Bruch, Chun-Hsing Chen, Alexander S. Hegg, Patrick L. Holland, Alexander J. M. Miller|2025|Inorg.Chem.|||doi:10.1021/acs.inorgchem.5c03010
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2kh2sy
title: CCDC 2367990: Experimental Crystal Structure Determination

description: Related Article: Chun Tang, Ruihua Zhang, Sultan Almunif, Partha Jyoti Das, Paige J. Brown, Ryan M. Young, Guangcheng Wu, Han Han, Xueze Zhao, Arthur H. G. David, Huang Wu, Bo Song, Alexandre Abhervé, Yong Wu, Yu-Meng Ye, Yuanning Feng, Aspen X.-Y. Chen, Charlotte L. Stern, Zhi Li, Evan A. Scott, Michael R. Wasielewski, J. Fraser Stoddart
|2025|Nat. Synth.|4|956|doi:10.1038/s44160-025-00781-z
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2m2mx8
title: CCDC 2415610: Experimental Crystal Structure Determination

description: Related Article: Yuyang Su, Kaidong Shen, Pingsen Shi, Chenrui Liu, Shuo Song, Hong Yi, Aiwen Lei, Yingchao Liu, Heng Wang, Xiaopeng Li, Qiquan Luo, Chang Xu, Xiaoming Wang|2025|J.Am.Chem.Soc.|||doi:10.1021/jacs.5c12842
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2ml5t7
title: CCDC 2430549: Experimental Crystal Structure Determination

description: Related Article: Pratima Dhawan, Oussama Tihouna, Christoph Wölper, Joost Möbius, Hannah Siera, Gebhard Haberhauer, Stephan Schulz|2025|Eur.J.Inorg.Chem.|28|e202500311|doi:10.1002/ejic.202500311
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2ml5v8
title: CCDC 2430550: Experimental Crystal Structure Determination

description: Related Article: Pratima Dhawan, Oussama Tihouna, Christoph Wölper, Joost Möbius, Hannah Siera, Gebhard Haberhauer, Stephan Schulz|2025|Eur.J.Inorg.Chem.|28|e202500311|doi:10.1002/ejic.202500311
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2ml5w9
title: CCDC 2430551: Experimental Crystal Structure Determination

description: Related Article: Pratima Dhawan, Oussama Tihouna, Christoph Wölper, Joost Möbius, Hannah Siera, Gebhard Haberhauer, Stephan Schulz|2025|Eur.J.Inorg.Chem.|28|e202500311|doi:10.1002/ejic.202500311
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2ml5xb
title: CCDC 2430552: Experimental Crystal Structure Determination

description: Related Article: Pratima Dhawan, Oussama Tihouna, Christoph Wölper, Joost Möbius, Hannah Siera, Gebhard Haberhauer, Stephan Schulz|2025|Eur.J.Inorg.Chem.|28|e202500311|doi:10.1002/ejic.202500311
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2ml5yc
title: CCDC 2430553: Experimental Crystal Structure Determination

description: Related Article: Pratima Dhawan, Oussama Tihouna, Christoph Wölper, Joost Möbius, Hannah Siera, Gebhard Haberhauer, Stephan Schulz|2025|Eur.J.Inorg.Chem.|28|e202500311|doi:10.1002/ejic.202500311
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2ml5zd
title: CCDC 2430554: Experimental Crystal Structure Determination

description: Related Article: Pratima Dhawan, Oussama Tihouna, Christoph Wölper, Joost Möbius, Hannah Siera, Gebhard Haberhauer, Stephan Schulz|2025|Eur.J.Inorg.Chem.|28|e202500311|doi:10.1002/ejic.202500311
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2mxljp
title: CCDC 2440553: Experimental Crystal Structure Determination

description: Related Article: Bhawyanth Duvvuru, Myles W. Smith|2025|J.Am.Chem.Soc.|||doi:10.1021/jacs.5c14142
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2mxtgv
title: CCDC 2440768: Experimental Crystal Structure Determination

description: Related Article: Kirralee J. Burke, Rebekah N. Duffin, Philip C. Andrews|2025|Dalton Trans.|54|16201|doi:10.1039/d5dt02012c
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2mxthw
title: CCDC 2440769: Experimental Crystal Structure Determination

description: Related Article: Kirralee J. Burke, Rebekah N. Duffin, Philip C. Andrews|2025|Dalton Trans.|54|16201|doi:10.1039/d5dt02012c
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2mxtjx
title: CCDC 2440770: Experimental Crystal Structure Determination

description: Related Article: Kirralee J. Burke, Rebekah N. Duffin, Philip C. Andrews|2025|Dalton Trans.|54|16201|doi:10.1039/d5dt02012c
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.