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opencc-by-4.0May 2023View details →

Extended X-ray absorption spectroscopy using an ultrashort pulse laboratory-scale laser-plasma accelerator

The data contained in this repository was used in the production of the publication "Extended X-ray absorption spectroscopy using an ultrashort pulse laboratory-scale laser-plasma accelerator"

opencc-by-4.0Jun 2023View details →

Optimization scripts used for "Bayesian optimization of laser-plasma accelerators assisted by reduced physical models"

This dataset contains the optimization scripts needed to reproduce the results from the article "Bayesian optimization of laser-plasma accelerators assisted by reduced physical models" by A. Ferran Pousa, S. Jalas, M. Kirchen, A. Martinez de la Ossa, M. Thévenet, J. Larson, S. Hudson, A. Huebl, J.-L. Vay, and R. Lehe.

opencc-by-4.0Jun 2023View details →

Adaptive Restraints to Accelerate Geometry Optimizations of Large Biomolecular Systems

Supplementary Dataset for above-titled manuscript.  Contains input files and representative final structures for tested GFP system, diaspartic acid system, and mNeonGreen system.

opencc-by-4.0Aug 2023View details →

Coherent nanophotonic electron accelerator - dataset

Dataset with electron spectra and related quantities shown in Figure 2 of Coherent Nanophotonic Electron Accelerator, Chlouba et al., Nature 2023.

opennotspecifiedJun 2022View details →

Fig. 7. 13C in MS/MS-based molecular networking accelerated discovery of germacrane-type sesquiterpene lactones from Elephantopus scaber L

Fig. 7. 13C NMR calculation results of compound 2, 2a, 2b. Linear correlation plots of calculated vs experimental 13C NMR chemical shift values.

Fig. 3 in Overexpression of DsEXLA2 gene from Dendrocalamus sinicus accelerates the plant growth rate of Arabidopsis

Fig. 3. Phylogenetic tree of expansin-like A genes from different plant species. Numbers such as 100, 99 and 97 represent the percentage bootstrap values. The accession numbers corresponding to expansin-like A proteins are as listed in Supplemental Table S2.

Fig. 8 in Overexpression of DsEXLA2 gene from Dendrocalamus sinicus accelerates the plant growth rate of Arabidopsis

Fig. 8. Effect of DsEXLA2 on cell wall thickness. A: Micrographs of stem vessel. B: Cellulose content. C. Cell wall thickness. Line 3, 9 and 10 represent the three independent transgenic lines selected. *p <0.05; **p <0.01 (Student's t-test). Bars represent ST. The scale represents 50 μm.

Fig. 7 in Overexpression of DsEXLA2 gene from Dendrocalamus sinicus accelerates the plant growth rate of Arabidopsis

Fig. 7. Changes of plant height at different growth stages. * represents the differences between the transgenic plants and Col-0 at the same growth stage at p ≤ 0.05 according to the Duncan test. Bars represent SE. Line 3, 9 and 10 represent the three independent transgenic lines selected.

Fig. 2 in Overexpression of DsEXLA2 gene from Dendrocalamus sinicus accelerates the plant growth rate of Arabidopsis

Fig. 2. Motif distribution in the EXLA2 of different plant species. A: Motifs investigated with the MEME web server. Different motifs are represented in different colors. B: Detailed information on each motif. (For interpretation of the references to color in this figure legend, the reader is referred to the Web version of this article.)

Fig. 1 in Overexpression of DsEXLA2 gene from Dendrocalamus sinicus accelerates the plant growth rate of Arabidopsis

Fig. 1. Sequence alignment of the EXLA2 from different plant species. Blue box indicates signal peptide. Red box indicates the CDRC motif. Asterisk indicates cysteine. Plus indicates tryptophan. (For interpretation of the references to color in this figure legend, the reader is referred to the Web version of this article.)

Fig. 10 in Overexpression of DsEXLA2 gene from Dendrocalamus sinicus accelerates the plant growth rate of Arabidopsis

Fig. 10. The expression patterns of 20 selected DEGs compared for RNA-seq and qRT-PCR. *p <0.05 based on Student's t-test. Bars represent SE; n = 3. EXLA2: Expansin-like A2; EXLA3: Expansin-like A3; EXLB1: Expansin-like B1; EXPB3: Expansin-B3; COBL8: COBRA-like protein 8; CSLD3: Cellulose synthase-like protein D3; CCR2: Cinnamoyl-CoA reductase 2; XTH11: Xyloglucan endotransglucosylase/hydrolase protein 11; RRTF1: Redox responsive transcription factor 1; LOG5: Lonely guy 5; CYP707A3: Cytochrome P450 707A3; GA2OX6: gibberellin 2-oxidase 6; WRKY40: WRKY DNA-binding protein 40; SUS3: Sucrose synthase 3; LOX3: Lipoxygenase 3; TAT3: Tyrosine aminotransferase 3; FBA5: Fructose-bisphosphate aldolase 5; LHCB2.3: Photosystem II light-harvesting complex gene 2.3; LHB1B1: Light-harvesting chlorophyll-protein complex II subunit B1; RBCS2B: Ribulose bisphosphate carboxylase small chain 2B.

Fig. 5 in Overexpression of DsEXLA2 gene from Dendrocalamus sinicus accelerates the plant growth rate of Arabidopsis

Fig. 5. Subcellular localization of DsEXLA2 in the epidermal leaf cells of tobacco. 35S-YFP and 35S::DsEXLA2-YFP fusion protein were transiently expressed in tobacco, respectively. The 35S-YFP vector was used as a negative control.

Fig. 9 in Overexpression of DsEXLA2 gene from Dendrocalamus sinicus accelerates the plant growth rate of Arabidopsis

Fig. 9. RNA-seq analysis of 35S::DsEXLA2 transgenic plants. A: Volcano map of DEGs. B: Expression level of expansin–like family genes. C: Enrichment bubble map of KEGG_pathway in up-regulated genes. D: Enrichment bubble map of KEGG_pathway in down-regulated genes.

Fig. 4 in Overexpression of DsEXLA2 gene from Dendrocalamus sinicus accelerates the plant growth rate of Arabidopsis

Fig. 4. Expression analysis of DsEXLA2 in D. sinicus. A: Sample schematic of culm. B: qRT-PCR analysis of the DsEXLA2 gene expression in different internodes. C: qRT-PCR analysis the DsEXLA2 gene expression in different tissues. D: sqRT-PCR analysis of the DsEXLA2 gene expression in different internodes. E: sqRT-PCR analysis the DsEXLA2 gene expression in different tissues. Different letters in the column line indicate differences at p <0.05 based on the Duncan test, respectively. Bars represent ST.

Fig. 5 in BiP-overexpressing soybean plants display accelerated hypersensitivity response (HR) affecting the SA-dependent sphingolipid and flavonoid pathways

Fig. 5. Analysis of 2D Scores Plot by Partial Least Squares Discriminant Analysis (PLS-DA) of characterized flavonoids in soybean leaves from the C9 and WT genotypes, infected (I) or noninfected (NI) by P. s. pv. tomato 36 h after inoculation. Points represent replicates analyzed, whereas ellipses indicate 95% confidence region.

Fig. 9 in BiP-overexpressing soybean plants display accelerated hypersensitivity response (HR) affecting the SA-dependent sphingolipid and flavonoid pathways

Fig. 9. Expression analysis of target genes performed by qRT-PCR involved in plant bacterial interactions from BiP-overexpressing (C9) and wild-type (WT) soybean plants infected (I) or noninfected (NI) with P. syringae pv. tomato. The expression levels were obtained using the 2-ΔCT method. Bars (mean SE; ± n = 4) with the same capital letters indicate no significant difference between control and inoculated treatments and those followed by the same lowercase letters indicate no significant difference among genotypes within the same treatment (Student's test: P <0.05).

Fig. 8 in BiP-overexpressing soybean plants display accelerated hypersensitivity response (HR) affecting the SA-dependent sphingolipid and flavonoid pathways

Fig. 8. Relative abundance of the flavonoid derivatives from BiP-overexpressing (C9) and wild-type (WT) soybean plants infected (I) or noninfected (NI) with P. syringae pv. tomato. Bars (mean ± SE; n = 4) with the same capital letters indicate no significant difference between control and inoculated treatments and those followed by the same lowercase letters indicate no significant difference among genotypes within the same treatment (Student's test: P <0.05).

Fig. 4 in BiP-overexpressing soybean plants display accelerated hypersensitivity response (HR) affecting the SA-dependent sphingolipid and flavonoid pathways

Fig. 4. Absolute concentrations of phytohormones (A) and of flavonoid aglycones (B) by UHPLC/MS QqQ. The data represent the mean ± standard error. Bars (mean ± SE; n = 4) with the same capital letters indicate no significant difference between control and inoculated treatments and those followed by the same lowercase letters indicate no significant difference among genotypes within the same treatment (Student's test: P <0.05).

Fig. 3 in BiP-overexpressing soybean plants display accelerated hypersensitivity response (HR) affecting the SA-dependent sphingolipid and flavonoid pathways

Fig. 3. Clustering analysis by Heat Map method of the characterized metabolites by GC/MS in soybean leaves from the WT and C9 genotypes, infected (I) or noninfected (NI) by P. syringae pv. tomato 36 h after inoculation. Differences in the abundance of the metabolites are indicate in response to treatments.

Fig. 6 in BiP-overexpressing soybean plants display accelerated hypersensitivity response (HR) affecting the SA-dependent sphingolipid and flavonoid pathways

Fig. 6. Clustering analysis by Heat Map method of the characterized flavonoids by LC QqQ in soybean leaves from the WT and C9 genotypes, infected (I) or noninfected (NI) by P. syringae pv. tomato 36 h after inoculation. This shows the differences in the abundance of the flavonoids analyzed by LC-MS in response to bacterial infection. Differences in the abundances of the detected flavonoids are indicate in response to treatments. Green color represents a decrease, and red color an increase.