Bovine gut metagenome
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1207998 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:The nasopharyngeal microbiota of healthy cattle vs. cattle diagnosed with BRD in a commercial feedlot setting was compared using a high-density 16S rRNA microarray (Phylochip). Nasopharyngeal samples were taken from both groups of animals (n=5) at feedlot entry (day 0) and >60 days later.
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Project description:Fecal Samples from feedlot cattle with hemorrhagic distal colitis
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Project description:A phylogenetic microarray targeting 66 families described in the human gut microbiota has been developped aud used to monitor the gut microbiota's structure and diversity. The microarray format provided by Agilent and used in this study is 8x15K. A study with a total of 4 chips was realized. Arrays 1 and 2: Hybridization with 100ng of labelled 16S rRNA gene amplicons from a mock community sample and 250ng of labelled 16S rRNA gene amplicons from 1 faecal sample. Each Agilent-030618 array probe (4441) was synthetized in three replicates. Arrays 3 and 4: Hybridization with 250ng of labelled 16S rRNA gene amplicons from 2 faecal samples. Each Agilent-40558 array probe (4441) was synthetized in three replicates.
2013-03-01 | E-GEOD-44752 | biostudies-arrayexpress
Project description:We profiled blood transcriptomics of 24 beef steers at three important stages (Entry: on arrival at the feedlot; Pulled: when sickness is identified; and Close-out: recovered, healthy cattle at shipping to slaughter) to reveal the key biological functions and regulatory factors of BRD and identify gene markers of BRD for early diagnosis and potentially use in selection.
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Project description:To explore the effects of gut microbiota of young (8 weeks) or old mice (18～20 months) on stroke, feces of young (Y1-Y9) and old mice (O6-O16) were collected and analyzed by 16s rRNA sequencing. Then stroke model was established on young mouse receive feces from old mouse (DOT1-15) and young mouse receive feces from young mouse (DYT1-15). 16s rRNA sequencing were also performed for those young mice received feces from young and old mice.
2021-10-15 | E-MTAB-10837 | biostudies-arrayexpress
Project description:Purpose: The aims of this study were to profile miRNAs throughout the GIT during the early life of dairy calves and to investigate their potential regulatory roles in the development of bovine GIT. Results: The expression of miR-143 was abundant in all three gut regions and under all the time points and it targets genes involved primarily in the proliferation of connective tissue cells and muscle cells, suggesting its association with rapid tissue development during the early life of calves. The expression of miR-10, miR-146, miR-191, miR-33, miR-7, miR-96, miR-99/100, miR-486, miR-145, and miR-211 displayed significant temporal differences (FDR < 0.05), while miR-192/215, miR-194, miR-196,miR-205 and miR-31 revealed significant regional differences (FDR<0.05) throughout the GIT. Expression levels of miR-15/16, miR-29 and miR-196 were positively correlated with copy numbers of 16S rRNA gene of Bifidobacterium or Lactobacillus species or both of them (P < 0.05). Functional analysis using Ingenuity Pathway Analysis identified above mentioned differentially expressed miRNAs as potential regulators of gut tissue cells proliferation and differentiation, and bacterial density-associated miRNAs as modulators of development of lymphoid tissues (miR-196), maturation of dendritic cells (miR-29) and development of immune cells (miR-15/16). Conclusion: This present study revealed temporal and regional changes in miRNA expression, correlation between miRNA expression and microbial population during early life suggest their potential roles in host-microbial interactions during the gut development.
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Project description:2013 Summer Nebraska Cattle Fecal 16S Raw sequence reads
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Project description:To determine microbiota composition associated with loss of KDM5 in intestine, we carried out 16S rRNA seq analyses of dissected intestine from wildtype and kdm5 mutant. [GSM2628181-GSM2628190]. A total of 78 operational taxonomic units (OTUs) were identified in the sequence data. There were about 15 genera much less abundant in kdm5 mutant compared to wildtype. The kdm5 mutant were sensitive to pathogen. To confirm the microbiota associated with loss of KDM5 in intestine, 16S rRNA of new flies were sequenced and analyzed by Majorbio Bio-Pharm Technology Co. Ltd. (Shanghai, China) [GSM3243472-GSM3243481]. A total of 107 operational taxonomic units (OTUs) were identified in the sequence data. There were about 20 genera much less abundant in kdm5 mutant compared to wildtype. To confirm the microbiota associated with loss of KDM5 drosophila feeding with Lactobacillus plantarum, 16S rRNA of kdm5 mutant flies were sequenced and analyzed by Novogene Bioinformatics Technology Co., Ltd. (Tianjin, China) [GSM3263522-GSM3263527]. A total of 92 operational taxonomic units (OTUs) were identified in the sequence data. To confirm the microbiota associated with KDM5 knockdown in intestine, 16S rRNA of Myo1A-Gal4TS/+ and Myo1A-Gal4TS/+;+/kdm5RNAi flies were sequenced and analyzed by Biomarker Co. Ltd. (Beijing, China). [GSM3507915-GSM3507924]. A total of 50 operational taxonomic units (OTUs) were identified in the sequence data. There was a significant different based on the genus level between two groups.
2019-02-08 | GSE98944 | GEO