Subgingival Microbiota during Healthy Pregnancy and Pregnancy Gingivitis/Experiment 4

Needs review

Curated date: 2021/07/07

Curator: Tislam

Revision editor(s): WikiWorks, LGeistlinger, Tislam, Victoria

Host species Species from which microbiome was sampled. Contact us to have more species added.: Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology: Subgingival dental plaque Subgingival plaque,Subgingival dental plaque,subgingival dental plaque

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Pregnancy Gestation,PREGN,Pregnancies,Pregnancy,pregnancy

Group 0 name Corresponds to the control (unexposed) group for case-control studies: non pregnant women

Group 1 name Corresponds to the case (exposed) group for case-control studies: pregnant women

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: pregnant women

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): 6 months

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: V4

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Illumina

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).: relative abundances

Significance threshold p-value or FDR threshold used for differential abundance testing (if any): .05

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?: Yes

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool: 2

Shannon Estimator of species richness and species evenness: more weight on species richness: increased

Inverse Simpson Modification of Simpsons index D as 1/D to obtain high values in datasets of high diversity and vice versa: decreased

Needs review

Curated date: 2021/07/07

Curator: Tislam

Revision editor(s): Tislam

Source: Figure 3, text

Description: Linear discriminant analysis effect size. pregnant women without gingivitis versus nonpregnant women without gingivitis

Abundance in Group 1: increased abundance in pregnant women

NCBI	Quality Control	Links
Actinomyces graevenitzii
Alloprevotella sp.
Alloprevotella tannerae
Bergeyella
Campylobacter
Capnocytophaga haemolytica
Fretibacterium fastidiosum
Fretibacterium sp.
Fusobacterium periodonticum
Pseudoleptotrichia goodfellowii D28
Leptotrichia shahii
Leptotrichia sp.
Megasphaera micronuciformis
Metamycoplasma faucium
Oribacterium
Peptostreptococcus
Porphyromonas gingivalis
Segatella baroniae
Prevotella dentalis
Prevotella denticola
Prevotella melaninogenica
Prevotella micans
Prevotella sp.
Scardovia wiggsiae
Selenomonas sp.
Selenomonas sputigena
Tannerella forsythia
Treponema denticola
Treponema sp.
Veillonella parvula
Veillonella sp.
[Eubacterium] saphenum