cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.10310774
title: predicted transcript sequences of Folsomia candida

description: predicted transcript sequences of Folsomia candida
DOI: 10.6084/m9.figshare.10310762
title: Augustus gene training set for Folsomia candida

description: Augustus gene training set for Folsomia candida
DOI: 10.6084/m9.figshare.10310765
title: maker annotations for Folsomia candida

description: maker annotations for Folsomia candida
DOI: 10.6084/m9.figshare.10310765.v1
title: maker annotations for Folsomia candida

description: maker annotations for Folsomia candida
DOI: 10.6084/m9.figshare.10310759
title: repeat annotations of Folsomia candida

description: repeat annotations of Folsomia candida
DOI: 10.6084/m9.figshare.10310762.v1
title: Augustus gene training set for Folsomia candida

description: Augustus gene training set for Folsomia candida
DOI: 10.6084/m9.figshare.10310756
title: genome-guided transcriptome assembly

description: genome-guided transcriptome assembly
DOI: 10.6084/m9.figshare.10310753
title: Gzipped genome assembly of Folsomia candida

description: Gzipped genome assembly (fasta)
DOI: 10.6084/m9.figshare.10310732
title: README for Folsomia candida.txt

description: List of assemblies and annotations for Folsomia candida deposited in Figshare
DOI: 10.6084/m9.figshare.10310732.v1
title: README for Folsomia candida.txt

description: List of assemblies and annotations for Folsomia candida deposited in Figshare
DOI: 10.6084/m9.figshare.10310756.v1
title: genome-guided transcriptome assembly

description: genome-guided transcriptome assembly
DOI: 10.6084/m9.figshare.10310753.v1
title: Gzipped genome assembly of Folsomia candida

description: Gzipped genome assembly (fasta)
DOI: 10.6084/m9.figshare.10310696
title: Animal Body Weight of Rabbit

description: The data of animal body weight changes among 4 groups tested
DOI: 10.6084/m9.figshare.10310699
title: THE EFFECTS OF DIFFERENT LITTER MATERIAL ON BROILER PERFORMANCE AND FEET HEALTH

description: ABSTRACT: The study was implemented at the National University of Lesotho with the aim to find a potential litter material for use in broiler production. The study followed a completely randomized design with four litter treatments replicated three times. A well ventilated house divided into 12 pans was used where each pan or a replicate contain 15 birds with a total of (n=180) birds. Feeding and watering were done on ad libitum basis while the normal routine for broiler production was followed. Litter treatments were made up of control represented by wood shaving and it was compared to dried pine leaves, decomposed kraal manure and sand. All litter materials were applied at the depth of 10 cm. Data was collected on the following parameters broiler production, feet health and chemical and physical properties. Litter material treatment had no significant influence on feed intake, body weight, body weight gain, and feed conversion ratio and mortality rate. Regarding broiler feet health litter treatment had significant influence on foot pad dermatitis while hock burns and broiler temperature were not statistically different amongst litter treatments. Litter evaluation results revealed that different litter sources were differing significantly in terms ammonia emissions, water holding capacity. pH and bulk density while litter temperature did not differ significantly between litter treatments. .....<br>
DOI: 10.6084/m9.figshare.10310699.v2
title: THE EFFECTS OF DIFFERENT LITTER MATERIAL ON BROILER PERFORMANCE AND FEET HEALTH

description: ABSTRACT: The study was implemented at the National University of Lesotho with the aim to find a potential litter material for use in broiler production. The study followed a completely randomized design with four litter treatments replicated three times. A well ventilated house divided into 12 pans was used where each pan or a replicate contain 15 birds with a total of (n=180) birds. Feeding and watering were done on ad libitum basis while the normal routine for broiler production was followed. Litter treatments were made up of control represented by wood shaving and it was compared to dried pine leaves, decomposed kraal manure and sand. All litter materials were applied at the depth of 10 cm. Data was collected on the following parameters broiler production, feet health and chemical and physical properties. Litter material treatment had no significant influence on feed intake, body weight, body weight gain, and feed conversion ratio and mortality rate. Regarding broiler feet health litter treatment had significant influence on foot pad dermatitis while hock burns and broiler temperature were not statistically different amongst litter treatments. Litter evaluation results revealed that different litter sources were differing significantly in terms ammonia emissions, water holding capacity. pH and bulk density while litter temperature did not differ significantly between litter treatments. .....<br>
DOI: 10.6084/m9.figshare.10310696.v1
title: Animal Body Volume of Rabbit

description: The data of animal body changes among 4 groups tested
DOI: 10.6084/m9.figshare.10310492
title: Comparative genomics reveal the convergent evolution of subterranean mammals

description: Table S1 show the BUSCO and GenBank accession numbers of the genomes of the 18 species. Table S2 show the groups of PAML test. Table S3-S7 contain the lists of positive selected genes of all PAML test. Table S8-S11 contain the expanded gene families of 4 subterrenean mammals branches. Table S12-S15 contain the GO- and KEGG-enriched terms of positive selected genes of all PAML test.
DOI: 10.6084/m9.figshare.10310696.v2
title: Animal Body Weight of Rabbit

description: The data of animal body weight changes among 4 groups tested
DOI: 10.6084/m9.figshare.10310492.v1
title: Comparative genomics reveal the convergent evolution of subterranean mammals

description: The two .gff files and two .fna files are the annotation<i> of Ellobius talpinus </i>and <i>Ellobius lutescens in </i>protein and gff files<i>.</i>Table S1 show the BUSCO and GenBank accession numbers of the genomes of the 25 species.Table S2-S4 contains the lists of positive selected genes of each subterrenean mammals’ branch. Table S5-S8 contains the lists of expaned gene families in each subterrenean mammal species. Table S9-S14 contains the GO and KEGG enrichment of each subterrenean mammals’ branch. Table S15-S20 contains the lists of genes involved in hypoxia, cancer, circadian, visual and auditory. Table S21 contains the GO- and KEGG-enriched terms associated with olfaction in the expanded gene families in each subterranean mammal.<i></i>
DOI: 10.6084/m9.figshare.10310492.v3
title: Comparative genomics reveal the convergent evolution of subterranean mammals

description: Table S1 show the BUSCO and GenBank accession numbers of the genomes of the 18 species. Table S2 show the groups of PAML test. Table S3-S7 contain the lists of positive selected genes of all PAML test. Table S8-S11 contain the expanded gene families of 4 subterrenean mammals branches. Table S12-S15 contain the GO- and KEGG-enriched terms of positive selected genes of all PAML test.
DOI: 10.6084/m9.figshare.10310423
title: MOESM8 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 8: Table S8. DE genes in chronic infection. Log2 values of the fold change for differentially expressed genes. Values were calculated with DESeq2. Values are only shown if there was &gt; 2-fold change between samples with q-value
DOI: 10.6084/m9.figshare.10310492.v2
title: Comparative genomics reveal the convergent evolution of subterranean mammals

description: Table S1 show the BUSCO and GenBank accession numbers of the genomes of the 18 species. Table S2 show the groups of PAML test. Table S3-S7 contain the lists of positive selected genes of all PAML test. Table S8-S11 contain the expanded gene families of 4 subterrenean mammals branches. Table S12-S15 contain the GO- and KEGG-enriched terms of positive selected genes of all PAML test.
DOI: 10.6084/m9.figshare.10310414
title: MOESM7 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 7: Table S7. Log2 values of the fold change for differentially expressed isoforms. Values were calculated with DESeq2. Values are only shown if there was &gt; 2-fold change between samples with q-value
DOI: 10.6084/m9.figshare.10310408
title: MOESM6 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 6: Table S6. Enriched GO terms. GO terms significantly enriched among the highest expressed genes, chronically differentially expressed genes, and the groups of differently expressed genes among the proteins identified.
DOI: 10.6084/m9.figshare.10310423.v1
title: MOESM8 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 8: Table S8. DE genes in chronic infection. Log2 values of the fold change for differentially expressed genes. Values were calculated with DESeq2. Values are only shown if there was &gt; 2-fold change between samples with q-value
DOI: 10.6084/m9.figshare.10310414.v1
title: MOESM7 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 7: Table S7. Log2 values of the fold change for differentially expressed isoforms. Values were calculated with DESeq2. Values are only shown if there was &gt; 2-fold change between samples with q-value
DOI: 10.6084/m9.figshare.10310402
title: MOESM4 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 4: Table S4. Normalized sequencing read values for the T. gondii isoforms. TPM values calculated by RSEM for individual isoforms after aligning reads to the transcripts identified by StringTie. TZ, tissue culture tachyzoites; WholeBrain, data from whole tissue sequencing from either acute or chronically infected brain tissue; BZ, enriched in vivo bradyzoites.
DOI: 10.6084/m9.figshare.10310408.v1
title: MOESM6 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 6: Table S6. Enriched GO terms. GO terms significantly enriched among the highest expressed genes, chronically differentially expressed genes, and the groups of differently expressed genes among the proteins identified.
DOI: 10.6084/m9.figshare.10310402.v1
title: MOESM4 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 4: Table S4. Normalized sequencing read values for the T. gondii isoforms. TPM values calculated by RSEM for individual isoforms after aligning reads to the transcripts identified by StringTie. TZ, tissue culture tachyzoites; WholeBrain, data from whole tissue sequencing from either acute or chronically infected brain tissue; BZ, enriched in vivo bradyzoites.
DOI: 10.6084/m9.figshare.10310405
title: MOESM5 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 5: Table S5. Normalized sequencing read values for the sum of all T. gondii gene isoforms. TPM values calculated by RSEM for each gene after aligning reads to the transcripts identified by StringTie. TZ, tissue culture tachyzoites; WholeBrain, data from whole tissue sequencing from either acute or chronically infected brain tissue; BZ, enriched in vivo bradyzoites.
DOI: 10.6084/m9.figshare.10310396
title: MOESM3 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 3: Table S3. Proteins common between all bradyzoite samples. Data shows each protein with the protein spectral count for the six samples chosen for analysis.
DOI: 10.6084/m9.figshare.10310405.v1
title: MOESM5 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 5: Table S5. Normalized sequencing read values for the sum of all T. gondii gene isoforms. TPM values calculated by RSEM for each gene after aligning reads to the transcripts identified by StringTie. TZ, tissue culture tachyzoites; WholeBrain, data from whole tissue sequencing from either acute or chronically infected brain tissue; BZ, enriched in vivo bradyzoites.
DOI: 10.6084/m9.figshare.10310396.v1
title: MOESM3 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 3: Table S3. Proteins common between all bradyzoite samples. Data shows each protein with the protein spectral count for the six samples chosen for analysis.
DOI: 10.6084/m9.figshare.10310381
title: MOESM1 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 1: Table S1. Unique peptides identified from bradyzoites. Data shows either T. gondii or mouse peptides identified in each sample with their spectral count value. The pooled sample represents peptides identified when protein from all samples is mixed before processing for LC-MS/MS.
DOI: 10.6084/m9.figshare.10310390
title: MOESM2 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 2: Table S2. Unique proteins to which the identified peptides map to. Data shows proteins that were mapped to either T. gondii or mouse in each sample with their total spectral count value.
DOI: 10.6084/m9.figshare.10310381.v1
title: MOESM1 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 1: Table S1. Unique peptides identified from bradyzoites. Data shows either T. gondii or mouse peptides identified in each sample with their spectral count value. The pooled sample represents peptides identified when protein from all samples is mixed before processing for LC-MS/MS.
DOI: 10.6084/m9.figshare.10310390.v1
title: MOESM2 of Proteomic and transcriptomic analyses of early and late-chronic Toxoplasma gondii infection shows novel and stage specific transcripts

description: Additional file 2: Table S2. Unique proteins to which the identified peptides map to. Data shows proteins that were mapped to either T. gondii or mouse in each sample with their total spectral count value.
DOI: 10.6084/m9.figshare.10310357
title: MOESM8 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 8. cps types and sequence types (STs) of four S. suis clinical isolates from cattle used in this study. Information on cps types and allele types determined by MLST of the 4 S. suis clinical isolates from cattle.
DOI: 10.6084/m9.figshare.10310363
title: MOESM9 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 9. Presence/absence of genes of each COG among 21 S. ruminantium strains. All of the pangenome data of the 21 S. ruminantium strains analysed by Roary.
DOI: 10.6084/m9.figshare.10310357.v1
title: MOESM8 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 8. cps types and sequence types (STs) of four S. suis clinical isolates from cattle used in this study. Information on cps types and allele types determined by MLST of the 4 S. suis clinical isolates from cattle.
DOI: 10.6084/m9.figshare.10310363.v1
title: MOESM9 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 9. Presence/absence of genes of each COG among 21 S. ruminantium strains. All of the pangenome data of the 21 S. ruminantium strains analysed by Roary.
DOI: 10.6084/m9.figshare.10310345
title: MOESM5 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 5. PCR primers for the typing of cps gene clusters in S. ruminantium. Information on the primer sequences, target genes, and product sizes under the developed cps-typing approach for S. ruminantium.
DOI: 10.6084/m9.figshare.10310342
title: MOESM4 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 4. Whole-genome-sequenced strains and general properties of the genomes. Information on the genome sequence assembly of the 20 S. ruminantium isolates.
DOI: 10.6084/m9.figshare.10310345.v1
title: MOESM5 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 5. PCR primers for the typing of cps gene clusters in S. ruminantium. Information on the primer sequences, target genes, and product sizes under the developed cps-typing approach for S. ruminantium.
DOI: 10.6084/m9.figshare.10310336
title: MOESM2 of Characteristics of relocated hypocenters of the 2018 M6.7 Hokkaido Eastern Iburi earthquake and its aftershocks with a three-dimensional seismic velocity structure

description: Additional file 2. Hypocenter parameters of relocated earthquakes of the main shock and its aftershocks.
DOI: 10.6084/m9.figshare.10310342.v1
title: MOESM4 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 4. Whole-genome-sequenced strains and general properties of the genomes. Information on the genome sequence assembly of the 20 S. ruminantium isolates.
DOI: 10.6084/m9.figshare.10310330
title: MOESM3 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 3. Streptococcus spp. strains tested by the S. ruminantium-specific PCR assay developed in this study. Detailed information on the Streptococcus strains used for checking the specificity of the developed S. ruminantium-specific PCR.
DOI: 10.6084/m9.figshare.10310327
title: MOESM1 of Characteristics of relocated hypocenters of the 2018 M6.7 Hokkaido Eastern Iburi earthquake and its aftershocks with a three-dimensional seismic velocity structure

description: Additional file 1. Seismic velocities structure used in this study.
DOI: 10.6084/m9.figshare.10310336.v1
title: MOESM2 of Characteristics of relocated hypocenters of the 2018 M6.7 Hokkaido Eastern Iburi earthquake and its aftershocks with a three-dimensional seismic velocity structure

description: Additional file 2. Hypocenter parameters of relocated earthquakes of the main shock and its aftershocks.
DOI: 10.6084/m9.figshare.10310330.v1
title: MOESM3 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 3. Streptococcus spp. strains tested by the S. ruminantium-specific PCR assay developed in this study. Detailed information on the Streptococcus strains used for checking the specificity of the developed S. ruminantium-specific PCR.
DOI: 10.6084/m9.figshare.10310315
title: MOESM1 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 1 gdh-PCR positive Streptococcus strains from ruminants in the collection of the National Institute of Animal Health. Detailed information on the 64 strains listed in TableÂ 1.
DOI: 10.6084/m9.figshare.10310327.v1
title: MOESM1 of Characteristics of relocated hypocenters of the 2018 M6.7 Hokkaido Eastern Iburi earthquake and its aftershocks with a three-dimensional seismic velocity structure

description: Additional file 1. Seismic velocities structure used in this study.
DOI: 10.6084/m9.figshare.10310321
title: MOESM2 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 2. PCR positive Streptococcus strains collected from the tonsils of 110 cattle in this study. Detailed information on the additional 55 strains from 110 cattle is listed in TableÂ 2.
DOI: 10.6084/m9.figshare.10310321.v1
title: MOESM2 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 2. PCR positive Streptococcus strains collected from the tonsils of 110 cattle in this study. Detailed information on the additional 55 strains from 110 cattle is listed in TableÂ 2.
DOI: 10.6084/m9.figshare.10310306
title: MOESM12 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 12. Presence/absence of the genes of each COG in the genomic islands carrying antibiotic resistance genes identified by CARD analysis with 20 S. ruminantium strains. Detailed information on the locations and genomic islands that included the antibiotic resistance genes identified by CARD.
DOI: 10.6084/m9.figshare.10310309
title: MOESM13 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 13. ICEs from the ICEberg database showing BLAST hits with the genomic islands carrying antibiotic resistance genes found in S. ruminantium isolates in this study. First, three ICE hits with the genomic islands that included the identified antibiotic resistance genes.
DOI: 10.6084/m9.figshare.10310315.v1
title: MOESM1 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 1 gdh-PCR positive Streptococcus strains from ruminants in the collection of the National Institute of Animal Health. Detailed information on the 64 strains listed in TableÂ 1.
DOI: 10.6084/m9.figshare.10310300
title: MOESM11 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 11. MICs of tetracycline, erythromycin, chloramphenicol, kanamycin and streptomycin in 14 S. ruminantium strains. MIC data of the 14 S. ruminantium isolates that carried antibiotic resistance genes.
DOI: 10.6084/m9.figshare.10310306.v1
title: MOESM12 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 12. Presence/absence of the genes of each COG in the genomic islands carrying antibiotic resistance genes identified by CARD analysis with 20 S. ruminantium strains. Detailed information on the locations and genomic islands that included the antibiotic resistance genes identified by CARD.
DOI: 10.6084/m9.figshare.10310309.v1
title: MOESM13 of Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants

description: Additional file 13. ICEs from the ICEberg database showing BLAST hits with the genomic islands carrying antibiotic resistance genes found in S. ruminantium isolates in this study. First, three ICE hits with the genomic islands that included the identified antibiotic resistance genes.