Project description:Apple (Malus domestica Borkh) is an important fruit crop cultivated in a broad range of environmental conditions. Apple fruit, and specifically peel tissue, ripening is a physiological process whose molecular regulatory networks response to different environments are still not sufficiently investigated. In this study, the influence of low (20 m) and high (750 m) altitude environmental conditions in peel tissue was assessed by physiological measurements combined with global metabolite and protein expression profiling during apple fruit development and ripening. Although apple fruit ripening was unaffected by the different environmental conditions, however several key color parameters, such as redness and the color percentage index, were induced by high altitude. Consistent with this, increased level of anthocyanin and other phenolic compounds, including cyanidin-3-O-galactoside, quercetin-3-O-rhamnoside, quercetin-3-O-rutinoside and chlorogenic acid were identified in apple peel at high altitude. Also, high altitude environment, particularly, at the ripening period, up-accumulated various carbohydrates (eg., arabinose, xylose and sucrose) while repressed glutamic acid and several related proteins such as glycine hydroxymethyltransferase and glutamate��glyoxylate aminotransferase. Other processes affected by high altitude concerned the TCA cycle, the synthesis of oxidative/defense enzymes, and the accumulation of photosynthetic proteins. Finally, we constructed a metabolite-protein network depicting the impact of altitude on peel ripening. These data provide insights into physiological processes linked to apple peel ripening across different climatic conditions and will assist in efforts to improve apple fruit appeal and quality.

2021-11-25 | PXD017057 | Pride

Decoding altitude – activated regulatory mechanisms underlining apple peel coloration and ripening

Project description:Apple (Malus domestica Borkh) is an important fruit crop cultivated in a broad range of environmental conditions. Apple fruit, and specifically peel tissue, ripening is a physiological process whose molecular regulatory networks response to different environments are still not sufficiently investigated. In this study, the influence of low (20 m) and high (750 m) altitude environmental conditions in peel tissue was assessed by physiological measurements combined with global metabolite and protein expression profiling during apple fruit development and ripening. Although apple fruit ripening was unaffected by the different environmental conditions, however several key color parameters, such as redness and the color percentage index, were induced by high altitude. Consistent with this, increased level of anthocyanin and other phenolic compounds, including cyanidin-3-O-galactoside, quercetin-3-O-rhamnoside, quercetin-3-O-rutinoside and chlorogenic acid were identified in apple peel at high altitude. Also, high altitude environment, particularly, at the ripening period, up-accumulated various carbohydrates (eg., arabinose, xylose and sucrose) while repressed glutamic acid and several related proteins such as glycine hydroxymethyltransferase and glutamate–glyoxylate aminotransferase. Other processes affected by high altitude concerned the TCA cycle, the synthesis of oxidative/defense enzymes, and the accumulation of photosynthetic proteins. Finally, we constructed a metabolite-protein network depicting the impact of altitude on peel ripening. These data provide insights into physiological processes linked to apple peel ripening across different climatic conditions and will assist in efforts to improve apple fruit appeal and quality.

2021-09-08 | PXD017037 | Pride

uncultured prokaryote

Project description:Peatland 16S rRNA and ITS Targeted loci environmental

| PRJNA376032 | ENA

lake water metagenome

Project description:Yanga Lake Microbiome 16S rRNA Targeted loci environmental

| PRJNA296748 | ENA

16S rRNA sequencing analysis of bacteiral community composition in antibiotic-treated mouse fecal sample

Project description:Purpose: This study aims to compare and analyze the differences in bacterial community composition in fecal samples from mice treated with Control(DW), Vancomycin (VAN), Ampicillin (AMP), Neomycin (NEO), Metronidazole (MET), and a combination of all antibiotics (ALL, VANM) using 16S rRNA sequencing. Methods: Each antibiotics treated mice's fecal samples were collected and stored -80'c until analyzation. DNA was extracted using the NucleoSpin DNA Stool Kit (MACHEREY-NAGEL) following the manufacturer’s protocol. Metagenomic sequencing was performed on an Illumina MiSeq platform (Illumina), targeting the V3 and V4 regions of the 16S rRNA gene according to the manufacturer's instructions. PCR products were purified using AMPure XP beads, and sequencing adapters were added using the Nextera XT Index Kit (Illumina). The library was further purified with AMPure XP beads and quantified using automated electrophoresis with the TapeStation System (Agilent). Sequencing was performed using the MiSeq v3 reagent kit (Illumina), following the manufacturer’s protocol. Results: QIIME2 (v2023.02) was used to process and analyze 16S rRNA gene amplicon sequencing data, from sequence preprocessing to taxonomic classification. Paired-end sequences were merged and quality-filtered using Deblur. The resulting amplicon sequence variants (ASVs) were used for downstream analyses. Conclusions: Our study presents a comparative analysis of bacterial community composition in fecal samples from antibiotic-treated mice. We observed that microbiota composition varied distinctly depending on the type of antibiotic administered.

2026-01-28 | GSE291841 | GEO

Project description:16S rRNA amplicon sequencing of soil bacteria Targeted loci

| PRJNA416377 | ENA

Bacteria

Project description:Bacteria Targeted loci (16S rRNA gene amplicon sequencing), 2025

| PRJNA1314971 | ENA

Bacteria

Project description:Bacteria Targeted loci (16S rRNA gene amplicon sequencing), 2022-2024

| PRJNA1321512 | ENA