The role of the gut microbiome in the healthy adult status

被引:302
作者
D'Argenio, Valeria [1 ,2 ]
Salvatore, Francesco [1 ,2 ,3 ]
机构
[1] CEINGE Biotecnol Avanzate, I-80145 Naples, Italy
[2] Univ Naples Federico II, Dept Mol Med & Med Biotechnol, I-80131 Naples, Italy
[3] IRCCS Fdn SDN, I-80143 Naples, Italy
关键词
Human microbiome; Metagenomics; Microbiome dysbiosis; Next-generation sequencing; INTESTINAL MICROBIOTA; GENE; BOWEL; DISEASE; METAGENOMICS; DIVERSITY; ASSEMBLER; OBESITY; TIME; DNA;
D O I
10.1016/j.cca.2015.01.003
中图分类号
R446 [实验室诊断]; R-33 [实验医学、医学实验];
学科分类号
100118 [医学信息学]; 100208 [临床检验诊断学];
摘要
The gut microbiome, which hosts up to 1000 bacterial species that encode about 5 million genes, perform many of the functions required for host physiology and survival. Consequently, it is also known as "our forgotten organ". The recent development of next-generation sequencing technologies has greatly improved metagenomic research. In particular, it has increased our knowledge about the microbiome and its mutually beneficial relationships with the human host. Microbial colonization begins immediately at birth. Although influenced by a variety of stimuli, namely, diet, physical activity, travel, illness, hormonal cycles and therapies, the microbiome is practically stable in healthy adults. This suggests that the microbiome plays a role in the maintenance of a healthy state in adulthood. Quantitative and qualitative alterations in the composition of the gut microbiome could lead to pathological dysbiosis, and have been related to an increasing number of intestinal and extra-intestinal diseases. With the increase in knowledge about gut microbiome functions, it is becoming increasingly more possible to develop novel diagnostic, prognostic and, most important, therapeutic strategies based on microbiome manipulation. (C) 2015 The Authors. Published by Elsevier B.V.
引用
收藏
页码:97 / 102
页数:6
相关论文
共 70 条
[1]
Metabolic Reconstruction for Metagenomic Data and Its Application to the Human Microbiome [J].
Abubucker, Sahar ;
Segata, Nicola ;
Goll, Johannes ;
Schubert, Alyxandria M. ;
Izard, Jacques ;
Cantarel, Brandi L. ;
Rodriguez-Mueller, Beltran ;
Zucker, Jeremy ;
Thiagarajan, Mathangi ;
Henrissat, Bernard ;
White, Owen ;
Kelley, Scott T. ;
Methe, Barbara ;
Schloss, Patrick D. ;
Gevers, Dirk ;
Mitreva, Makedonka ;
Huttenhower, Curtis .
PLOS COMPUTATIONAL BIOLOGY, 2012, 8 (06)
[2]
Enterotypes of the human gut microbiome [J].
Arumugam, Manimozhiyan ;
Raes, Jeroen ;
Pelletier, Eric ;
Le Paslier, Denis ;
Yamada, Takuji ;
Mende, Daniel R. ;
Fernandes, Gabriel R. ;
Tap, Julien ;
Bruls, Thomas ;
Batto, Jean-Michel ;
Bertalan, Marcelo ;
Borruel, Natalia ;
Casellas, Francesc ;
Fernandez, Leyden ;
Gautier, Laurent ;
Hansen, Torben ;
Hattori, Masahira ;
Hayashi, Tetsuya ;
Kleerebezem, Michiel ;
Kurokawa, Ken ;
Leclerc, Marion ;
Levenez, Florence ;
Manichanh, Chaysavanh ;
Nielsen, H. Bjorn ;
Nielsen, Trine ;
Pons, Nicolas ;
Poulain, Julie ;
Qin, Junjie ;
Sicheritz-Ponten, Thomas ;
Tims, Sebastian ;
Torrents, David ;
Ugarte, Edgardo ;
Zoetendal, Erwin G. ;
Wang, Jun ;
Guarner, Francisco ;
Pedersen, Oluf ;
de Vos, Willem M. ;
Brunak, Soren ;
Dore, Joel ;
Weissenbach, Jean ;
Ehrlich, S. Dusko ;
Bork, Peer .
NATURE, 2011, 473 (7346) :174-180
[3]
Defining a Healthy Human Gut Microbiome: Current Concepts, Future Directions, and Clinical Applications [J].
Backhed, Fredrik ;
Fraser, Claire M. ;
Ringel, Yehuda ;
Sanders, Mary Ellen ;
Sartor, R. Balfour ;
Sherman, Philip M. ;
Versalovic, James ;
Young, Vincent ;
Finlay, B. Brett .
CELL HOST & MICROBE, 2012, 12 (05) :611-622
[4]
GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions [J].
Besemer, J ;
Lomsadze, A ;
Borodovsky, M .
NUCLEIC ACIDS RESEARCH, 2001, 29 (12) :2607-2618
[5]
Reduced diversity of the intestinal microbiota during infancy is associated with increased risk of allergic disease at school age [J].
Bisgaard, Hans ;
Li, Nan ;
Bonnelykke, Klaus ;
Chawes, Bo Lund Krogsgaard ;
Skov, Thomas ;
Paludan-Mueller, Georg ;
Stokholm, Jakob ;
Smith, Birgitte ;
Krogfelt, Karen Angeliki .
JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY, 2011, 128 (03) :646-U318
[6]
Ray Meta: scalable de novo metagenome assembly and profiling [J].
Boisvert, Sebastien ;
Raymond, Frederic ;
Godzaridis, Elenie ;
Laviolette, Francois ;
Corbeil, Jacques .
GENOME BIOLOGY, 2012, 13 (12)
[7]
Brady A, 2009, NAT METHODS, V6, P673, DOI [10.1038/nmeth.1358, 10.1038/NMETH.1358]
[8]
Gut microbiota and obesity: lessons from the microbiome [J].
Cani, Patrice D. .
BRIEFINGS IN FUNCTIONAL GENOMICS, 2013, 12 (04) :381-387
[9]
Moving pictures of the human microbiome [J].
Caporaso, J. Gregory ;
Lauber, Christian L. ;
Costello, Elizabeth K. ;
Berg-Lyons, Donna ;
Gonzalez, Antonio ;
Stombaugh, Jesse ;
Knights, Dan ;
Gajer, Pawel ;
Ravel, Jacques ;
Fierer, Noah ;
Gordon, Jeffrey I. ;
Knight, Rob .
GENOME BIOLOGY, 2011, 12 (05)
[10]
QIIME allows analysis of high-throughput community sequencing data [J].
Caporaso, J. Gregory ;
Kuczynski, Justin ;
Stombaugh, Jesse ;
Bittinger, Kyle ;
Bushman, Frederic D. ;
Costello, Elizabeth K. ;
Fierer, Noah ;
Pena, Antonio Gonzalez ;
Goodrich, Julia K. ;
Gordon, Jeffrey I. ;
Huttley, Gavin A. ;
Kelley, Scott T. ;
Knights, Dan ;
Koenig, Jeremy E. ;
Ley, Ruth E. ;
Lozupone, Catherine A. ;
McDonald, Daniel ;
Muegge, Brian D. ;
Pirrung, Meg ;
Reeder, Jens ;
Sevinsky, Joel R. ;
Tumbaugh, Peter J. ;
Walters, William A. ;
Widmann, Jeremy ;
Yatsunenko, Tanya ;
Zaneveld, Jesse ;
Knight, Rob .
NATURE METHODS, 2010, 7 (05) :335-336