SAMN29927163
External Id
Prince of Songkla University
INSDC center name
2023-08-31T00:51:54.163Z
INSDC first public
2023-08-31T00:51:54.163Z
INSDC last update
live
INSDC status
Metagenome or environmental
NCBI submission model
Metagenome.environmental.1.0
NCBI submission package
ERS16746385
SRA accession
2018-07-01/2020-06-30
collection_date
Background: Several studies have focused on the clinical outcomes of oral care using colostrum for a limited time in very-low-birthweight infants. However, there is a knowledge gap regarding the effect of long-term maternal own milk on the oral microbiota and clinical outcomes. Methods: In this open randomized controlled trial, very-low-birthweight neonates were randomly assigned to oral care by maternal own milk or sterile water groups until they achieved independent oral feeding. The alterations in the oral microbiota and clinical outcomes were observed. Microbiota profiling was performed using Illumina 16s rRNA targeted sequencing. Alpha and beta diversity, relative abundance, and linear discriminant analysis effect size were compared between groups.
description
oral biome
env_broad_scale
oral cavity
env_local_scale
saliva
env_medium
Thailand: Songkhla
geo_loc_name
"Homo sapiens"
host
oral secretion samples were collected and stabilized using the Oragene DNA kit. Salivary DNA extraction was performed using Zymobiomics.
isol_growth_condt
7.00653742 N 100.49508470 E
lat_lon
The 16S rRNA gene amplicon libraries were prepared through PCR amplification of an approximately 550 bp region within the hypervariable region of the 16S rRNA gene, from 5 ng of each of the extracted and purified DNA from rumen tissue, for Illumina 16S metagenomic sequencing. PCR was initially performed using 16S rRNA primers F515 and R806 using HiFi HotStart 2 ReadyMixDNA polymerase. The libraries were purified using AMPure XP beads. Dual indices and Illumina sequencing adapters from the Illumina Nextera XT index kit v2 were added to the target amplicons in the second PCR step.
num_replicons
human oral metagenome
http://purl.obolibrary.org/obo/NCBITaxon_447426
organism
Libraries were measured using a DeNovix fluorometer (Wilmington, USA). The amplicon libraries were combined at equal concentrations with single-pool DNA. All sequencing data produced in this study were analyzed using the MiSeq Reporter software.
ref_biomaterial
microbial name
strain
Oral microbiota from PSU
title