Multi-angle meta-analysis of the gut microbiome in Autism Spectrum Disorder: a step toward understanding patient subgroups/Experiment 2

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Curated date: 2023/11/13

Curator: Chinelsy

Revision editor(s): WikiWorks, Chinelsy, Anne-mariesharp, Ese

Subjects

Location of subjects

Canada

China

India

Italy

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

Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology

Autism spectrum disorder atypical autism,autism spectrum disease,autism spectrum disorder,Autism Spectrum Disorders,autistic spectrum disorder,CHILD DEVELOPMENT DIS PERVASIVE,Child Development Disorders, Pervasive,Development Disorder, Pervasive,Development Disorders, Pervasive,Disorder, Autism Spectrum,Disorder, Pervasive Development,Disorders, Autism Spectrum,Disorders, Pervasive Development,PDD,PERVASIVE CHILD DEVELOPMENT DIS,Pervasive Child Development Disorders,Pervasive Development Disorder,Pervasive Development Disorders,pervasive developmental disorder - not otherwise specified,pervasive developmental disorders,Spectrum Disorder, Autism,Spectrum Disorders, Autism,Autism spectrum disorder

Group 0 name Corresponds to the control (unexposed) group for case-control studies

neurotypical (NT) children

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

autism spectrum disorder (ASD) children

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

Children diagnosed with Autism spectrum disorder (ASD) (all datasets pooled, no adjustment for bowel function, age, or sex).

Group 0 sample size Number of subjects in the control (unexposed) group

13

Group 1 sample size Number of subjects in the case (exposed) group

13

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).

raw counts

Statistical test

DESeq2

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

0.05

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

Yes

Alpha Diversity

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

unchanged

Chao1 Abundance-based estimator of species richness

unchanged

Simpson Estimator of species richness and species evenness: more weight on species evenness

unchanged

Signature 1

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Curated date: 2025/09/06

Curator: Ese

Revision editor(s): Ese

Source: Table S4

Description: Result of strain level meta-analysis comparing neurotypical (NT) children and Autism Spectrum Disorder (ASD) children (all datasets pooled, no adjustment for bowel function, age, or sex).

Abundance in Group 1: increased abundance in autism spectrum disorder (ASD) children

NCBI	Quality Control	Links
PROV_t_182732PROV_t_182732
Fusicatenibacter saccharivorans t_191580Fusicatenibacter saccharivorans t_191580
Bacteroides thetaiotaomicron t_251857Bacteroides thetaiotaomicron t_251857
Bacteroides uniformis t_188272Bacteroides uniformis t_188272
Klebsiella pneumoniae , PROV_t_170766 , PROV_t_171198 , PROV_t_175738 , PROV_t_176675 , PROV_t_177605 , PROV_t_191598 , PROV_t_193630 , PROV_t_195227 , PROV_t_195887 , PROV_t_207870 , PROV_t_210899 , PROV_t_212505 , PROV_t_212981 , PROV_t_215268 , PROV_t_218289 , PROV_t_218398 , PROV_t_222555 , PROV_t_224192 , PROV_t_229277 , PROV_t_231346 , PROV_t_232341 , PROV_t_239357 , PROV_t_240844 , PROV_t_246220 PROV_t_246220
Klebsiella variicola, Klebsiella pneumoniae, PROV_t_171275 , PROV_t_172315 , PROV_t_176885 , PROV_t_177205 , PROV_t_178011 , PROV_t_179121 , PROV_t_179181 , PROV_t_181425 , PROV_t_182471 , PROV_t_183434 , PROV_t_184967 , PROV_t_187568 , PROV_t_188246 , PROV_t_188652 , PROV_t_191213 , PROV_t_191924 , PROV_t_193608 , PROV_t_194179 , PROV_t_194520 , PROV_t_195578 , PROV_t_197092 , PROV_t_197107 , PROV_t_197173 , PROV_t_197364 , PROV_t_197368 , PROV_t_197625 , PROV_t_197758 , PROV_t_199915 , PROV_t_203064 , PROV_t_204867 , PROV_t_206008 , PROV_t_208279 , PROV_t_210657 , PROV_t_212641 , PROV_t_214080 , PROV_t_214226 , PROV_t_216051 , PROV_t_217733 , PROV_t_218322 , PROV_t_219038 , PROV_t_219173 , PROV_t_219278 , PROV_t_219622 , PROV_t_220514 , PROV_t_220624 , PROV_t_224116 , PROV_t_225717 , PROV_t_226431 , PROV_t_227333 , PROV_t_229481 , PROV_t_229548 , PROV_t_233199 , PROV_t_235141 , PROV_t_235432 , PROV_t_235671 , PROV_t_240272 , PROV_t_240989 , PROV_t_241844 , PROV_t_241926 , PROV_t_242711 , PROV_t_242861 , PROV_t_245016 , PROV_t_245359 , PROV_t_246966 , PROV_t_247711 PROV_t_247711
Pauljensenia sp. PROV_t_15779Pauljensenia sp. PROV_t_15779
Erysipelatoclostridium ramosum t_250147Erysipelatoclostridium ramosum t_250147
Faecalibacterium prausnitzii K t_196263Faecalibacterium prausnitzii K t_196263
Klebsiella pneumoniae , PROV_t_170147 , PROV_t_170568 , PROV_t_171328 , PROV_t_171397 , PROV_t_171473 , PROV_t_172312 , PROV_t_172400 , PROV_t_173452 , PROV_t_173648 , PROV_t_173701 , PROV_t_173704 , PROV_t_173981 , PROV_t_174130 , PROV_t_174133 , PROV_t_174365 , PROV_t_174549 , PROV_t_174563 , PROV_t_175125 , PROV_t_175921 , PROV_t_176871 , PROV_t_177908 , PROV_t_178529 , PROV_t_179285 , PROV_t_179654 , PROV_t_179988 , PROV_t_181000 , PROV_t_181168 , PROV_t_181658 , PROV_t_182240 , PROV_t_182358 , PROV_t_182826 , PROV_t_182912 , PROV_t_183052 , PROV_t_183062 , PROV_t_183149 , PROV_t_183320 , PROV_t_185041 , PROV_t_185674 , PROV_t_185708 , PROV_t_186214 , PROV_t_186649 , PROV_t_187013 , PROV_t_187145 , PROV_t_187172 , PROV_t_187985 , PROV_t_188364 , PROV_t_188530 , PROV_t_188545 , PROV_t_188848 , PROV_t_189631 , PROV_t_189648 , PROV_t_190660 , PROV_t_192243 , PROV_t_192598 , PROV_t_192860 , PROV_t_192904 , PROV_t_193674 , PROV_t_195080 , PROV_t_195356 , PROV_t_195414 , PROV_t_195530 , PROV_t_197090 , PROV_t_197094 , PROV_t_198143 , PROV_t_198227 , PROV_t_198913 , PROV_t_198991 , PROV_t_199036 , PROV_t_199059 , PROV_t_199531, PROV_t_199992 , PROV_t_201430 , PROV_t_201895 , PROV_t_202511 , PROV_t_203502, PROV_t_203854 , PROV_t_203887 , PROV_t_203928 , PROV_t_203984 , PROV_t_204310 , PROV_t_204664 , PROV_t_205970 , PROV_t_206558 , PROV_t_207392 , PROV_t_208478 , PROV_t_209507 , PROV_t_209630 , PROV_t_210211 , PROV_t_210720 , PROV_t_211380 , PROV_t_212127 , PROV_t_212311 , PROV_t_212883 , PROV_t_213227 , PROV_t_213966 , PROV_t_214228 , PROV_t_214501 , PROV_t_214698 , PROV_t_214726 , PROV_t_214785 , PROV_t_215081 , PROV_t_215142 , PROV_t_215182 , PROV_t_215277 , PROV_t_215651 , PROV_t_215865 , PROV_t_216558 , PROV_t_217525 , PROV_t_217754 , PROV_t_217879 , PROV_t_218012 , PROV_t_219069 , PROV_t_219325 , PROV_t_220024 , PROV_t_220068 , PROV_t_220650 , PROV_t_220662 , PROV_t_221324 , PROV_t_221368 , PROV_t_221966 , PROV_t_222047 , PROV_t_222048 , PROV_t_222260 , PROV_t_222876 , PROV_t_224801, PROV_t_224835 , PROV_t_225432 , PROV_t_225441 , PROV_t_226279 , PROV_t_226712 , PROV_t_226773 , PROV_t_228228 , PROV_t_228452 , PROV_t_228561 , PROV_t_228815 , PROV_t_228935 , PROV_t_228975 , PROV_t_229785 , PROV_t_229996 , PROV_t_230020 , PROV_t_231053 , PROV_t_231069 , PROV_t_231654 , PROV_t_231726 , PROV_t_232213 , PROV_t_232456 , PROV_t_233009 , PROV_t_234107 , PROV_t_234125 , PROV_t_234671 , PROV_t_235097 , PROV_t_235531 , PROV_t_235800 , PROV_t_236878 , PROV_t_237403 , PROV_t_237424 , PROV_t_238147 , PROV_t_238618 , PROV_t_238629 , PROV_t_238852 , PROV_t_239052 , PROV_t_239069 , PROV_t_239165 , PROV_t_240174 , PROV_t_240202 , PROV_t_240532 , PROV_t_240555 , PROV_t_240669 , PROV_t_241347 , PROV_t_241950 , PROV_t_241985 , PROV_t_242008 , PROV_t_242365 , PROV_t_242630 , PROV_t_242868 , PROV_t_243439 , PROV_t_243495 , PROV_t_243620 , PROV_t_243624 , PROV_t_244052 , PROV_t_244599 , PROV_t_245319 , PROV_t_245472 , PROV_t_246522 , PROV_t_246712 , PROV_t_247080 , PROV_t_247208 , PROV_t_247474 PROV_t_247474

Revision editor(s): Ese

Signature 2

EditHistoryDelete

Mark reviewed

Your review change was submitted

Needs review

Curated date: 2025/09/11

Curator: Ese

Revision editor(s): Ese

Source: Table S4

Description: Result of strain level meta-analysis comparing neurotypical (NT) children and Autism Spectrum Disorder (ASD) children (all datasets pooled, no adjustment for bowel function, age, or sex).

Abundance in Group 1: decreased abundance in autism spectrum disorder (ASD) children

NCBI	Quality Control	Links
Barnesiella intestinihominis t_21316Barnesiella intestinihominis t_21316
Bacteroides A plebeius t_215238Bacteroides A plebeius t_215238
Ruminoclostridium E siraeum t_124298Ruminoclostridium E siraeum t_124298
Ruminoclostridium E siraeum t_77085Ruminoclostridium E siraeum t_77085

Revision editor(s): Ese