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Microbiome responses to an uncontrolled short-term diet intervention in the frame of the citizen science project. / Klimenko, Natalia S.; Tyakht, Alexander V.; Popenko, Anna S. et al.

In: Nutrients, Vol. 10, No. 5, 576, 08.05.2018.

Research output: Contribution to journal › Article › peer-review

Harvard

Klimenko, NS, Tyakht, AV, Popenko, AS, Vasiliev, AS, Altukhov, IA, Ischenko, DS, Shashkova, TI, Efimova, DA, Nikogosov, DA, Osipenko, DA, Musienko, SV, Selezneva, KS, Baranova, A, Kurilshikov, AM, Toshchakov, SM, Korzhenkov, AA, Samarov, NI, Shevchenko, MA, Tepliuk, AV & Alexeev, DG 2018, 'Microbiome responses to an uncontrolled short-term diet intervention in the frame of the citizen science project', Nutrients, vol. 10, no. 5, 576. https://doi.org/10.3390/nu10050576

APA

Klimenko, N. S., Tyakht, A. V., Popenko, A. S., Vasiliev, A. S., Altukhov, I. A., Ischenko, D. S., Shashkova, T. I., Efimova, D. A., Nikogosov, D. A., Osipenko, D. A., Musienko, S. V., Selezneva, K. S., Baranova, A., Kurilshikov, A. M., Toshchakov, S. M., Korzhenkov, A. A., Samarov, N. I., Shevchenko, M. A., Tepliuk, A. V., & Alexeev, D. G. (2018). Microbiome responses to an uncontrolled short-term diet intervention in the frame of the citizen science project. Nutrients, 10(5), [576]. https://doi.org/10.3390/nu10050576

Vancouver

Klimenko NS, Tyakht AV, Popenko AS, Vasiliev AS, Altukhov IA, Ischenko DS et al. Microbiome responses to an uncontrolled short-term diet intervention in the frame of the citizen science project. Nutrients. 2018 May 8;10(5):576. doi: 10.3390/nu10050576

Author

Klimenko, Natalia S. ; Tyakht, Alexander V. ; Popenko, Anna S. et al. / Microbiome responses to an uncontrolled short-term diet intervention in the frame of the citizen science project. In: Nutrients. 2018 ; Vol. 10, No. 5.

BibTeX

@article{886a3154e48045b3acc28af593b96643,
title = "Microbiome responses to an uncontrolled short-term diet intervention in the frame of the citizen science project",
abstract = "Personalized nutrition is of increasing interest to individuals actively monitoring their health. The relations between the duration of diet intervention and the effects on gut microbiota have yet to be elucidated. Here we examined the associations of short-term dietary changes, long-term dietary habits and lifestyle with gut microbiota. Stool samples from 248 citizen-science volunteers were collected before and after a self-reported 2-week personalized diet intervention, then analyzed using 16S rRNA sequencing. Considerable correlations between long-term dietary habits and gut community structure were detected. A higher intake of vegetables and fruits was associated with increased levels of butyrate-producing Clostridiales and higher community richness. A paired comparison of the metagenomes before and after the 2-week intervention showed that even a brief, uncontrolled intervention produced profound changes in community structure: resulting in decreased levels of Bacteroidaceae, Porphyromonadaceae and Rikenellaceae families and decreased alpha-diversity coupled with an increase of Methanobrevibacter, Bifidobacterium, Clostridium and butyrate-producing Lachnospiraceae- as well as the prevalence of a permatype (a bootstrapping-based variation of enterotype) associated with a higher diversity of diet. The response of microbiota to the intervention was dependent on the initial microbiota state. These findings pave the way for the development of an individualized diet.",
keywords = "16S rRNA metagenomics, Citizen science, Gut microbiota, Intervention, Microbiome stability, Personalized diet, Responders, Humans, Gastrointestinal Microbiome, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Clostridium/genetics, Methanobrevibacter/genetics, Bacteroidetes/genetics, Sample Size, Diet, Feces/chemistry, Bifidobacterium/genetics, Metagenome, Cluster Analysis, PHYSIOLOGY, SEQUENCES, microbiome stability, PATTERNS, citizen science, personalized diet, responders, ABUNDANCE, METABOLISM, DIVERSITY, BACTERIA, GUT MICROBIOTA, gut microbiota, FIBER, IMPACT, intervention",
author = "Klimenko, {Natalia S.} and Tyakht, {Alexander V.} and Popenko, {Anna S.} and Vasiliev, {Anatoly S.} and Altukhov, {Ilya A.} and Ischenko, {Dmitry S.} and Shashkova, {Tatiana I.} and Efimova, {Daria A.} and Nikogosov, {Dmitri A.} and Osipenko, {Dmitrii A.} and Musienko, {Sergey V.} and Selezneva, {Kseniya S.} and Ancha Baranova and Kurilshikov, {Alexander M.} and Toshchakov, {Stepan M.} and Korzhenkov, {Aleksei A.} and Samarov, {Nazar I.} and Shevchenko, {Margarita A.} and Tepliuk, {Alina V.} and Alexeev, {Dmitry G.}",
note = "Publisher Copyright: {\textcopyright} 2018 by the authors. Licensee MDPI, Basel, Switzerland.",
year = "2018",
month = may,
day = "8",
doi = "10.3390/nu10050576",
language = "English",
volume = "10",
journal = "Nutrients",
issn = "2072-6643",
publisher = "Multidisciplinary Digital Publishing Institute (MDPI)",
number = "5",

}

RIS

TY - JOUR

T1 - Microbiome responses to an uncontrolled short-term diet intervention in the frame of the citizen science project

AU - Klimenko, Natalia S.

AU - Tyakht, Alexander V.

AU - Popenko, Anna S.

AU - Vasiliev, Anatoly S.

AU - Altukhov, Ilya A.

AU - Ischenko, Dmitry S.

AU - Shashkova, Tatiana I.

AU - Efimova, Daria A.

AU - Nikogosov, Dmitri A.

AU - Osipenko, Dmitrii A.

AU - Musienko, Sergey V.

AU - Selezneva, Kseniya S.

AU - Baranova, Ancha

AU - Kurilshikov, Alexander M.

AU - Toshchakov, Stepan M.

AU - Korzhenkov, Aleksei A.

AU - Samarov, Nazar I.

AU - Shevchenko, Margarita A.

AU - Tepliuk, Alina V.

AU - Alexeev, Dmitry G.

N1 - Publisher Copyright: © 2018 by the authors. Licensee MDPI, Basel, Switzerland.

PY - 2018/5/8

Y1 - 2018/5/8

N2 - Personalized nutrition is of increasing interest to individuals actively monitoring their health. The relations between the duration of diet intervention and the effects on gut microbiota have yet to be elucidated. Here we examined the associations of short-term dietary changes, long-term dietary habits and lifestyle with gut microbiota. Stool samples from 248 citizen-science volunteers were collected before and after a self-reported 2-week personalized diet intervention, then analyzed using 16S rRNA sequencing. Considerable correlations between long-term dietary habits and gut community structure were detected. A higher intake of vegetables and fruits was associated with increased levels of butyrate-producing Clostridiales and higher community richness. A paired comparison of the metagenomes before and after the 2-week intervention showed that even a brief, uncontrolled intervention produced profound changes in community structure: resulting in decreased levels of Bacteroidaceae, Porphyromonadaceae and Rikenellaceae families and decreased alpha-diversity coupled with an increase of Methanobrevibacter, Bifidobacterium, Clostridium and butyrate-producing Lachnospiraceae- as well as the prevalence of a permatype (a bootstrapping-based variation of enterotype) associated with a higher diversity of diet. The response of microbiota to the intervention was dependent on the initial microbiota state. These findings pave the way for the development of an individualized diet.

AB - Personalized nutrition is of increasing interest to individuals actively monitoring their health. The relations between the duration of diet intervention and the effects on gut microbiota have yet to be elucidated. Here we examined the associations of short-term dietary changes, long-term dietary habits and lifestyle with gut microbiota. Stool samples from 248 citizen-science volunteers were collected before and after a self-reported 2-week personalized diet intervention, then analyzed using 16S rRNA sequencing. Considerable correlations between long-term dietary habits and gut community structure were detected. A higher intake of vegetables and fruits was associated with increased levels of butyrate-producing Clostridiales and higher community richness. A paired comparison of the metagenomes before and after the 2-week intervention showed that even a brief, uncontrolled intervention produced profound changes in community structure: resulting in decreased levels of Bacteroidaceae, Porphyromonadaceae and Rikenellaceae families and decreased alpha-diversity coupled with an increase of Methanobrevibacter, Bifidobacterium, Clostridium and butyrate-producing Lachnospiraceae- as well as the prevalence of a permatype (a bootstrapping-based variation of enterotype) associated with a higher diversity of diet. The response of microbiota to the intervention was dependent on the initial microbiota state. These findings pave the way for the development of an individualized diet.

KW - 16S rRNA metagenomics

KW - Citizen science

KW - Gut microbiota

KW - Intervention

KW - Microbiome stability

KW - Personalized diet

KW - Responders

KW - Humans

KW - Gastrointestinal Microbiome

KW - RNA, Ribosomal, 16S/genetics

KW - Sequence Analysis, DNA

KW - Clostridium/genetics

KW - Methanobrevibacter/genetics

KW - Bacteroidetes/genetics

KW - Sample Size

KW - Diet

KW - Feces/chemistry

KW - Bifidobacterium/genetics

KW - Metagenome

KW - Cluster Analysis

KW - PHYSIOLOGY

KW - SEQUENCES

KW - microbiome stability

KW - PATTERNS

KW - citizen science

KW - personalized diet

KW - responders

KW - ABUNDANCE

KW - METABOLISM

KW - DIVERSITY

KW - BACTERIA

KW - GUT MICROBIOTA

KW - gut microbiota

KW - FIBER

KW - IMPACT

KW - intervention

UR - http://www.scopus.com/inward/record.url?scp=85046680130&partnerID=8YFLogxK

U2 - 10.3390/nu10050576

DO - 10.3390/nu10050576

M3 - Article

C2 - 29738477

AN - SCOPUS:85046680130

VL - 10

JO - Nutrients

JF - Nutrients

SN - 2072-6643

IS - 5

M1 - 576

ER -

ID: 13332046