cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6147431
title: Additional file 8: of Transcriptome profiling of Brassica napus stem sections in relation to differences in lignin content

description: Table S4B. Differential expression of DH4 vs YN4 greater than 2 (microarray). (XLSX 718Â kb)
DOI: 10.6084/m9.figshare.6147431.v1
title: Additional file 8: of Transcriptome profiling of Brassica napus stem sections in relation to differences in lignin content

description: Table S4B. Differential expression of DH4 vs YN4 greater than 2 (microarray). (XLSX 718Â kb)
DOI: 10.6084/m9.figshare.6147437
title: Additional file 7: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants

description: Details of sequenced cDNAâ s generated. Fasta formatted sequences of 812 bidirectionally sequenced expressed sequence tag clones from A. chinensis var. chinensis used in evaluating manually annotated gene models of Red5. (FASTA 1204Â kb)
DOI: 10.6084/m9.figshare.6147437.v1
title: Additional file 7: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants

description: Details of sequenced cDNAâ s generated. Fasta formatted sequences of 812 bidirectionally sequenced expressed sequence tag clones from A. chinensis var. chinensis used in evaluating manually annotated gene models of Red5. (FASTA 1204Â kb)
DOI: 10.6084/m9.figshare.6147449
title: Additional file 9: of Transcriptome profiling of Brassica napus stem sections in relation to differences in lignin content

description: Table S5A. Differential expression of DH2 vs YN2 less than point 5 (microarray). (XLSX 567Â kb)
DOI: 10.6084/m9.figshare.6147449.v1
title: Additional file 9: of Transcriptome profiling of Brassica napus stem sections in relation to differences in lignin content

description: Table S5A. Differential expression of DH2 vs YN2 less than point 5 (microarray). (XLSX 567Â kb)
DOI: 10.6084/m9.figshare.6147461
title: Additional file 8: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants

description: Sequenced cDNAâ s used to verify the gene models.Fasta formatted predicted protein sequences of 550 bidirectionally sequenced expressed sequence tag clones from A. chinensis var. chinensis used in evaluating manually annotated gene models of Red5. (FASTA 220Â kb)
DOI: 10.6084/m9.figshare.6147461.v1
title: Additional file 8: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants

description: Sequenced cDNAâ s used to verify the gene models.Fasta formatted predicted protein sequences of 550 bidirectionally sequenced expressed sequence tag clones from A. chinensis var. chinensis used in evaluating manually annotated gene models of Red5. (FASTA 220Â kb)
DOI: 10.6084/m9.figshare.6147485
title: Additional file 9: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants

description: Selected gene models used for phylogeny.Table of EXPANSIN genes and ACS genes identified in this study (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.6147485.v1
title: Additional file 9: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants

description: Selected gene models used for phylogeny.Table of EXPANSIN genes and ACS genes identified in this study (XLSX 19Â kb)
DOI: 10.58032/agh/p2pkcw
title: Synthesis and Properties of the Gallium-Containing Ruddlesden-Popper Oxides with High-Entropy B-Site Arrangement - research data

description: For the first time, the possibility of obtaining B-site disordered, Ruddlesden–Popper type, high-entropy oxides has been proven, using as an example the LnSr(Co,Fe,Ga,Mn,Ni)O4 series (Ln = La, Pr, Nd, Sm, or Gd). The materials were synthesized using the Pechini method, followed by sintering at a temperature of 1200C. The XRD analysis indicated the single-phase, I4/mmm structure of the Pr-, Nd-, and Sm-based materials, with a minor content of secondary phase precipitates in La- and Gd-based materials. The SEM + EDX analysis confirms the homogeneity of the studied samples. Based on the oxygen non-stoichiometry measurements, the general formula of LnSr(Co,Fe,Ga,Mn,Ni)O4+d, is established, with the content of oxygen interstitials being surprisingly similar across the series. The temperature dependence of the total conductivity is similar for all materials, with the highest conductivity value of 4.28 S/cm being reported for the Sm-based composition. The thermal expansion coefficient is, again, almost identical across the series, with the values varying between 14.6 and 15.2 x 10^-6 K-1. The temperature stability of the selected materials is verified using the in situ high-temperature XRD. The results indicate a smaller impact of the lanthanide cation type on the properties than has typically been reported for conventional Ruddlesden–Popper type oxides, which may result from the high-entropy arrangement of the B-site cations.
DOI: 10.22032/dbt.59813
title: Codebook for the analysis of frames on climate change in media content and press releases in Indonesia
DOI: 10.6084/m9.figshare.6147923
title: Additional file 1 of The biochemical composition and transcriptome of cotyledons from Brassica napus lines expressing the AtGL3 transcription factor and exhibiting reduced flea beetle feeding

description: Table S1. MAPMAN functional categories of up-regulated genes. Organization of up-regulated genes from AtGL3+ and K-5-8 cotyledons compared to B. napus cv. Westar into 36 functional categories (BINS) according to MAPMAN [24]. (XLS 3406 kb)
DOI: 10.6084/m9.figshare.6147923.v1
title: Additional file 1 of The biochemical composition and transcriptome of cotyledons from Brassica napus lines expressing the AtGL3 transcription factor and exhibiting reduced flea beetle feeding

description: Table S1. MAPMAN functional categories of up-regulated genes. Organization of up-regulated genes from AtGL3+ and K-5-8 cotyledons compared to B. napus cv. Westar into 36 functional categories (BINS) according to MAPMAN [24]. (XLS 3406 kb)
DOI: 10.6084/m9.figshare.6151295
title: Facile Preparation and Characterization of Nanostructured BiOI microspheres with certain adsorption-photocatalytic properties

description: A novel adsorbent based nanostructured bismuth oxyiodide (BiOI) microspheres combining the highly effective adsorption and green photocatalytic regeneration were fabricated by a facile and rapid low-temperature chemical bath method. The resultant products were characterized by X-ray diffraction (XRD), Scanning electron microscopy (SEM), energy dispersive spectroscopy (EDS), Nitrogen adsorption-desorption measurements, and UV-Vis diffuse reflectance spectroscopy (DRS). The BiOI microspheres displayed remarkable performance towards removal of Rhodamine B (RhB) and Cr (VI) from aqueous solution, showing a maximum adsorption capacity reached up to 40.78 mg g-1 and 38.01 mg g-1, respectively. The kinetics and equilibrium of adsorption process were found to follow the pseudo-second-order kinetic and Langmuir isotherm models. Notably, the BiOI microspheres have excellent photocatalytic regeneration capability due to their intrinsically prominent photoresponse in visible light region. By meaning of providing a new insight into the design of new generation adsorbent that could combine adsorption and solar-driven photocatalysis, the synthesized BiOI microspheres are very promising for the large-scale industrial application for water treatment.
DOI: 10.6084/m9.figshare.6151295.v1
title: Facile Preparation and Characterization of Nanostructured BiOI microspheres with certain adsorption-photocatalytic properties

description: A novel adsorbent based nanostructured bismuth oxyiodide (BiOI) microspheres combining the highly effective adsorption and green photocatalytic regeneration were fabricated by a facile and rapid low-temperature chemical bath method. The resultant products were characterized by X-ray diffraction (XRD), Scanning electron microscopy (SEM), energy dispersive spectroscopy (EDS), Nitrogen adsorption-desorption measurements, and UV-Vis diffuse reflectance spectroscopy (DRS). The BiOI microspheres displayed remarkable performance towards removal of Rhodamine B (RhB) and Cr (VI) from aqueous solution, showing a maximum adsorption capacity reached up to 40.78 mg g-1 and 38.01 mg g-1, respectively. The kinetics and equilibrium of adsorption process were found to follow the pseudo-second-order kinetic and Langmuir isotherm models. Notably, the BiOI microspheres have excellent photocatalytic regeneration capability due to their intrinsically prominent photoresponse in visible light region. By meaning of providing a new insight into the design of new generation adsorbent that could combine adsorption and solar-driven photocatalysis, the synthesized BiOI microspheres are very promising for the large-scale industrial application for water treatment.
DOI: 10.6084/m9.figshare.6151415
title: Effect of varying hypoxia reoxygenation times on autophagy of cardiomyocytes

description: Abstract Purpose: To investigate the impact of different hypoxia reoxygenation (HR) times on autophagy of rat cardiomyocytes (H9C2). Methods: Rat cardiomyocytes were randomly divided into normal control group (group A), hypoxia group (group B), 2 h HR group (group C), 12 h HR group (group D), and 24 h HR group (group E). LC3 II/LC3 I was determined via western blotting, and cell viabilities of cardiomyocytes were measured using methyl thiazolyl tetrazolium (MTT) assay. Results: Cell viabilities in HR model groups were significantly lower than those of group A (P&lt;0.05). LC3 II/LC3 I levels in groups B to D were significantly higher than those of group A (P&lt;0.05), and group D showed the highest LC3 II/LC3 I levels. Cell viabilities in groups B to D were significantly lower than those of group A (P&lt;0.05), with group D showing the lowest cell viabilities (P&lt;0.05). Conclusions: Hypoxia can induce autophagy in rat cardiomyocytes, which can be further activated by reoxygenation; most notable after 12 h. Hypoxia-induced cell injury can be aggravated by reoxygenation. The lowest cell viability was observed at 12 h after reoxygenation; however, cell viability can be recovered after 24 h.
DOI: 10.6084/m9.figshare.6151415.v1
title: Effect of varying hypoxia reoxygenation times on autophagy of cardiomyocytes

description: Abstract Purpose: To investigate the impact of different hypoxia reoxygenation (HR) times on autophagy of rat cardiomyocytes (H9C2). Methods: Rat cardiomyocytes were randomly divided into normal control group (group A), hypoxia group (group B), 2 h HR group (group C), 12 h HR group (group D), and 24 h HR group (group E). LC3 II/LC3 I was determined via western blotting, and cell viabilities of cardiomyocytes were measured using methyl thiazolyl tetrazolium (MTT) assay. Results: Cell viabilities in HR model groups were significantly lower than those of group A (P&lt;0.05). LC3 II/LC3 I levels in groups B to D were significantly higher than those of group A (P&lt;0.05), and group D showed the highest LC3 II/LC3 I levels. Cell viabilities in groups B to D were significantly lower than those of group A (P&lt;0.05), with group D showing the lowest cell viabilities (P&lt;0.05). Conclusions: Hypoxia can induce autophagy in rat cardiomyocytes, which can be further activated by reoxygenation; most notable after 12 h. Hypoxia-induced cell injury can be aggravated by reoxygenation. The lowest cell viability was observed at 12 h after reoxygenation; however, cell viability can be recovered after 24 h.
DOI: 10.6084/m9.figshare.6151604
title: Characterization and expression of the ABC family (G group) in ‘Dangshansuli’ pear (Pyrus bretschneideri Rehd.) and its russet mutant

description: Abstract The plant genes encoding ABCGs that have been identified to date play a role in suberin formation in response to abiotic and biotic stress. In the present study, 80 ABCG genes were identified in ‘Dangshansuli’ Chinese white pear and designated as PbABCGs. Based on the structural characteristics and phylogenetic analysis, the PbABCG family genes could be classified into seven main groups: classes A-G. Segmental and dispersed duplications were the primary forces underlying the PbABCG gene family expansion in ‘Dangshansuli’ pear. Most of the PbABCG duplicated gene pairs date to the recent whole-genome duplication that occurred 30~45 million years ago. Purifying selection has also played a critical role in the evolution of the ABCG genes. Ten PbABCG genes screened in the transcriptome of ‘Dangshansuli’ pear and its russet mutant ‘Xiusu’ were validated, and the expression levels of the PbABCG genes exhibited significant differences at different stages. The results presented here will undoubtedly be useful for better understanding of the complexity of the PbABCG gene family and will facilitate the functional characterization of suberin formation in the russet mutant.
DOI: 10.6084/m9.figshare.6151604.v1
title: Characterization and expression of the ABC family (G group) in ‘Dangshansuli’ pear (Pyrus bretschneideri Rehd.) and its russet mutant

description: Abstract The plant genes encoding ABCGs that have been identified to date play a role in suberin formation in response to abiotic and biotic stress. In the present study, 80 ABCG genes were identified in ‘Dangshansuli’ Chinese white pear and designated as PbABCGs. Based on the structural characteristics and phylogenetic analysis, the PbABCG family genes could be classified into seven main groups: classes A-G. Segmental and dispersed duplications were the primary forces underlying the PbABCG gene family expansion in ‘Dangshansuli’ pear. Most of the PbABCG duplicated gene pairs date to the recent whole-genome duplication that occurred 30~45 million years ago. Purifying selection has also played a critical role in the evolution of the ABCG genes. Ten PbABCG genes screened in the transcriptome of ‘Dangshansuli’ pear and its russet mutant ‘Xiusu’ were validated, and the expression levels of the PbABCG genes exhibited significant differences at different stages. The results presented here will undoubtedly be useful for better understanding of the complexity of the PbABCG gene family and will facilitate the functional characterization of suberin formation in the russet mutant.
DOI: 10.6084/m9.figshare.6151742
title: Data File 1.csv

description: This Data File 1 contains two Tables of structure parameters of the optimized GC4
DOI: 10.6084/m9.figshare.6151742.v1
title: Data File 1.csv

description: This Data File 1 contains two Tables of structure parameters of the optimized GC4
DOI: 10.6084/m9.figshare.6151769
title: Population structure of Chinese southwest wheat germplasms resistant to stripe rust and powdery mildew using the DArT-seq technique

description: ABSTRACT: Understanding genetic variability in existing wheat accessions is critical for collection, conservation and use of wheat germplasms. In this study, 138 Chinese southwest wheat accessions were investigated by genotyping using two resistance gene makers (Pm21 and Yr26) and DArT-seq technique. Finally, about 50% cultivars (lines) amplified the specific allele for the Yr26 gene (Gwm11) and 40.6% for the Pm21 gene (SCAR1265). By DArT-seq analysis, 30,485 markers (6486 SNPs and 23999 DArTs) were obtained with mean polymorphic information content (PIC) value 0.33 and 0.28 for DArT and SNP marker, respectively. The mean Dice genetic similarity coefficient (GS) was 0.72. Two consistent groups of wheat varieties were identified using principal coordinate analysis (PCoA) at the level of both the chromosome 6AS and the whole-genome, respectively. Group I was composed of non-6VS/6AL translocation lines of different origins, while Group II was composed of 6VS/6AL translocation (T6VS/6AL) lines, most of which carried the Yr26 and Pm21 genes and originated from Guizhou. Besides, a model-based population structure analysis revealed extensive admixture and further divided these wheat accessions into six subgroups (SG1, SG2, SG3, SG4, SG5 and SG6), based on their origin, pedigree or disease resistance. This information is useful for wheat breeding in southwestern China and association mapping for disease resistance using these wheat germplasms in future.
DOI: 10.6084/m9.figshare.6151769.v1
title: Population structure of Chinese southwest wheat germplasms resistant to stripe rust and powdery mildew using the DArT-seq technique

description: ABSTRACT: Understanding genetic variability in existing wheat accessions is critical for collection, conservation and use of wheat germplasms. In this study, 138 Chinese southwest wheat accessions were investigated by genotyping using two resistance gene makers (Pm21 and Yr26) and DArT-seq technique. Finally, about 50% cultivars (lines) amplified the specific allele for the Yr26 gene (Gwm11) and 40.6% for the Pm21 gene (SCAR1265). By DArT-seq analysis, 30,485 markers (6486 SNPs and 23999 DArTs) were obtained with mean polymorphic information content (PIC) value 0.33 and 0.28 for DArT and SNP marker, respectively. The mean Dice genetic similarity coefficient (GS) was 0.72. Two consistent groups of wheat varieties were identified using principal coordinate analysis (PCoA) at the level of both the chromosome 6AS and the whole-genome, respectively. Group I was composed of non-6VS/6AL translocation lines of different origins, while Group II was composed of 6VS/6AL translocation (T6VS/6AL) lines, most of which carried the Yr26 and Pm21 genes and originated from Guizhou. Besides, a model-based population structure analysis revealed extensive admixture and further divided these wheat accessions into six subgroups (SG1, SG2, SG3, SG4, SG5 and SG6), based on their origin, pedigree or disease resistance. This information is useful for wheat breeding in southwestern China and association mapping for disease resistance using these wheat germplasms in future.
DOI: 10.6084/m9.figshare.6151793
title: Methylation in the promoter regions of WT1, NKX6-1 and DBC1 genes in cervical cancer tissues of Uygur women in Xinjiang

description: Abstract This study aimed to explore: 1) DNA methylation in the promoter regions of Wilms tumor gene 1 (WT1), NK6 transcription factor related locus 1 gene (NKX6-1) and Deleted in bladder cancer 1 (DBC1) gene in cervical cancer tissues of Uygur women in Xinjiang, and 2) the correlation of gene methylation with the infection of HPV16/18 viruses. We detected HPV16/18 infection in 43 normal cervical tissues, 30 cervical intraepithelial neoplasia lesions (CIN) and 48 cervical cancer tissues with polymerase chain reaction (PCR) method. Methylation in the promoter regions of the WT1, NKX6-1 and DBC1 genes in the above-mentioned tissues was measured by methylation-specific PCR (MSP) and cloning sequencing. The expression level of these three genes was measured by real-time PCR (qPCR) in 10 methylation-positive cervical cancer tissues and 10 methylation-negative normal cervical tissues. We found that the infection of HPV16 in normal cervical tissues, CIN and cervical cancer tissues was 14.0, 36.7 and 66.7%, respectively. The infection of HPV18 was 0, 6.7 and 10.4%, respectively. The methylation rates of WT1, NKX6-1 and DBC1 genes were 7.0, 11.6 and 23.3% in normal cervical tissues, 36.7, 46.7 and 30.0% in CIN tissues, and 89.6, 77.1 and 85.4% in cervical cancer tissues. Furthermore, WT1, NKX6-1 and DBC1 genes were hypermethylated in the high-grade squamous intraepithelial lesion (CIN2, CIN3) and in the cervical cancer tissues with infection of HPV16/18 (both P&lt; 0.05). The expression of WT1, NKX6-1 and DBC1 was significantly lower in the methylation-positive cervical cancer tissues than in methylation-negative normal cervical tissues. Our findings indicated that methylation in the promoter regions of WT1, NKX6-1 and DBC1 is correlated with cervical cancer tumorigenesis in Uygur women. The infection of HPV16/18 might be correlated with methylation in these genes. Gene inactivation caused by methylation might be related to the incidence and development of cervical cancer.
DOI: 10.6084/m9.figshare.6151793.v1
title: Methylation in the promoter regions of WT1, NKX6-1 and DBC1 genes in cervical cancer tissues of Uygur women in Xinjiang

description: Abstract This study aimed to explore: 1) DNA methylation in the promoter regions of Wilms tumor gene 1 (WT1), NK6 transcription factor related locus 1 gene (NKX6-1) and Deleted in bladder cancer 1 (DBC1) gene in cervical cancer tissues of Uygur women in Xinjiang, and 2) the correlation of gene methylation with the infection of HPV16/18 viruses. We detected HPV16/18 infection in 43 normal cervical tissues, 30 cervical intraepithelial neoplasia lesions (CIN) and 48 cervical cancer tissues with polymerase chain reaction (PCR) method. Methylation in the promoter regions of the WT1, NKX6-1 and DBC1 genes in the above-mentioned tissues was measured by methylation-specific PCR (MSP) and cloning sequencing. The expression level of these three genes was measured by real-time PCR (qPCR) in 10 methylation-positive cervical cancer tissues and 10 methylation-negative normal cervical tissues. We found that the infection of HPV16 in normal cervical tissues, CIN and cervical cancer tissues was 14.0, 36.7 and 66.7%, respectively. The infection of HPV18 was 0, 6.7 and 10.4%, respectively. The methylation rates of WT1, NKX6-1 and DBC1 genes were 7.0, 11.6 and 23.3% in normal cervical tissues, 36.7, 46.7 and 30.0% in CIN tissues, and 89.6, 77.1 and 85.4% in cervical cancer tissues. Furthermore, WT1, NKX6-1 and DBC1 genes were hypermethylated in the high-grade squamous intraepithelial lesion (CIN2, CIN3) and in the cervical cancer tissues with infection of HPV16/18 (both P&lt; 0.05). The expression of WT1, NKX6-1 and DBC1 was significantly lower in the methylation-positive cervical cancer tissues than in methylation-negative normal cervical tissues. Our findings indicated that methylation in the promoter regions of WT1, NKX6-1 and DBC1 is correlated with cervical cancer tumorigenesis in Uygur women. The infection of HPV16/18 might be correlated with methylation in these genes. Gene inactivation caused by methylation might be related to the incidence and development of cervical cancer.
DOI: 10.6084/m9.figshare.6151970
title: The role of oxymatrine in regulating TGF-β1 in rats with hepatic fibrosis

description: Abstract Purpose: To investigate whether oxymatrine (OMT) prevents hepatic fibrosis in rats by regulating liver transforming growth factor β1 (TGF-β1) level. Methods: Hepatic fibrosis was induced in rats by thioacetamide (TAA). Blood was collected at the end of week 12 to determine the levels of alanine aminotransferase (ALT), aspartate aminotransferase (AST), and glutathione (GSH). Changes in liver tissue were observed after hematoxylin-eosin (HE) staining. Results: Fibrosis was confirmed by Masson’s collagen staining. Liver TGF-β1 level was determined by ELISA. OMT significantly reduced serum ALT and AST but increased GSH levels in rats with hepatic fibrosis. Moreover, it significantly improved liver histology in rats with TAA-induced hepatic fibrosis. It significantly decreased liver TGF-β1 level compared to that in the untreated group. It also significantly reduced collagen deposition in rats. Conclusion: Oxymatrine is effective in protecting rats from thioacetamide-induced hepatic fibrosis by regulating TGF-β1 expression.