Characterization of microbial communities in the chicken oviduct and the origin of chicken embryo gut microbiota

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Reviewed Marked as Reviewed by Folakunmi on 2024-4-12
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
Authors
Lee S, La TM, Lee HJ, Choi IS, Song CS, Park SY, Lee JB, Lee SW
Journal
Scientific reports
Year
2019
The transferred microbiota from mother to baby constitutes the initial infant gastrointestinal microbiota and has an important influence on the development and health of infants in human. However, the reproductive tract microbiota of avian species and its inheritance have rarely been studied. We aimed to characterize the microbial community in the chicken reproductive tract and determine the origin of the chicken embryo gut microbiota. Microbiota in four different portions of chicken oviduct were determined using 16S rRNA metagenomic approach with the IonTorrent platform. Additionally, we analyzed the mother hen's magnum and cloaca, descendent egg, and embryo gut microbiota. The microbial composition and relative abundance of bacterial genera were stable throughout the entire chicken reproductive tract, without significant differences between the different parts of the oviduct. The chicken reproductive tract showed a relatively high abundance of Lactobacillus species. The number of bacterial species in the chicken reproductive tract significantly increased following sexual maturation. Core genera analysis detected 21 of common genera in the maternal magnum and cloaca, descendent egg shell, egg white, and embryo gut. Some elements of the maternal oviduct microbiota appear to be transferred to the embryo through the egg white and constitute most of the embryo gut bacterial population.

Experiment 1


Reviewed Marked as Reviewed by Folakunmi on 2024-4-12

Curated date: 2024/03/08

Curator: KwennB

Revision editor(s): KwennB, Rahila, Folakunmi

Subjects

Location of subjects
South Korea
Host species Species from which microbiome was sampled. Contact us to have more species added.
Gallus gallus
Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
Oviduct Female reproductive tracts,Ovarian duct,Ovarian tube,Oviducts,Tuba uterina,Tuba uterinae,Tubular parts of female reproductive system,Uterine tube,Oviduct,oviduct
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Developmental stage development stage,developmental_stage,life cycle stage,Developmental stage,developmental stage
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Immature hen magnum sample (23 weeks-old)
Group 1 name Corresponds to the case (exposed) group for case-control studies
Mature hen magnum sample
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Magnum samples of 34 weeks-old laying SPF hens
Group 0 sample size Number of subjects in the control (unexposed) group
8
Group 1 sample size Number of subjects in the case (exposed) group
16

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V2-V9
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
Ion Torrent

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
centered log-ratio
Statistical test
ANCOM
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.05

Alpha Diversity

Shannon Estimator of species richness and species evenness: more weight on species richness
increased
Faith Phylogenetic diversity, takes into account phylogenetic distance of all taxa identified in a sample
increased

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-4-12

Curated date: 2024/03/11

Curator: KwennB

Revision editor(s): Folakunmi, Ayibatari, Rahila, KwennB

Source: Figure 2.

Description: ANCOM differential abundance mature and immature hen magnum groups.

Abundance in Group 1: increased abundance in Mature hen magnum sample

NCBI Quality ControlLinks
Flavobacterium
Megamonas

Revision editor(s): Folakunmi, Ayibatari, Rahila, KwennB

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-4-12

Curated date: 2024/03/13

Curator: KwennB

Revision editor(s): Folakunmi, Ayibatari, Rahila, KwennB

Source: Figure 2.

Description: ANCOM differential abundance between the mature and immature hen magnum groups.

Abundance in Group 1: decreased abundance in Mature hen magnum sample

NCBI Quality ControlLinks
Bradyrhizobium
unclassified Bradyrhizobiaceae
unclassified Nocardiaceae
Unclassified 0319-6G20Unclassified 0319-6G20

Revision editor(s): Folakunmi, Ayibatari, Rahila, KwennB