Project description:The mortality risk from cancer-associated sepsis is differentially affected by individual cancer sites and host responses to sepsis are heterogenous. Native Hawaiians have a 2-fold higher mortality risk from cancer-associated sepsis than Whites and also higher mortality risk from colorectal cancer (CRC). We investigated this disparity by examining ethnic variation in the transcriptome of patients with CRC-associated sepsis and its relation to survival and genetic diversity. We conducted transcriptomic profiling of CRC tumors and adjacent non-tumor tissue obtained from adult patients of Native Hawaiian and Japanese ethnicity who died from cancer-associated sepsis. We examined differential gene expression in relation to patient survival and sepsis disease etiology.
Project description:A comparision of soil microbial functional genes of three types of subtropical broad-leaved forests Microbial functional structure was significantly different among SBFs (P < 0.05). Compared to the DBF and the EBF, the MBF had higher alpha-diversity of functional genes but lower beta-diversity, and showed more complex functional gene networks.
Project description:Phytophthora cinnamomi Rands is a cosmopolite and phyllophagous pathogen of woody plants which during the last couple of centuries has spread all over the world from its center of origin in Southeast Asia. Despite Chinese cork tree (Quercus variabilis Blume) forests native to Asia being generally healthy, the populations of cork trees (Quercus suber L.) in Europe have been decimated by P. cinnamomi. The present study tries to identify the differences in the early proteomic and metabolomic response of these two tree species that lead to their contrasting susceptibility to P. cinnamomi attack. By using micropropagated clonal plants, we tried to minimize the plant-to-plant differences in the defense response that is maximized by the high intraspecific genetic variability inherent to the Quercus genus. The evolution on the content of Phytophthora proteins in the roots during the first 36 hours after inoculation suggest a slower infection process in Q. variabilis plants. These plants displayed a significant decrease in sugars in the roots, together with a downregulation of proteins related to carbon metabolism. In the leaves, the biggest changes in proteomic profiling were observed 16 hours after inoculation. and included increased abundance of peroxidases, superoxidedismutases and gluthatione S-transferases in Q. variabilis plants, which probably aided its resistance against P. cinnamomi attack.
Project description:Cancer remains one of the leading global health challenges, with lung (LC), breast (BC), and colorectal (CRC) cancers among the most prevalent and deadly malignancies. The intratumoral microbiota (IM), a distinct microbial ecosystem within tumor tissues, has emerged as a potential modulator of carcinogenesis, immune responses, and metastatic progression; however, comparative cross-cancer analyses are very scarce. In this study, we profiled and compared the IM composition and diversity in FFPE samples from an Italian cohort of BC (GSE212891), CRC (GSE216589), and LC patients. BC samples exhibited the highest genus-level richness, whereas CRC samples showed significantly greater overall alpha diversity, consistent with the microbial complexity of the gut environment. LC samples displayed the most balanced microbial distribution, as indicated by the highest Shannon index value. Stratification by metastatic condition revealed distinct microbial signatures: 16 genera were exclusive to metastatic tumors and 49 to non-metastatic ones. In BC specifically, the class Clostridia and family Burkholderiaceae were enriched in non-metastatic samples, accompanied by distinct functional shifts in pantothenate and coenzyme A biosynthesis and lysine and lipid A pathways. Microbial network analysis further uncovered differences in ecological community structure and keystone taxa: Streptococcus spp. predominated as hubs in metastatic tumors, whereas Neisseria spp. were central in non-metastatic networks. Overall, our findings highlight cancer-type– and metastasis-specific microbial signatures, supporting a potential role for the IM in tumor progression and offering avenues for biomarker development and therapeutic targeting.
2026-05-07 | GSE304021 | GEO
Project description:Study of fungal diversity in New Zealand vineyards, wineries, and native forests.
Project description:Rhizospheric community of Penicillium spp. in roots of Austrocedrus chilensis plays a key role in plant protection against Phytophthora austrocedri disease in Patagonian native forests
Project description:Phytophthora cinnamomi is one of the most invasive tree pathogens that devastates wild and cultivated forests. Due to its wide host range, knowledge of the infection process at the molecular level is lacking for most of its tree hosts. To expand the repertoire of studied Phytophthora-woody plant interactions and identify molecular mechanisms that can facilitate discovery of novel ways to control its spread and damaging effects, we focused on the interaction between P. cinnamomi and sweet chestnut (Castanea sativa), an economically important tree for the wood processing industry. By using a combination of proteomics, metabolomics, and targeted hormonal analysis, we mapped the effects of P. cinnamomi attack on stem tissues immediately bordering the infection site and away from it. P. cinnamomi led to a massive reprogramming of the chestnut proteome and accumulation of the stress-related hormones salicylic acid (SA) and jasmonic acid (JA) indicating that stem inoculation can be used as an easily accessible model system to identify novel molecular players in P. cinnamomi pathogenicity
Project description:We established a two-step approach to centromere-replacement (Figure 1A in outline, and Supplementary data in detail). FiC31 integrase was used to place a candidate sequence or an empty vector adjacent to the native centromere of chromosome 2 of CBS2777, and Bxb1 integrase was subsequently used to delete the native centromere.