cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7531403
title: Soil carbon stock and Plinthosol fertility in smallholder land-use systems in the eastern Amazon, Brazil

description: The soil organic carbon (SOC) stock is an important attribute in the maintenance of ecosystem services by natural and agricultural ecosystems. In the humid tropics, slash-and-burn cultivation for food production and establishment of pastures has frequently led to soil degradation. In the eastern Brazilian Amazonia, we assessed impacts of different land-use systems on the SOC stock and some chemical properties of soils. Four land-use systems were studied: shifting cultivation (SC), pasture (PA), mixed fallow (MF) and secondary forest (SF). In the soils studied, most nutrients were not significantly influenced by land-use changes, and the chemical fertility was low. Similarly, SOC concentration was low, ranging, in the 0-10 cm layer, from 9.54 g kg<sup>−1</sup> in PA to 12.73 g kg<sup>−1</sup> in MF. In the 0-100 cm layer, the SOC stock varied from 42.1 Mg ha-1 in SC to 53.3 Mg ha<sup>−1</sup> in MF, without significant differences between the land-use systems. The SOC stock in the 0-30 cm layer represented 50-56% of that in the 0-100 cm layer. The soils studied have the lowest SOC stocks measured in the Amazonia region. The low organic matter content, associated with soil acidity, a small sum of exchangeable bases and low extractable P, can constrain the productivity and the sustainability of these cropping systems.
DOI: 10.6084/m9.figshare.7531403.v1
title: Soil carbon stock and Plinthosol fertility in smallholder land-use systems in the eastern Amazon, Brazil

description: The soil organic carbon (SOC) stock is an important attribute in the maintenance of ecosystem services by natural and agricultural ecosystems. In the humid tropics, slash-and-burn cultivation for food production and establishment of pastures has frequently led to soil degradation. In the eastern Brazilian Amazonia, we assessed impacts of different land-use systems on the SOC stock and some chemical properties of soils. Four land-use systems were studied: shifting cultivation (SC), pasture (PA), mixed fallow (MF) and secondary forest (SF). In the soils studied, most nutrients were not significantly influenced by land-use changes, and the chemical fertility was low. Similarly, SOC concentration was low, ranging, in the 0-10 cm layer, from 9.54 g kg<sup>−1</sup> in PA to 12.73 g kg<sup>−1</sup> in MF. In the 0-100 cm layer, the SOC stock varied from 42.1 Mg ha-1 in SC to 53.3 Mg ha<sup>−1</sup> in MF, without significant differences between the land-use systems. The SOC stock in the 0-30 cm layer represented 50-56% of that in the 0-100 cm layer. The soils studied have the lowest SOC stocks measured in the Amazonia region. The low organic matter content, associated with soil acidity, a small sum of exchangeable bases and low extractable P, can constrain the productivity and the sustainability of these cropping systems.
DOI: 10.7284/103595
title: Magnetometer data collected during research cruise KM0904 using a Geometrics G-882 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/109209
title: Multibeam Echosounder data collected during research cruise KM0904 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/109210
title: Multibeam Echosounder data collected during research cruise KM0904 using a Kongsberg EM1002 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101592
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise KM0905 using a Hawaii UHDAS instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7531211
title: Additional file 9: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S6D. Intron/exon numbers in 24 non-Dikarya CLO/PXG genes. (XLSX 9 kb)
DOI: 10.7284/101626
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise KM0905 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7531205
title: Additional file 7: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S6B. Intron/exon numbers in 89 Basidiomycota CLO/PXG genes. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.7531208
title: Additional file 8: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S6C. Intron/exon numbers in 231 Ascomycota CLO/PXG genes. (XLSX 24 kb)
DOI: 10.6084/m9.figshare.7531205.v1
title: Additional file 7: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S6B. Intron/exon numbers in 89 Basidiomycota CLO/PXG genes. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.7531211.v1
title: Additional file 9: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S6D. Intron/exon numbers in 24 non-Dikarya CLO/PXG genes. (XLSX 9 kb)
DOI: 10.7284/103544
title: Gravimeter data collected during research cruise KM0905 using a L&R S-33 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7531199
title: Additional file 5: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S5. Predicted transmembrane regions of 40 representative fungal CLO/PXG proteins. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.7531202
title: Additional file 6: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S6A. Intron/exon numbers in 40 representative fungal CLO/PXG genes. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.7531208.v1
title: Additional file 8: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S6C. Intron/exon numbers in 231 Ascomycota CLO/PXG genes. (XLSX 24 kb)
DOI: 10.6084/m9.figshare.7531196
title: Additional file 4: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S4. List of 40 representative fungal genomes use for motif and structural analyses including the CLO names assigned in this study, their NCBI/Genbank gene numbers and other information on the characteristics of the encoded proteins. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.7531199.v1
title: Additional file 5: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S5. Predicted transmembrane regions of 40 representative fungal CLO/PXG proteins. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.7531202.v1
title: Additional file 6: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S6A. Intron/exon numbers in 40 representative fungal CLO/PXG genes. (XLSX 18 kb)
DOI: 10.7284/101714
title: INS (Inertial Navigation System) data collected during research cruise KM0905 using a Applanix POS/MV-320 V4 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7531190
title: Additional file 30: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Accession number and links to the analysed data. (XLSX 38 kb)
DOI: 10.6084/m9.figshare.7531193
title: Additional file 3: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S3. The full list of the 243 sequenced fungal genomes that between them contained 344 CLO/PXG-like sequences plus the CLO names assigned in this study, their NCBI/Genbank gene numbers and other information on the characteristics of the encoded proteins. (XLSX 54 kb)
DOI: 10.6084/m9.figshare.7531193.v1
title: Additional file 3: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S3. The full list of the 243 sequenced fungal genomes that between them contained 344 CLO/PXG-like sequences plus the CLO names assigned in this study, their NCBI/Genbank gene numbers and other information on the characteristics of the encoded proteins. (XLSX 54 kb)
DOI: 10.6084/m9.figshare.7531196.v1
title: Additional file 4: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S4. List of 40 representative fungal genomes use for motif and structural analyses including the CLO names assigned in this study, their NCBI/Genbank gene numbers and other information on the characteristics of the encoded proteins. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.7531187
title: Additional file 2: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S2. Lists of fungal CLO/PXG-like sequences. A list of the 844 sequenced fungal genomes analysed by BLAST searches for the presence of CLO/PXG-like sequences. (XLSX 50 kb)
DOI: 10.6084/m9.figshare.7531190.v1
title: Additional file 30: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Accession number and links to the analysed data. (XLSX 38 kb)
DOI: 10.7284/103596
title: Magnetometer data collected during research cruise KM0905 using a Geometrics G-882 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7531187.v1
title: Additional file 2: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S2. Lists of fungal CLO/PXG-like sequences. A list of the 844 sequenced fungal genomes analysed by BLAST searches for the presence of CLO/PXG-like sequences. (XLSX 50 kb)
DOI: 10.7284/101451
title: Multibeam Echosounder data collected during research cruise KM0905 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101452
title: Multibeam Echosounder data collected during research cruise KM0905 using a Kongsberg EM1002 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101593
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise KM0906 using a Hawaii UHDAS instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7531154
title: Additional file 1: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S1. Details of various bioinformatics tools and packages used in this study, including web-location and licence type (XLSX 10 kb)
DOI: 10.7284/101627
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise KM0906 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7531154.v1
title: Additional file 1: of Evolutionary, structural and functional analysis of the caleosin/peroxygenase gene family in the Fungi

description: Table S1. Details of various bioinformatics tools and packages used in this study, including web-location and licence type (XLSX 10 kb)
DOI: 10.7284/103545
title: Gravimeter data collected during research cruise KM0906 using a L&R S-33 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101715
title: INS (Inertial Navigation System) data collected during research cruise KM0906 using a Applanix POS/MV-320 V4 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101453
title: Multibeam Echosounder data collected during research cruise KM0906 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101594
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise KM0907 using a Hawaii UHDAS instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103546
title: Gravimeter data collected during research cruise KM0907 using a L&R S-33 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101716
title: INS (Inertial Navigation System) data collected during research cruise KM0907 using a Applanix POS/MV-320 V4 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7531091
title: MOESM2 of Lipid metabolism of phenol-tolerant Rhodococcus opacus strains for lignin bioconversion

description: Additional file 2: Table S1. Excel file containing the lipid library and lipid library matches from LC/MS data. For all tabs, WTG = WT strain grown in 1 g/L glucose (glucose), 40G = evol40 grown in glucose, WTLP = WT strain grown in 0.75 g/L phenol (low phenol), 40LP = evol40 strain grown in low phenol, 40HP = evol40 strain grown in 1.5 g/L phenol (high phenol), and SD = standard deviation. Lipid species are abbreviated using their carbon number (C) and double bond number (DB), where the carbon number is the number of acyl carbons and the double bond number is the number of double bonds and cyclopropane units on acyl chains. Tab 1. TAG library. Library of triacylglycerol (TAG) species based on MSn data. Lipid species in the library that were observed in MSn analysis (Observed MSn column) are indicated using “x” (see Table 3). Tab 2. TAG data. Normalized TAG species ion counts from LC/MS data. Species amounts in each replicate (rep) are normalized by dividing the total ion counts of individual species by the total ion counts of all detected TAG species in the sample. Tab 3. PL library. Library of phospholipid (PL) species based on MSn data. Lipid species in the library that were observed in MSn analysis (Observed MSn column) are indicated using “x” (see Table 1). Tab 4. PL data. Normalized PL species ion counts from LC/MS data. Species amounts in each replicate (rep) are normalized by dividing the total ion counts of individual species by the total ion counts of all detected phosphatidylinositol (PI) or phosphatidylethanolamine (PE) species in the sample. Tab 5. MA library. Library of mycolic acid (MA) species based on MSn data. Lipid species in the library that were observed in MSn analysis (Observed MSn column) are indicated using “x” (see Table 2). Tab 6. MA data. Normalized MA species ion counts from LC/MS data. Species amounts in each replicate (rep) are normalized by dividing the total ion counts of individual species by the total ion counts of all detected MA species in the sample. Tab 7. Statistical tests. P values for statistical tests comparing C number and DB number for each lipid class between strains or growth conditions. Statistical significance was determined using a one mean, two-tailed Student’s t test with a threshold of significance of P
DOI: 10.6084/m9.figshare.7531094
title: Additional file 2: of BE-FLARE: a fluorescent reporter of base editing activity reveals editing characteristics of APOBEC3A and APOBEC3B

description: Raw data relating to Figs. 1, 2, 3, 4 and 5, Figure S2, S3, S4 and S5. (XLSX 34 kb)
DOI: 10.6084/m9.figshare.7531091.v1
title: MOESM2 of Lipid metabolism of phenol-tolerant Rhodococcus opacus strains for lignin bioconversion

description: Additional file 2: Table S1. Excel file containing the lipid library and lipid library matches from LC/MS data. For all tabs, WTG = WT strain grown in 1 g/L glucose (glucose), 40G = evol40 grown in glucose, WTLP = WT strain grown in 0.75 g/L phenol (low phenol), 40LP = evol40 strain grown in low phenol, 40HP = evol40 strain grown in 1.5 g/L phenol (high phenol), and SD = standard deviation. Lipid species are abbreviated using their carbon number (C) and double bond number (DB), where the carbon number is the number of acyl carbons and the double bond number is the number of double bonds and cyclopropane units on acyl chains. Tab 1. TAG library. Library of triacylglycerol (TAG) species based on MSn data. Lipid species in the library that were observed in MSn analysis (Observed MSn column) are indicated using “x” (see Table 3). Tab 2. TAG data. Normalized TAG species ion counts from LC/MS data. Species amounts in each replicate (rep) are normalized by dividing the total ion counts of individual species by the total ion counts of all detected TAG species in the sample. Tab 3. PL library. Library of phospholipid (PL) species based on MSn data. Lipid species in the library that were observed in MSn analysis (Observed MSn column) are indicated using “x” (see Table 1). Tab 4. PL data. Normalized PL species ion counts from LC/MS data. Species amounts in each replicate (rep) are normalized by dividing the total ion counts of individual species by the total ion counts of all detected phosphatidylinositol (PI) or phosphatidylethanolamine (PE) species in the sample. Tab 5. MA library. Library of mycolic acid (MA) species based on MSn data. Lipid species in the library that were observed in MSn analysis (Observed MSn column) are indicated using “x” (see Table 2). Tab 6. MA data. Normalized MA species ion counts from LC/MS data. Species amounts in each replicate (rep) are normalized by dividing the total ion counts of individual species by the total ion counts of all detected MA species in the sample. Tab 7. Statistical tests. P values for statistical tests comparing C number and DB number for each lipid class between strains or growth conditions. Statistical significance was determined using a one mean, two-tailed Student’s t test with a threshold of significance of P
DOI: 10.6084/m9.figshare.7531094.v1
title: Additional file 2: of BE-FLARE: a fluorescent reporter of base editing activity reveals editing characteristics of APOBEC3A and APOBEC3B

description: Raw data relating to Figs. 1, 2, 3, 4 and 5, Figure S2, S3, S4 and S5. (XLSX 34 kb)
DOI: 10.7284/101454
title: Multibeam Echosounder data collected during research cruise KM0907 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101595
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise KM0908 using a Hawaii UHDAS instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101728
title: INS (Inertial Navigation System) data collected during research cruise KM0908 using a Applanix POS/MV-320 V4 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101455
title: Multibeam Echosounder data collected during research cruise KM0908 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101596
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise KM0909 using a Hawaii UHDAS instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101729
title: INS (Inertial Navigation System) data collected during research cruise KM0909 using a Applanix POS/MV-320 V4 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101456
title: Multibeam Echosounder data collected during research cruise KM0909 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/101597
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise KM0910 using a Hawaii UHDAS instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7531013
title: antithetic-vae-datasets

description: https://github.com/mhw32/antithetic-vae-public
DOI: 10.6084/m9.figshare.7531010
title: Flamulina velutipes seven strains Genomes

description: Genomes of Flammulina velutipes strains NJ6-3, NJ, 6-21, Fv25-1, Fv25-3, L22, Fv34-1, Fv34-18 of
DOI: 10.7284/103547
title: Gravimeter data collected during research cruise KM0910 using a L&R S-33 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7531010.v1
title: Flamulina velutipes seven strains Genomes

description: Genomes of Flammulina velutipes strains NJ6-3, NJ, 6-21, Fv25-1, Fv25-3, L22, Fv34-1, Fv34-18 of
DOI: 10.7284/101717
title: INS (Inertial Navigation System) data collected during research cruise KM0910 using a Applanix POS/MV-320 V4 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7530872
title: Annotations of lncRNA and protein coding genes

description: Annotations of lncRNA and protein coding genes
DOI: 10.6084/m9.figshare.7530875
title: The information of lncRNA overlap with protein coding genes

description: The information of lncRNA overlap with protein coding genes
DOI: 10.7284/101457
title: Multibeam Echosounder data collected during research cruise KM0910 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7530863
title: The information of lncRNAs and mRNAs

description: The information of lncRNAs and mRNAs
DOI: 10.6084/m9.figshare.7530872.v1
title: Annotations of lncRNA and protein coding genes

description: Annotations of lncRNA and protein coding genes
DOI: 10.6084/m9.figshare.7530875.v1
title: The information of lncRNA overlap with protein coding genes

description: The information of lncRNA overlap with protein coding genes
DOI: 10.7284/101598
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise KM0911 using a Hawaii UHDAS instrument system onboard the platform RV Kilo Moana

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7530863.v1
title: The information of lncRNAs and mRNAs

description: The information of lncRNAs and mRNAs
DOI: 10.6084/m9.figshare.7530851
title: Co-expression in subiculum brain region

description: This co-expression data set is computed over samples related to subiculum brain region using data sets from Allen Human Brain Atlas H0351.2001, H0351.2002, H0351.1009, H0351.1012, H0351.1015, H0351.1016.It is a part of HEterogeneous Network-based data set for Alzheimer's disease (HENA) that brings together Alzheimer's disease related data from well known public collections, as well as novel data sets generated by the members of AgedBrainSYSBIO consortium.