Journal: bioRxiv

Article Title: Sex-specific maladaptive responses to acute stress upon in utero THC exposure are mediated by dopamine

doi: 10.1101/2024.09.17.613444

Figure Lengend Snippet: A) Timeline of experimental procedures for pre-pulse inhibition (PPI) experiments (top) and blood collection (bottom). B) Forced swim test (FST) differentially impacts on sensorimotor gating functions in male and female rats (*p = 0.036 CTRL males vs. PCE males; **p = 0.003 CTRL males vs. CTRL females; Sidak’s test; n rats = 7-9 CTRL/PCE females, 15-16 CTRL/ PCE males). C) Corticosterone and D) adrenocorticotropic hormone (ACTH) concentrations were measured from plasma samples collected from unstressed rats and from stressed rats after 30 min from the beginning of the FST: CORT : *p = 0.01 stressed CTRL males vs. stressed CTRL females; **p = 0.003 stressed PCE males vs. stressed PCE females. ACTH : **p = 0.006 stressed CTRL males vs. stressed CTRL females; Sidak’s test. Data are expressed as ng/ml of plasma and obtained from 7-8 unstressed rats, 8-12 stressed. Unless otherwise indicated, data are represented with scatter plots with mean and ± SEM. Figure created with BioRender.com.

Article Snippet: An enzyme-linked immunosorbent assay (ELISA) was used to quantify plasma levels of Corticosterone (CORT; #RE52211 IBL Corticosterone Enzyme Immunoassay Kit, TECAN Europe), and Adrenocorticotropic hormone (ACTH; #EK-001-21, Phoenix Pharmaceuticals Inc., Burlingame, CA, USA), as previously described [ ].

Techniques: Inhibition

Journal: bioRxiv

Article Title: Nutrition induced changes in the microbiota can cause dysbiosis and disease development

doi: 10.1101/2024.07.29.605727

Figure Lengend Snippet: nMDS analysis of Hydra -associated microbial community composition exposed to different lake water environments (laboratory and field) based on l6S rRNA gene amplicon sequencing. Nutrient-deficient water (s-medium) was used as control in the laboratory. Microbial community composition of control polyps was significantly differed from polyps exposed to different lake water environments (Permanova P<0.00l).

Article Snippet: A long-read library was made using the Rapid Sequencing Kit (SQK-RAD004) and sequenced on the MinION (Oxford Nanopore Technologies, Oxford, UK) with a Flongle flow cell (FLO-FLG00l).

Techniques: Amplification, Sequencing, Control

Journal: bioRxiv

Article Title: Nutrition induced changes in the microbiota can cause dysbiosis and disease development

doi: 10.1101/2024.07.29.605727

Figure Lengend Snippet: External feeding of mucus-associated bacteria on Hydra altered the microbial community composition. Nonmetric multidimensional scaling (nMDS) analysis of l6S rRNA gene amplicon sequencing data revealed two distinct clusters. Polyps exposed to nutrient-enriched environments clustered separately from control polyps in nutrient-deficient water (grey circles). The microbial community composition of control polyps was significantly differed from polyps exposed to nutrient C++ (ANOSIM Pairwise-Test: R Statistic=0.776, P=0.00l) and nutrient P+ (ANOSIM Pairwise-Test: R Statistic=0.832, P=0.00l).

Article Snippet: A long-read library was made using the Rapid Sequencing Kit (SQK-RAD004) and sequenced on the MinION (Oxford Nanopore Technologies, Oxford, UK) with a Flongle flow cell (FLO-FLG00l).

Techniques: Bacteria, Amplification, Sequencing, Control

Journal: bioRxiv

Article Title: Glycerol degradation in the thermoacidophilic crenarchaeon Sulfolobus acidocaldarius involves an unusual glycerol-3-phosphate dehydrogenase

doi: 10.1101/2024.02.29.582781

Figure Lengend Snippet: Glycerol uptake likely involves the GlpF-like glycerol uptake facilitator Saci_2034 and eventually simple diffusion through the cytoplasmic membrane. Additional uptake systems like the ABC transporter (Saci_1762-1765) might also contribute. Intracellularly, glycerol is phosphorylated by GK (Saci_2033), homologous to the bacterial GlpK, forming G3P which is then oxidized by a membrane bound, unusual GlpA-like FAD dependent G3PDH (Saci_2032). Saci_2032 is anchored to the membrane by the CoxG homologue Saci_2031 forming a complex that transfers electrons to the caldariellaquinone (CQ) yielding dihydroxyacetone phosphate (DHAP). DHAP can be used for phospholipid synthesis (via G1P in Archaea), and - with concomitant triosephosphate isomerase (TPI, Saci_0117) mediated conversion to glyceraldehyde-3-phosphate (GA3P) - for gluconeogenesis (green arrows), or glycolysis (red arrow). The paralogues Saci_1117 (GK), Saci_1118 (G3PDH), and Saci_1119 (CoxG) might contribute to glycerol degradation under different growth conditions (for details see discussion section).

Article Snippet: Pan-Archaea riboPOOL kit from siTOOLs Biotech was used to remove the rRNA.

Techniques: Diffusion-based Assay, Membrane

Journal: bioRxiv

Article Title: Glycerol degradation in the thermoacidophilic crenarchaeon Sulfolobus acidocaldarius involves an unusual glycerol-3-phosphate dehydrogenase

doi: 10.1101/2024.02.29.582781

Figure Lengend Snippet: Phylogenetic affiliation of the S. acidocaldarius G3PDH isoenzymes Saci_2032 and Saci_1118 with selected GlpDs, GlpOs, and GlpAs from other Archaea, Bacteria and Eukarya (organism names and uniprot accession numbers are given). GlpA homologous are shaded green, with the canonical bacterial and haloarchaeal GlpAs shown in dark green, the Thermophilum homologues in green and the S. acidocaldarius homologues in light green. The GlpD cluster shaded blue comprises the GlpDs and GlpOs highlighted in light and dark blue, respectively. The Thermococcus-like G3PDHs, designated as GlpTk are shown in orange. The evolutionary history was inferred by using the Maximum Likelihood method and JTT matrix-based model . The tree with the highest log likelihood (−22770.18) is shown. The percentage of trees in which the associated taxa clustered together is shown next to the branches. Initial tree(s) for the heuristic search were obtained automatically by applying Neighbor-Join and BioNJ algorithms to a matrix of pairwise distances estimated using a JTT model, and then selecting the topology with superior log likelihood value. The tree is drawn to scale, with branch lengths measured in the number of substitutions per site. This analysis involved 55 amino acid sequences. All positions containing gaps and missing data were eliminated (complete deletion option) resulting in a total of 280 positions in the final dataset. Evolutionary analyses were conducted in MEGA 11 .

Article Snippet: Pan-Archaea riboPOOL kit from siTOOLs Biotech was used to remove the rRNA.

Techniques: Bacteria