Large-scale metagenomic analysis of oral microbiomes reveals markers for autism spectrum disorders/Experiment 6

From BugSigDB


Reviewed Marked as Reviewed by Svetlana up on 2025-1-2

Curated date: 2024/11/14

Curator: KateRasheed

Revision editor(s): KateRasheed, WikiWorks

Subjects

Location of subjects
United States of America
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
Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva,saliva
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Cognitive function measurement Cognitive function measurement,cognitive function measurement
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Lower Social Communication Questionnaire (Low SCQ) scale scale
Group 1 name Corresponds to the case (exposed) group for case-control studies
Upper Social Communication Questionnaire (Upper SCQ) scale
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Upper Social Communication Questionnaire (SCQ) scale is an ASD screening measures used to explore phenotypic aspects capable of explaining the observed differences in cognitive abilities. It reads greater than 95 interval.

Lab analysis

Sequencing type
WMS
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
Not specified
Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
Illumina

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
centered log-ratio
Statistical test
Linear Regression
Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
0.005
MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
Yes
Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
age, sex


Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2025-1-2

Curated date: 2024/11/14

Curator: KateRasheed

Revision editor(s): KateRasheed, WikiWorks

Source: Supplementary Data 11

Description: Differentially abundant taxa in oral samples between Autism Spectrum Disorders children with Lower SCQ and Upper SCQ scale

Abundance in Group 1: increased abundance in Upper Social Communication Questionnaire (Upper SCQ) scale

NCBI Quality ControlLinks
Streptococcus gordonii
Porphyromonas sp. oral taxon 278
Leptotrichia buccalis
Bacteroidetes oral taxon 274
Scardovia wiggsiae
Leptotrichia sp. oral taxon 498
Capnocytophaga granulosa
Actinomyces sp. oral taxon 414
Catonella morbi
Treponema denticola
Segatella maculosa
Arachnia propionica
Corynebacterium matruchotii
Hoylesella saccharolytica
Actinomyces massiliensis
Bulleidia extructa
Campylobacter gracilis
Leptotrichia sp. oral taxon 225
Leptotrichia sp. oral taxon 879
Haemophilus haemolyticus
Leptotrichia hofstadii
Actinomyces oris
Veillonella parvula
Streptococcus mitis

Revision editor(s): KateRasheed, WikiWorks

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2025-1-2

Curated date: 2024/11/14

Curator: KateRasheed

Revision editor(s): KateRasheed, WikiWorks

Source: Supplementary Data 11

Description: Differentially abundant taxa in oral samples between Autism Spectrum Disorders children with Lower SCQ and Upper SCQ scale

Abundance in Group 1: decreased abundance in Upper Social Communication Questionnaire (Upper SCQ) scale

NCBI Quality ControlLinks
Achromobacter sp. AONIH1
Acidaminococcus intestini
Acidovorax temperans
Actinomyces graevenitzii
Actinomyces sp. ICM47
Actinomyces sp. S6-Spd3
Aerococcus christensenii
Agrobacterium pusense
Alistipes onderdonkii
Anaerotruncus colihominis
Aspergillus versicolor
Bacteroides eggerthii
Bacteroides galacturonicus
Bacteroides salyersiae
Bacteroides sp. CAG:144
Bacteroides zoogleoformans
Bifidobacterium angulatum
Bifidobacterium pseudolongum
Bifidobacterium ruminantium
Blautia hansenii
Blautia producta
Bowdeniella nasicola
Campylobacter concisus
Capnocytophaga canimorsus
Caulobacter vibrioides
Christensenella minuta
Chryseobacterium gleum
Citrobacter freundii
Citrobacter youngae
Clostridium neonatale
Clostridium perfringens
Clostridium sp. CAG:253
Comamonas thiooxydans
Corynebacterium ammoniagenes
Corynebacterium resistens
Corynebacterium striatum
Cronobacter sakazakii
Curtobacterium flaccumfaciens
Desulfovibrio fairfieldensis
Desulfovibrionaceae bacterium
Dickeya chrysanthemi
Enterobacter bugandensis
Enterobacter soli
Enterococcus hirae
Enterococcus saccharolyticus
Erwinia billingiae
Eshraghiella crossota
Eubacterium ventriosum
Flavobacterium anhuiense
Fusobacterium mortiferum
Fusobacterium varium
Hafnia alvei
Jonquetella anthropi
Klebsiella aerogenes
Lactiplantibacillus paraplantarum
Lactiplantibacillus pentosus
Lactobacillus amylovorus
Lactobacillus equicursoris
Lactococcus garvieae
Lactococcus petauri
Lancefieldella parvula
Ligilactobacillus aviarius
Ligilactobacillus ruminis
Limosilactobacillus antri
Limosilactobacillus coleohominis
Limosilactobacillus panis
Liquorilactobacillus nagelii
Lysinibacillus fusiformis
Megasphaera elsdenii
Megasphaera micronuciformis
Metamycoplasma hominis
Microbacterium oleivorans
Mobiluncus curtisii
Mobiluncus mulieris
Mogibacterium diversum
Mycoplasmopsis agalactiae
Oribacterium asaccharolyticum
Oribacterium parvum
Oribacterium sinus
Ornithinimicrobium pekingense
Paenibacillus odorifer
Parasutterella excrementihominis
Pasteurella dagmatis
Peptoniphilus grossensis
Phocaeicola coprocola
Porphyromonas cangingivalis
Porphyromonas circumdentaria
Porphyromonas crevioricanis
Prevotella melaninogenica
Prevotella pallens
Priestia flexa
Priestia megaterium
Proteus mirabilis
Roseateles puraquae
Rothia mucilaginosa
Ruminococcus champanellensis
Segatella salivae
Shouchella clausii
Sphingobacterium sp. B29
Stenotrophomonas acidaminiphila
Streptococcus gallolyticus
Streptococcus parauberis
Streptococcus pasteurianus
Streptococcus troglodytae
Streptococcus uberis
Tissierellia bacterium KA00581
Turicibacter sanguinis
Ureaplasma urealyticum
Veillonella dispar
Veillonella infantium
Veillonella montpellierensis
Xanthomonas arboricola
Xanthomonas translucens
Yersinia frederiksenii
Yersinia intermedia
[Clostridium] scindens
[Collinsella] massiliensis
[Eubacterium] sulci
Jeotgalicoccus sp.
Leifsonia sp. 71-9
Microbacterium laevaniformans
Exiguobacterium sp. RIT594
Malassezia sympodialis
Acidipropionibacterium acidipropionici
Pseudomonas sp. NS1(2017)
Ewingella americana
Pseudomonas gingeri
Pantoea allii
Suttonella indologenes
Corynebacterium singulare
Pseudomonas yamanorum
Achromobacter piechaudii
Ralstonia mannitolilytica
Sphingomonas koreensis
Bacillus sp. AFS040349
Xanthomonas hortorum
Alphaproteobacteria bacterium HGW-Alphaproteobacteria-17
Microbacterium sp. SMR1
Tetragenococcus muriaticus
Apilactobacillus kunkeei
Sphingomonadales bacterium RIFCSPHIGHO2_01_FULL_65_20
Sodalis praecaptivus
Duganella phyllosphaerae
Cytobacillus horneckiae
Burkholderia gladioli
Pseudomonas sp. HMWF006
Hyphomonas atlantica
Xanthomonas sacchari
Sphingomonas sanguinis
Methylobacterium phyllosphaerae
Gluconobacter frateurii
Fervidobacterium pennivorans
Corynebacterium pollutisoli
Jeotgalibaca sp. PTS2502
Pseudomonas granadensis
Paenibacillus nuruki
Kingella negevensis
Tepidimonas fonticaldi
Parageobacillus thermoglucosidasius
Deinococcus reticulitermitis
Chishuiella changwenlii
Agrobacterium salinitolerans
Mycoplasmopsis canis
Canicola haemoglobinophilus
Deinococcus proteolyticus
Rodentibacter caecimuris
Streptococcus hongkongensis
Aeriscardovia aeriphila
Pantoea sp. AS-PWVM4
Moraxella pluranimalium
Pseudomonas lurida
Stenotrophomonas indicatrix
Companilactobacillus futsaii
Jeotgalicoccus aerolatus
Winkia neuii
Mycobacterium avium
Hafnia paralvei
Brevibacterium iodinum
Liquorilactobacillus mali
Pseudomonas sp. OV508
Rouxiella silvae
Pseudomonas sp. 2822_17
Weissella soli
Weissella hellenica
Weissella paramesenteroides
Microbacterium hominis
Geobacillus kaustophilus
Geobacillus thermoleovorans
Geobacillus thermocatenulatus
Chryseobacterium scophthalmum
Pyramidobacter sp. C12-8
Acetobacter orientalis
Pseudomonas cerasi
Bosea vaviloviae
Sphingomonas ginsenosidimutans
Klebsiella grimontii
Lentilactobacillus parabuchneri
Macrococcoides bohemicum
Pseudomonas sp. Choline-02u-1
Pseudomonas chlororaphis
Serratia proteamaculans
Megasphaera sp. DISK 18
Herbaspirillum frisingense
Sphingobacterium nematocida
Microbacterium paraoxydans
Glutamicibacter sp.
Chryseobacterium balustinum
Pseudomonas soli
Kluyvera intermedia
Lactobacillus amylolyticus
Neisseria zoodegmatis
Arthrobacter pityocampae
Rahnella sikkimica
Ligilactobacillus saerimneri
Hyalangium minutum
Pantoea latae
Duganella sp. Leaf61
Corynebacterium freneyi
Bacillus safensis
Pediococcus sp.
Pediococcus parvulus
Secundilactobacillus collinoides
Pediococcus ethanolidurans
Lentilactobacillus parafarraginis
Lentilactobacillus rapi
Bacillus haynesii
Microbacterium sp. Leaf151
Photobacterium phosphoreum
Staphylococcus devriesei
Alteromonas macleodii
Stenotrophomonas sp. SPM
Siccibacter turicensis
Sanguibacter sp. Leaf3
Enterobacter sp. kpr-6
Neorhizobium sp. SOG26
Criibacterium bergeronii
Lysobacter enzymogenes
Actinomyces gaoshouyii
Xanthomonas euvesicatoria
Xanthomonas citri
Schleiferilactobacillus harbinensis
Shouchella rhizosphaerae
Aspergillus glaucus
Malassezia pachydermatis
Epilithonimonas hispanica
Blattabacterium punctulatus
Alcaligenes aquatilis
Helcococcus kunzii
Corynebacterium glaucum
Eremococcus coleocola
Tanticharoenia sakaeratensis
Gluconobacter albidus
Pandoraea pnomenusa
Rickettsia bellii
Pseudonocardia autotrophica
Bifidobacterium moukalabense
Lactobacillus hominis
Serratia sp. Leaf51
Tetzosporium hominis
Companilactobacillus alimentarius
Tersicoccus sp. Bi-70
Dickeya dadantii
Pseudorhodobacter sp. MZDSW-24AT
Flavobacterium aquidurense
Companilactobacillus crustorum
Fructilactobacillus fructivorans
Arcanobacterium haemolyticum
Bordetella bronchiseptica
Schaalia radingae
Serratia grimesii
Janthinobacterium lividum
Corynebacterium vitaeruminis
Cupriavidus sp.
Gulbenkiania indica
Chryseobacterium gambrini
Pseudomonas syringae group
Staphylococcus condimenti
Aster yellows witches'-broom phytoplasma
Onion yellows phytoplasma
Serratia ficaria
Dietzia timorensis
Sphingopyxis terrae
Dialister sp. CAG:357
Acetobacter senegalensis
Achromobacter ruhlandii
Alicyclobacillus acidocaldarius
Limosilactobacillus frumenti
Peribacillus simplex
Clostridium tyrobutyricum
Yersinia ruckeri
Brachybacterium sp. UMB0905
Blastomonas sp.
Novosphingobium sp. AAP93
Rahnella sp. AA
Rickettsia asembonensis
Rickettsia hoogstraalii
Rickettsia canadensis
Acinetobacter genomosp. 15BJ
Acinetobacter_sp_CIP_110321Acinetobacter_sp_CIP_110321
Acinetobacter proteolyticus
Clavibacter cf. michiganensis LMG 26808
Acetobacter syzygii
Cobetia marina
Deinococcus sp. RL
Bavariicoccus seileri
Veillonella seminalis
Paucilactobacillus wasatchensis
Secundilactobacillus malefermentans
Solilutibacter tolerans
Peptoniphilus sp. oral taxon 386
Carnobacterium inhibens
Exiguobacterium indicum
Fulvimonas soli
Nocardia nova
Truepera radiovictrix
Thermus arciformis
[Eubacterium] minutum
Candidatus Erwinia dacicola
Ciceribacter selenitireducens
Campylobacter upsaliensis
Microbacterium sp. AR7-10
Pseudomonas sp. URMO17WK12:I2
Aliarcobacter butzleri
Acidovorax sp. MR-S7
Pseudomonas grimontii
Pseudomonas sp. 57B-090624
Brevibacillus parabrevis
Brucella lupini
Brucella haematophila
Pseudomonas kuykendallii
Actinobaculum massiliense
Metapseudomonas otitidis
Burkholderiales bacterium RIFCSPHIGHO2_01_FULL_63_240
Pseudoalteromonas nigrifaciens
Rouxiella badensis
Actinotignum urinale
Psychrobacter immobilis
Shewanella baltica
Erwinia persicina
Aureimonas altamirensis
Agrobacterium deltaense
Paenibacillus pasadenensis
Enterobacter sp. FS01
Actinotignum timonense
Kosakonia oryzae
Roseateles terrae
Atlantibacter hermannii
Paenirhodobacter enshiensis
Limnospira maxima
Leuconostoc suionicum
Pseudolactococcus chungangensis
Mycobacterium lepraemurium
Porphyromonas gingivicanis
Achromobacter denitrificans
Escherichia sp. ESNIH1
Helicobacter canis
Mycolicibacterium llatzerense
Deinococcus geothermalis
Acinetobacter brisouii
Paraburkholderia tropica
Latilactobacillus fuchuensis
Lentilactobacillus farraginis
Acinetobacter bereziniae

Revision editor(s): KateRasheed, WikiWorks