Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1092798 | ENA |
REPOSITORIES: ENA
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Project description:Roots of Arabidopsis thaliana do not engage in symbiotic association with mycorrhizal fungi but host taxonomically diverse fungal communities that influence health and disease states. We sequenced the genomes of 41 isolates representative of the A. thaliana root mycobiota for comparative analysis with 79 other plant-associated fungi. We report that root mycobiota members evolved from ancestors having diverse lifestyles and retained diverse repertoires of plant cell wall-degrading enzymes (PCWDEs) and effector-like small secreted proteins. We identified a set of 84 gene families predicting best endophytism, including families encoding PCWDEs acting on xylan (GH10) and cellulose (AA9). These genes also belong to a core transcriptional response induced by phylogenetically-distant mycobiota members in A. thaliana roots. Recolonization experiments with individual fungi indicated that strains with detrimental effects in mono-association with the host not only colonize roots more aggressively than those with beneficial activities but also dominate in natural root samples. We identified and validated the pectin degrading enzyme family PL1_7 as a key component linking aggressiveness of endophytic colonization to plant health.
2021-11-03 | GSE169629 | GEO
Project description:Coix aquatica x Coix lacryma-jobi Genome sequencing
| PRJNA266106 | ENA
Project description:26S rRNA mycobiota from fecal samples Raw sequence reads
| PRJNA1046057 | ENA
Project description:We previously showed CHS siRNAs levels to be high in immature seed coats of seed with dominant alleles of the I locus that controls seed color (Tuteja et al., Plant Cell 2009; Cho et al., Plos One, 2013) and to be much lower in several other tissues sampled (Zabala et al., BMC Plant Biology 2012). Here, we examined 15 additional small RNA populations by high-throughput sequencing of developing seed coats of various stages from cultivars with the dominant I and i-i alleles that specify yellow seed coats or from spontaneous mutations to pigmented seed coats. The CHS siRNAs were tissue specific and found at high levels of up to 5700 normalized RPMs (reads per millions) in immature seed coats but were less than 6 RPMs in libraries from 21 non-seed coat samples including the embryonic axis, different stages of seedlings cotyledons, vegetative buds, and shoot tips, illustrating the tightly controlled tissue-specific expression of the CHS siRNAs in seed coats.
2025-07-31 | GSE239484 | GEO
Project description:Background: Colorectal cancer (CRC) is a leading cause of cancer-related mortality, driven by dysregulated oncogenic signaling and metabolic reprogramming. PSY, an herbal formula derived from Patriniae Radix, Coix Seed, and Mori Cortex Radicis, has shown potential anti-cancer effects, but its mechanisms in CRC remain unclear. Purpose: PSY’s multi-targeted effects on oncogenic signaling, metabolic pathways, and inflammation in CRC. Materials and Methods: Transcriptomic profiling (RNA sequencing), in vitro assays, and in vivo xenograft models were used to elucidate PSY’s mechanisms. Metabolic profiling via LC-MS/MS and serum lipid analysis were performed to assess its impact on lipid metabolism. Results: PSY activated the PERK/eIF2α/ATF4 stress pathway and suppressed PI3K/Akt/mTOR signaling, inducing apoptosis and inhibiting CRC cell proliferation. Xenograft models showed significant tumor growth suppression and reduced proliferation (Ki67) and inflammation markers (COX2, p-STAT3). Metabolic profiling revealed reduced cholesterol and fatty acid biosynthesis, including arachidonic acid, correlating with COX2 downregulation. Serum LDL and HDL levels decreased, with an increased LDL/HDL ratio. Conclusion: PSY demonstrates potential as a multi-targeted agent by disrupting oncogenic signaling, lipid metabolism, and inflammation in CRC. These findings support its further exploration for clinical applications.
2026-01-05 | GSE285901 | GEO