Microbiota composition from fecal samples of low-weight preterm neonates
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ABSTRACT:
PROVIDER: PRJNA510235 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR8476260_1.fastq.gz | Fastqsanger.gz | |||
| SRR8476260_2.fastq.gz | Fastqsanger.gz | |||
| SRR8476270_1.fastq.gz | Fastqsanger.gz | |||
| SRR8476270_2.fastq.gz | Fastqsanger.gz | |||
| SRR8476350_1.fastq.gz | Fastqsanger.gz |
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Project description:Microbiota composition from fecal samples of low-weight preterm neonates
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Project description:Intestinal microbiota colonization is important for intestinal development and health of preterm infants, especially those with extremely low birth weight. Recent studies indicated for a dynamic crosstalk between that gut microbiota and DNA methylome of host intestinal cells. Thereby, we sought to determine the epigenomic and metagenomic consequences of suppression of microbiota colonization in the intestine of preterm neonates to gain insights into biological pathways that shape the interface between the gut microbiota and the preterm intestinal cells. We examined 14 preterm piglets by comparing the conventional preterm neonates with those ones treated with oral antibiotics for genome wide DNA methylation and 16S rDNA microbiome. Our results demonstrated an extensive genome-wide DNA methylation changes in response to the suppression of intestinal microbe colonization, especially genes involved in neonatal immune response signaling and glycol-metabolism pathways were identified. Our study highlights several key genes that might predispose preterm neonates to NEC risk due to their key roles involved in the immune-metabolic networks. Our study not only provided rich omic-data to interpret molecular program in relation with microbiota-associated methylome-proteome network changes, but also confer clinical usage of key gene markers for potential early diagnostics of NEC of preterm neonates.
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Project description:Delivery of the baby before 37 weeks of completed gestation is deemed to be preterm birth. Admission of these preterm infants to the conventional neonatal intensive care unit (NICU) to manage their fragile physiology also tends to cause considerable stress that impedes the baby’s normal development. A recent innovation in neonatal care is the mother-neonatal ICU (MNICU), where the mother is not a mere visitor but has her bed inside the MNICU by the baby’s side. This study enrolled 200 low birth weight preterm babies (gestational age 28-37 weeks; weight 0.800–1.8 kg) randomized to MNICU & NICU. Saliva was collected from the 200 preterm neonates at the time of admission and discharge. We measured cortisol levels in the saliva of these samples, as the hormone is an established biomarker for stress. Salivary proteomics was also performed on 12 pairs of salivary samples chosen on basis of significant growth and development of these neonates. To study the differential proteome signature in these conditions MS-based data independent acquisition identified and quantified 342 and 308 protein groups, respectively. Differential protein analysis of these proteins revealed 41 differentially expressed proteins (DEPs). Pathway enrichment of unique DEPs in MNICU vs NICU comparison revealed improvement in immunity and metabolism-associated pathways at discharge. Quantitative analysis of the standard proteins from arrival and discharge groups revealed differential expression of these proteins. In differential expression analysis, we identified 28 upregulated and 16 downregulated proteins in neonates admitted to MNICU compared to NICU. A similar analysis for neonates at discharge identified 22 upregulated and 19 downregulated proteins. Further pathway enrichment of differential proteins unique to each group; 22 DEPs were present only in the arrival group, and 19 were in the discharge group. The data show a marked, statistically significant improvement in the overall well-being of preterm children admitted to MNICU and provided KMC compared to the NICU group. Thus, our study provides evidence in favor of easily available, cost-effective care that can make huge difference in the outcome of preterm neonates, particularly in low-income settings.
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Project description:Bronchopulmonary dysplasia (BPD) is a lung disease in premature infants characterized by impaired pulmonary development which persists into later life. While advances in neonatal care have improved survival rates of premature infants, cases of BPD haves been increased. Therapeutic options are limited for prevention and treatment. This study was designed to explore the relationship between gestational age (GA), birth weight and estímate blood cell-type composition in premature infants and to elucidate early epigenetic biomarkers associated with BPD. Cord blood DNA from preterm neonates that went on to develop BPD (n = 14) or not (nonBPD, n = 93) was applied to Illumina 450K methylation arrays. Using DNA methylation analysis of cord blood DNA, we investigated association of GA and birth weight with the estimated distribution of cord blood cell types, particularly the nucleated red blood cell (NRBC) in a pilot-size cohort of preterm infants with or without BPD. We describe changes in methylation-based estimates of blood cell-type composition in relation to GA and birth weight. After adjusting for covariates (GA, birth weight, cell type proportions, etc.) we identify differentially methylated CpGs and genes associated with BPD.
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