Resultados de investigación

Cells above the diagonal show the r value; cells below the diagonal show the density distribution.(PDF), Peer reviewed

Name, number of occurrences, and parameters used to evaluate the species distribution model of 1924 plant species evaluated in this study., Peer reviewed

Number of pixels gained or lost and the proportion of change under four experimental scenarios (RCP4.5/RCP8.5 and limited/unlimited dispersal) for 1924 plant species in Central America and southern Mexico., Peer reviewed

[Description of methods used for collection/generation of data] Sanger sequencing, Fluorescent Fragment Analysis., This dataset corresponds to a comprehensive study of exons 3 and 6 of the cancer susceptibility gene TP53. For this purpose, we have used a minigene with exons 2 to 9, where we introduced 31 internal microdeletions, one intron replacement and 134 variants of exons 3 and 6 and intron 6 by site-directed mutagenesis that were assayed in SKBR3 cells. We identified four SRE-rich regions essential for exon recognition. Four control ±1,2 and 130 single nucleotide variants (SNVs) located at the SRE-rich intervals were assayed. We found 13 putative SRE-disrupting variants that impaired recognition of exons 3 (△(E3): 10-17%) or 6 (△(E6): 8-26%)., EAV-S lab is supported by a grant from the Spanish Ministry of Science and Innovation, Plan Nacional de I+D+I 2013-2016, ISCIII (PI23/00047) co-funded by FEDER from Regional Development European Funds (European Union)., • Folder: Fragment_Analysis. Fluorescent Fragment Analysis: Sub-folder Microdeletions: 80 *.fsa files of fluorescent fragment analysis of RT-PCRs of microdeletions Sub-folder Variants: 331 *.fsa files of fluorescent fragment analysis of RT-PCRs of variants • Folder: Sequences. 176 *.ab1 files of cDNA sequences of the wild type and mutant minigenes. Sub-folder cDNA. Transcript Sequencing. Sub-folder Microdeletions: 49 *.ab1 files of transcripts generated by microdeletions. Sub-folder Variants: 206 *.ab1 files of transcripts generated by variants. Sub-folder: Minigenes. Sequence files of wild type and mutant constructs: 89 *.ab1 files. Sub-folder Microdeletions: 28 *.ab1 files. Sub-folder Variants: 135 *.ab1 files • Folder: WT. Fragment analysis and sequencing files of the wild type minigene. Sub-Folder: Fragment_Analysis: 3 *.fsa files of fluorescent fragment analysis of RT-PCRs of the wild type construct. Sub-Folder: Sequences: 4 *.ab1 files of RT-PCRs and the construct sequences of the wild type minigene., Peer reviewed

TABLE S1 | Assembly statistics for Sk CA111 and CR85 genome assemblies. TABLE S2 | Positive selection, evolutionary rate test and functional divergence results for all genes analyzed in both Sk and Sc species. PS, positive selection; FD, number of positions contributing to functional divergence in every protein; SCOP, annotations with SCOP domains as explained in Methods; NA (not available), protein domain annotation was not possible; Tajima’s test, Sk: acceleration of evolutionary rates leading to Sk branch; Sc, acceleration of evolutionary rates leading to Sc branch. TABLE S3 | GO term enrichment for genes showing evidence of functional divergence in Sk and Sc branch. TABLE S4 | Amino acids sites under positive selection according to branch-site model and BEB method. Specific amino acids sites and the probability of being under positive selection were retrieved for those candidates obtained with the branch-site model. TABLE S5 | Enriched/Impoverished chromosome regions in proteins with functional divergence evidence. FIGURE S1 | Functional divergence among metabolic pathways. Normalized contribution of genes showing evidence of functional divergence to every path. The height of the bars represents Φ, the normalized contribution of each pathway (i) of size (t) to the total number of genes under functional divergence when considering the whole dataset (T), calculated as Φ = (ni / t) (t / T). Bars above the dashed line represent enriched pathways in genes under functional divergence while bars below the line show impoverished pathways. B, biosynthesis; M, metabolism; D, degradation; aa, amino acid. FIGURE S2 |Sk vs. Sc differences in functional divergence among metabolic pathways. Normalized functional divergence values among metabolic pathways. The significance of the differences in every pathway between analysis performed with Sk or Sc as clade-of-interest was assessed by a Wilcoxon paired signed-rank test, those significant were indicated with an “∗.” B, biosynthesis; M, metabolism; D, degradation; aa, amino acid., Peer reviewed

We report the development of a multimodal lanthanide vanadate system suitable as dual T1-T2 MRI contrast agent as well as a luminescent imaging probe in the near-infrared region, using Dy3+ and Gd3+ as T2 and T1 components, respectively, and Nd3+ as the luminescent center. The vanadate matrix was chosen to avoid the undesired solubility associated to previously reported fluoride-based contrast agents. With such aim, we first optimized the design of the MRI system by comparatively evaluating the magnetic relaxivities of two different architectures consisting of i) uniform NPs incorporating both paramagnetic cations in solid solution (single-phase NPs), and ii) core-shell NPs consisting of a DyVO4 core coated with a homogeneous GdVO4 shell (DyVO4@GdVO4). We found that, although both samples presented magnetic relaxivity properties that make them adequate for their use as dual T1-T2 contrast agents for magnetic resonance imaging, the core-shell architecture would be more suitable because of their higher magnetic relaxivity values. Secondly, to prepare the multimodal system, the GdVO4 layer of such optimal dual T1-T2 MRI probe was doped with Nd3+ cations. An inert YVO4 intermediate shell was also introduced between the cores and the outer layer aiming to avoid energy transfer from Nd3+ to Dy3+, which would cause luminescence quenching. These core-shell-shell nanoparticles showed magnetic relaxivity values similar to those of the core-shell system and an intense luminescence in the near-infrared region. Moreover, they were dispersible and chemically stable under conditions that mimic the physiological media, and they were nontoxic for cells. Therefore, such multimodal nanoparticles meet the main requirements for their use as a dual T1-T2 contrast agent for magnetic resonance imaging and as a probe for luminescent imaging in the near-infrared region., This publication is part of the I + D + I Grants PID2021-122328OB-I00 and PID2020-118448RB-C21, funded by MCIN/AEI/10.13039/501100011033 and by “ERDF A way of making Europe”. This work was supported as well by Junta de Andalucía under grant no. P20_00182, co-financed by EU FEDER funds. Grant PRE2019-090170 funded by MCIN/AEI/10.13039/501100011033 and by “ESF Investing in your future” is also acknowledged., F2 F2b_ FTIR spectrum of single-phase nanoparticles. F2c_ TGA curve of the single-phase nanoparticles. F2d_XRD pattern of the single-phase nanoparticles_ black. F2d_GdVO4 PDF_red. F2d_DyVO4 PDF_navy. F4 F4b_ XRD pattern of the core-shell nanoparticles_ black F4b_GdVO4 PDF_red. F4b_DyVO4 PDF_navy. F4c: FTIR spectrum of the core-shell nanoparticles. F4d: TGA curve of the core-shell nanoparticles. F6 F6_top_blue: The longitudinal (1/T1) relaxation rates at 1.44 T for different contents of single-phase nanoparticles. F6_top_red: The longitudinal (1/T1) relaxation rates at 1.44 T for different contents of core-shell nanoparticles. F6_bottom_blue: The transverse (1/T2) relaxation rates at 1.44 T for different contents of single-phase nanoparticles. F6_bottom_red: The transverse (1/T2) relaxation rates at 1.44 T for different contents of core-shell nanoparticles. F7 F7b_XRD pattern of the Dy@Y@Nd:Gd sample_black. F7b_DyVO4 PDF_grey. F7b_GdVO4 PDF_red F7b_YVO4 PDF_blue F7c_FTIR spectrum of the Dy@Y@Nd:Gd sample. F7d_TGA curve of the Dy@Y@Nd:Gd sample. F9 F9_blue: Relaxation rates (1/T1) measured at 1.44 T for different lanthanide (Dy+Gd+Nd) concentration in the Dy@Y@Nd:Gd sample. F9_red: Relaxation rates (1/T2) measured at 1.44 T for different lanthanide (Dy+Gd+Nd) concentration in the Dy@Y@Nd:Gd sample. F10 F10_top: Excitation spectrum for the Dy@Y@Nd:Gd sample. F10_ bottom: Emission spectrum for the Dy@Y@Nd:Gd sample. F11 F11_grey: DLS curve obtained for DyVO4@YVO4@Nd-doped GdVO4 nanoparticles suspensions in water. F11_red: DLS curve obtained for DyVO4@YVO4@Nd-doped GdVO4 nanoparticles suspensions in MES medium. F11_blue: DLS curve obtained for DyVO4@YVO4@Nd-doped GdVO4 nanoparticles suspensions in PBS medium. F11_green: DLS curve obtained for DyVO4@YVO4@Nd-doped GdVO4 nanoparticles suspensions in saline medium. F12 F12_Histogram_1 day: Histogram of Dy@Y@Nd:Gd nanoparticles after aging in PBS medium at 37 ºC during one day. F12_Histogram_21 days: Histogram of Dy@Y@Nd:Gd nanoparticles after aging in PBS medium at 37 ºC during 21 days. F12_Histogram_35 days: Histogram of Dy@Y@Nd:Gd nanoparticles after aging in PBS medium at 37 ºC during 35 days. F13 F13d_Analysis of the total number of cells per well exposed to increasing concentration of DyVO4@YVO4@Nd-doped GdVO4 nanoparticles. F13e_Dead cell percentage to increasing concentration of DyVO4@YVO4@Nd-doped GdVO4 nanoparticles. F13f_Mitochondrial activity of the cells to increasing concentration of DyVO4@YVO4@Nd-doped GdVO4 nanoparticles. FS1 FS1a_Size distribution histogram of the single-phase nanoparticles containing Gd and Dy as a solid solution. FS1b_Size distribution histogram of the DyVO4 nanoparticles coated with a GdVO4 shell. FS1c_Size distribution histogram of the DyVO4 nanoparticles coated with a first YVO4 shell and with a second shell consisting of GdVO4 doped with Nd3+. FS2 FS2b_Size distribution histogram for the DyVO4 nanoparticles functionalized with PAA used as cores. FS2c_ DLS curve in water suspension for the DyVO4 nanoparticles functionalized with PAA used as cores. FS2d_XRD pattern for the DyVO4 nanoparticles functionalized with PAA used as cores. FS2d_DyVO4_PDF FS2e_FTIR spectrum for the DyVO4 nanoparticles functionalized with PAA used as cores. FS2f_TGA curve for the DyVO4 nanoparticles functionalized with PAA used as cores., Peer reviewed

Parity plots of the NNFF over the test set, plot with a comparison between mono- and bilayers, and details of the MD simulation process for calculating the thermal conductivity in pristine and defect-laden bilayer PtSTe (PDF). Dataset and model parameters for the trained committee of neural-network force fields (ZIP)., Peer reviewed

Figure S1: Image of Brazil nut (Bertholletia excels HBK); Figure S2: HPLC chromatogram of betalains and phenolic compounds from (a) OPD, (b) BN ED 1%, and (c) BN ED 0.5% at 280 nm in which the numbers correspond to the identified compounds shown in Table 1 and Table 4; Figure S3: HPLC chromatogram of betalains and phenolic compounds from (a) OPD, (b) BN ED 1%, and (c) BN ED 0.5% at 370 nm in which the numbers correspond to the identified compounds shown in Table 1 and Table 4; Figure S4: HPLC chromatogram of betalains and phenolic compounds from (a) OPD, (b) BN ED 1%, and (c) BN ED 0.5% at 480 nm in which the numbers correspond to the identified compounds shown in Table 1 and Table 4; Figure S5: HPLC chromatogram of betalains and phenolic compounds from (a) OPD, (b) BN ED 1%, and (c) BN ED 0.5% at 535 nm in which the numbers correspond to the identified compounds shown in Table 1 and Table 4; Table S1: Physicochemical characteristics of Brazil nuts (BNs), fresh Opuntia stricta var. dillenii fruits, and standardized Brazil nut beverage (BNB); Table S2: Encapsulation efficiency of main betalains and phenolic compounds of Brazil nut beverages with 0.5% (BN ED 0.5%) and 1% (BN ED 1%) Opuntia stricta var. dillenii pulp extract added during cold storage at 5 °C for 24 days; Table S3: Total phenolic content (TPC) and oxygen radical absorbance capacity (ORAC) of Brazil nut beverages (BNs) and BN beverages with 0.5% (BN ED 0.5%) and 1% (BN ED 1%) of Opuntia stricta var. dillenii pulp extract added during storage at 5 °C for 24 days analyzed after TCA extraction method; and Table S4: Total phenolic content (TPC) and oxygen radical absorbance capacity (ORAC) of Brazil nut beverages (BNs) and BN beverages with 0.5% (BN ED 0.5%) and 1% (BN ED 1%) of Opuntia stricta var. dillenii pulp extract added during storage at 5 °C for 24 days directly analyzed from the beverages., Peer reviewed

Table S1: Composition of the digestive phases and enzymes used for the in vitro gastrointestinal digestion assay; Table S2: Antioxidant capacity of Opuntia ficus-indica var. Colorada pulp extracts and individual standards by the methods LOX-FL, ORAC and TEAC; Table S3: Particle size (nm) and zeta potential (mV) of TW and SC double emulsion systems with encapsulated extracts from O. ficus-indica var. Colorada pulps during 20 days conservation at 7 °C; Figure S1: HPLC C18 chromatograms of betalains and phenolic compounds from Opuntia ficus-indica var. Colorada, analysed at 480 nm (betaxanthins), 535 nm (betacyanins), 370 nm (flavonoids) and 280 nm (phenolic acids) wavelengths, where a) belongs to the non-encapsulated OFC pulp extract and b) to the encapsulated OFC pulp green extract in TW2 double emulsion system (based on Tween 20, containing 2 g of OFC pulp green extract); Figure S2. Inhibition of the LOX-1 dependent fluorescein bleaching by indicaxanthin, piscidic acid and isorhamnetin-glucoxyl-rhamnosyl-pentoside 2 (IG2); Figure S3. Visual inspection of the double emulsions systems based on Tween 20 (TW) and sodium caseinate (SC) with encapsulated O. ficus-indica var. Colorada pulp extracts during 20 days storage at 7 °C., Peer reviewed

Supplementary figure S1 | Chromatogram of the phenolic compounds of the UAE yarrow extract (λ = 280 nm). Supplementary figure S2 | Effect of UAE yarrow and yarrow Sep extracts in the inhibition of the gene expression of the master regulator of de novo lipogenesis SREBF1 in the metastasis CRC cell line SW620. Asterisks indicate statistically significant differences *p < 0.05; **p < 0.01; ***p < 0.005; and ****p < 0.001 relative to the control non-treated cells (three replicates, three independent experiments). Supplementary figure S3 | Effect of yarrow UAE and yarrow Sep in the mitochondrial oxidative phosphorylation of SW620 metastatic CRC cells. The basal respiration rate, spare respiratory capacity, ATP production, and proton leak of 8,000 cells per condition are compared. Data represent the mean ± SEM of four to six replicates. Supplementary figure S4 | Effect of UAE yarrow and yarrow Sep extracts in the expression of the epithelial markers E-cadherin in the metastatic CRC cell line SW620. Asterisks indicate statistically significant differences *p < 0.05; **p < 0.01; ***p < 0.005; and ****p < 0.001 relative to the control non-treated cells (three replicates, three independent experiments). Supplementary table S1 | List of oligos (forward and reverse) to assay lipid metabolism gene expression and epithelial to mesenchymal transition genes., Peer reviewed