Ontology highlight
ABSTRACT:
PROVIDER: PRJNA609606 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR11229500_1.fastq.gz | Fastqsanger.gz | |||
| SRR11229500_2.fastq.gz | Fastqsanger.gz | |||
| SRR11229501_1.fastq.gz | Fastqsanger.gz | |||
| SRR11229501_2.fastq.gz | Fastqsanger.gz | |||
| SRR11229502_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 66 |
Similar Datasets
Project description:Associated microbial community in polyps of Aurelia coerulea and Aurelia solida which collected from seven countries Raw sequence reads
| PRJNA799918 | ENA
Project description:The preferential localization of some neoplasms, such as serrated polyps, in specific areas of the intestine suggests that non-genetic factors may be important for their development. To test this hypothesis, we took advantage of transgenic mice that expressed HB-EGF throughout the intestine, but develop serrated polyps only in the cecum. Here we show that a host-specific microbiome was associated with serrated polyps, and that alterations of the microbiota induced by antibiotic treatment or by embryo-transfer rederivation markedly inhibited the formation of serrated polyps in the cecum. Mechanistically, development of serrated polyps was associated with a local decrease in epithelial barrier-function, bacterial invasion, production of antimicrobials, and increased expression of several inflammatory factors such as IL-17, Cxcl2, Tnf-α, and IL-1. Increased number of neutrophils were found within the serrated polyps, and their depletion significantly reduced polyp growth. Together these results indicate that non-genetic factors contribute to the development of serrated polyps and suggest that the development of these intestinal neoplasms in the cecum is driven by the interplay between genetic changes in the host, an inflammatory response, and a host-specific microbiota. SUMMARY: Serrated polyps (SP) are a heterogeneous group of neoplasms found in particular areas of the gut. To define the factors contributing to their specific localization, we analyzed a strain of transgenic mice that carry a genetic alteration throughout the intestinal epithelium, but only develop SP in the cecum. Transcriptome and immunostaining analyses showed increased expression of antimicrobial genes, inflammatory factors, and the presence of bacteria within SP. Alteration of the cecal microbiota by antibiotic treatment or by embryo-transfer rederivation dramatically reduced SP incidence. Microbiome analysis implicated a limited set of bacteria in the development of SP. Together, these results point to a crucial role for the microbiota in the localized development of SP in a genetically susceptible host. We obtained serrated polyp (SP) and surrounding normal (NM) tissue from the ceca of three affected mice (paired design) and assessed expression differences by RNA-Seq.
2014-02-12 | E-GEOD-47735 | biostudies-arrayexpress
Project description:<p>Symbiotic microorganisms play an important role in the growth and development of marine invertebrates, such as the sea moon, affecting their metamorphosis process. The outbreak of jellyfish puts pressure on marine ecosystems and affects their stability. However, researches on the development of jellyfish are still fewer, the use of biological control of jellyfish disaster is still in the theoretical stage, and the inhibition mechanism of microorganisms on jellyfish remains to be revealed. We isolated a strain of <em>Bacillus</em> <em>paramycoides </em>SG15 from rhizosphere sediments of seagrass <em>Zostera japonica</em>, and found that this strain could inhibit the asexual reproduction of jellyfish <em>Aurelia coerulea </em>polyp larva. Through co-culture experiments, we used transcriptomics, metabolomics and fluorescence in situ hybridization techniques, combined with the genome and metabolome of SG15, and found that this isolate could inhibit the asexual reproduction rate of the larva polyp by inhibiting the absorption of vitamins, and the endoderm cells were the most important action site of SG15. Although there are relatively high concentrations of vitamins and their derivatives in the surrounding environment, the transport of hydra is reduced, and most vitamins cannot be synthesized in the polys as well, thus affecting the growth and reproduction of polyps. Our study, analyzed the interaction processes between Bacillus and polyps and revealed the inhibiting mechanism of the polyp asexual reproduction by <em>B. paramycoides</em> SG15, which laid a theoretical foundation for the subsequent analysis of interactions between jellyfish and microorganisms, bring materials for the biological control of jellyfish disasters.</p><p><br></p><p><strong>Polyps whole organism</strong> is reported in the current study <a href='https://www.ebi.ac.uk/metabolights/MTBLS9409' rel='noopener noreferrer' target='_blank'><strong>MTBLS9409</strong></a>.</p><p><strong>Polyps culture media</strong> is reported in <a href='https://www.ebi.ac.uk/metabolights/MTBLS9419' rel='noopener noreferrer' target='_blank'><strong>MTBLS9419</strong></a>.</p>
2024-06-03 | MTBLS9409 | MetaboLights
Project description:<p>Symbiotic microorganisms play an important role in the growth and development of marine invertebrates, such as the sea moon, affecting their metamorphosis process. The outbreak of jellyfish puts pressure on marine ecosystems and affects their stability. However, researches on the development of jellyfish are still fewer, the use of biological control of jellyfish disaster is still in the theoretical stage, and the inhibition mechanism of microorganisms on jellyfish remains to be revealed. We isolated a strain of <em>Bacillus paramycoides</em> SG15 from rhizosphere sediments of seagrass <em>Zostera japonica</em>, and found that this strain could inhibit the asexual reproduction of jellyfish <em>Aurelia coerulea</em> polyp larva. Through co-culture experiments, we used transcriptomics, metabolomics and fluorescence in situ hybridization techniques, combined with the genome and metabolome of SG15, and found that this isolate could inhibit the asexual reproduction rate of the larva polyp by inhibiting the absorption of vitamins, and the endoderm cells were the most important action site of SG15. Although there are relatively high concentrations of vitamins and their derivatives in the surrounding environment, the transport of hydra is reduced, and most vitamins cannot be synthesized in the polys as well, thus affecting the growth and reproduction of polyps. Our study, analyzed the interaction processes between Bacillus and polyps and revealed the inhibiting mechanism of the polyp asexual reproduction by <em>B. paramycoides</em> SG15, which laid a theoretical foundation for the subsequent analysis of interactions between jellyfish and microorganisms, bring materials for the biological control of jellyfish disasters.</p><p><br></p><p><strong>Polyps culture media</strong> is reported in the current study <a href='https://www.ebi.ac.uk/metabolights/MTBLS9419' rel='noopener noreferrer' target='_blank'><strong>MTBLS9419</strong></a>.</p><p><strong>Polyps whole organism</strong> is reported in <a href='https://www.ebi.ac.uk/metabolights/MTBLS9409' rel='noopener noreferrer' target='_blank'><strong>MTBLS9409</strong></a>.</p>
2024-06-03 | MTBLS9419 | MetaboLights
Project description:The preferential localization of some neoplasms, such as serrated polyps, in specific areas of the intestine suggests that non-genetic factors may be important for their development. To test this hypothesis, we took advantage of transgenic mice that expressed HB-EGF throughout the intestine, but develop serrated polyps only in the cecum. Here we show that a host-specific microbiome was associated with serrated polyps, and that alterations of the microbiota induced by antibiotic treatment or by embryo-transfer rederivation markedly inhibited the formation of serrated polyps in the cecum. Mechanistically, development of serrated polyps was associated with a local decrease in epithelial barrier-function, bacterial invasion, production of antimicrobials, and increased expression of several inflammatory factors such as IL-17, Cxcl2, Tnf-M-NM-1, and IL-1. Increased number of neutrophils were found within the serrated polyps, and their depletion significantly reduced polyp growth. Together these results indicate that non-genetic factors contribute to the development of serrated polyps and suggest that the development of these intestinal neoplasms in the cecum is driven by the interplay between genetic changes in the host, an inflammatory response, and a host-specific microbiota. Paired design; Surrounding and SP samples were obtained from the same mouse (n=3; mouse 1, 2, 3)
2014-02-12 | E-GEOD-47734 | biostudies-arrayexpress
Project description:The preferential localization of some neoplasms, such as serrated polyps, in specific areas of the intestine suggests that non-genetic factors may be important for their development. To test this hypothesis, we took advantage of transgenic mice that expressed HB-EGF throughout the intestine, but develop serrated polyps only in the cecum. Here we show that a host-specific microbiome was associated with serrated polyps, and that alterations of the microbiota induced by antibiotic treatment or by embryo-transfer rederivation markedly inhibited the formation of serrated polyps in the cecum. Mechanistically, development of serrated polyps was associated with a local decrease in epithelial barrier-function, bacterial invasion, production of antimicrobials, and increased expression of several inflammatory factors such as IL-17, Cxcl2, Tnf-α, and IL-1. Increased number of neutrophils were found within the serrated polyps, and their depletion significantly reduced polyp growth. Together these results indicate that non-genetic factors contribute to the development of serrated polyps and suggest that the development of these intestinal neoplasms in the cecum is driven by the interplay between genetic changes in the host, an inflammatory response, and a host-specific microbiota.
2014-02-12 | GSE47735 | GEO
Project description:The preferential localization of some neoplasms, such as serrated polyps, in specific areas of the intestine suggests that non-genetic factors may be important for their development. To test this hypothesis, we took advantage of transgenic mice that expressed HB-EGF throughout the intestine, but develop serrated polyps only in the cecum. Here we show that a host-specific microbiome was associated with serrated polyps, and that alterations of the microbiota induced by antibiotic treatment or by embryo-transfer rederivation markedly inhibited the formation of serrated polyps in the cecum. Mechanistically, development of serrated polyps was associated with a local decrease in epithelial barrier-function, bacterial invasion, production of antimicrobials, and increased expression of several inflammatory factors such as IL-17, Cxcl2, Tnf-α, and IL-1. Increased number of neutrophils were found within the serrated polyps, and their depletion significantly reduced polyp growth. Together these results indicate that non-genetic factors contribute to the development of serrated polyps and suggest that the development of these intestinal neoplasms in the cecum is driven by the interplay between genetic changes in the host, an inflammatory response, and a host-specific microbiota.
2014-02-12 | GSE47734 | GEO