Gut microbiota alterations in response to sleep length among African-origin adults

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Reviewed Marked as Reviewed by Svetlana up on 2024-12-19
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Fei N, Choo-Kang C, Reutrakul S, Crowley SJ, Rae D, Bedu-Addo K, Plange-Rhule J, Forrester TE, Lambert EV, Bovet P, Riesen W, Korte W, Luke A, Layden BT, Gilbert JA, Dugas LR
Journal
PloS one
Year
2021
Sleep disorders are increasingly being characterized in modern society as contributing to a host of serious medical problems, including obesity and metabolic syndrome. Changes to the microbial community in the human gut have been reportedly associated with many of these cardiometabolic outcomes. In this study, we investigated the impact of sleep length on the gut microbiota in a large cohort of 655 participants of African descent, aged 25-45, from Ghana, South Africa (SA), Jamaica, and the United States (US). The sleep duration was self-reported via a questionnaire. Participants were classified into 3 sleep groups: short (<7hrs), normal (7-<9hrs), and long (≥9hrs). Forty-seven percent of US participants were classified as short sleepers and 88% of SA participants as long sleepers. Gut microbial composition analysis (16S rRNA gene sequencing) revealed that bacterial alpha diversity negatively correlated with sleep length (p<0.05). Furthermore, sleep length significantly contributed to the inter-individual beta diversity dissimilarity in gut microbial composition (p<0.01). Participants with both short and long-sleep durations exhibited significantly higher abundances of several taxonomic features, compared to normal sleep duration participants. The predicted relative proportion of two genes involved in the butyrate synthesis via lysine pathway were enriched in short sleep duration participants. Finally, co-occurrence relationships revealed by network analysis showed unique interactions among the short, normal and long duration sleepers. These results suggest that sleep length in humans may alter gut microbiota by driving population shifts of the whole microbiota and also specific changes in Exact Sequence Variants abundance, which may have implications for chronic inflammation associated diseases. The current findings suggest a possible relationship between disrupted sleep patterns and the composition of the gut microbiota. Prospective investigations in larger and more prolonged sleep researches and causally experimental studies are needed to confirm these findings, investigate the underlying mechanism and determine whether improving microbial homeostasis may buffer against sleep-related health decline in humans.

Experiment 1


Reviewed Marked as Reviewed by Svetlana up on 2024-12-19

Curated date: 2024/10/14

Curator: AishatBolarinwa

Revision editor(s): AishatBolarinwa, KateRasheed

Subjects

Location of subjects
Ghana
Jamaica
South Africa
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
Sleep duration Sleep duration,sleep duration
Group 0 name Corresponds to the control (unexposed) group for case-control studies
Normal Sleepers
Group 1 name Corresponds to the case (exposed) group for case-control studies
Short Sleepers
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Participants of African descent aged 22 to 45 years who sleep for less than 7 hours daily
Group 0 sample size Number of subjects in the control (unexposed) group
250
Group 1 sample size Number of subjects in the case (exposed) group
154

Lab analysis

Sequencing type
16S
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

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
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, body mass index, Confounders controlled for: "Country" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.Country, sex

Alpha Diversity

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

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-12-19

Curated date: 2024/10/14

Curator: AishatBolarinwa

Revision editor(s): AishatBolarinwa

Source: FIGURE 1(D)

Description: Differential ESV abundance among short, normal and long sleepers adjusted for BMI, age, gender and countries. ESV with relative abundance ≥ 1% in at least one group shown.

Abundance in Group 1: increased abundance in Short Sleepers

NCBI Quality ControlLinks
Dialister
Bacteroides

Revision editor(s): AishatBolarinwa

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2024-12-19

Curated date: 2024/10/14

Curator: AishatBolarinwa

Revision editor(s): AishatBolarinwa, KateRasheed

Source: FIGURE 1(D)

Description: Differential ESV abundance among short, normal and long sleepers adjusted for BMI, age, gender and countries. ESV with relative abundance ≥ 1% in at least one group shown.

Abundance in Group 1: decreased abundance in Short Sleepers

NCBI Quality ControlLinks
Oscillospira

Revision editor(s): AishatBolarinwa, KateRasheed

Experiment 2


Reviewed Marked as Reviewed by Svetlana up on 2024-12-19

Curated date: 2024/10/14

Curator: AishatBolarinwa

Revision editor(s): AishatBolarinwa, KateRasheed

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies
Long Sleepers
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
Participants of African descent aged 22 to 45 years who sleep for longer than 9 hours daily
Group 1 sample size Number of subjects in the case (exposed) group
248

Lab analysis

Statistical Analysis

Alpha Diversity

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

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-12-19

Curated date: 2024/10/18

Curator: AishatBolarinwa

Revision editor(s): AishatBolarinwa, KateRasheed

Source: FIGURE 1(D)

Description: Differential ESV abundance among short, normal and long sleepers adjusted for BMI, age, gender and countries. ESV with relative abundance ≥ 1% in at least one group shown.

Abundance in Group 1: increased abundance in Long Sleepers

NCBI Quality ControlLinks
Catenibacterium
Dialister
Erysipelotrichaceae
Oscillospiraceae
Prevotella

Revision editor(s): AishatBolarinwa, KateRasheed

Experiment 3


Reviewed Marked as Reviewed by Svetlana up on 2024-12-19

Curated date: 2024/10/14

Curator: AishatBolarinwa

Revision editor(s): AishatBolarinwa, KateRasheed

Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies
Short sleepers
Group 0 sample size Number of subjects in the control (unexposed) group
154

Lab analysis

Statistical Analysis

Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
age, body mass index, sex, Confounders controlled for: "country" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.country

Alpha Diversity

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

Signature 1

Reviewed Marked as Reviewed by Svetlana up on 2024-12-19

Curated date: 2024/10/18

Curator: AishatBolarinwa

Revision editor(s): AishatBolarinwa, KateRasheed

Source: FIGURE 1(D)

Description: Differential ESV abundance among short, normal and long sleepers adjusted for BMI, age, gender and countries. ESV with relative abundance ≥ 1% in at least one group shown.

Abundance in Group 1: increased abundance in Long Sleepers

NCBI Quality ControlLinks
Erysipelotrichaceae
Oscillospira
Oscillospiraceae
Dialister
Prevotella

Revision editor(s): AishatBolarinwa, KateRasheed

Signature 2

Reviewed Marked as Reviewed by Svetlana up on 2024-12-19

Curated date: 2024/10/18

Curator: AishatBolarinwa

Revision editor(s): AishatBolarinwa, KateRasheed

Source: FIGURE 1(D)

Description: Differential ESV abundance among short, normal and long sleepers adjusted for BMI, age, gender and countries. ESV with relative abundance ≥ 1% in at least one group shown.

Abundance in Group 1: decreased abundance in Long Sleepers

NCBI Quality ControlLinks
Bacteroides
Dialister

Revision editor(s): AishatBolarinwa, KateRasheed