Literature DB >> 27426971

Emerging Technologies for Gut Microbiome Research.

Jason W Arnold1, Jeffrey Roach2, M Andrea Azcarate-Peril3.   

Abstract

Understanding the importance of the gut microbiome on modulation of host health has become a subject of great interest for researchers across disciplines. As an intrinsically multidisciplinary field, microbiome research has been able to reap the benefits of technological advancements in systems and synthetic biology, biomaterials engineering, and traditional microbiology. Gut microbiome research has been revolutionized by high-throughput sequencing technology, permitting compositional and functional analyses that were previously an unrealistic undertaking. Emerging technologies, including engineered organoids derived from human stem cells, high-throughput culturing, and microfluidics assays allowing for the introduction of novel approaches, will improve the efficiency and quality of microbiome research. Here, we discuss emerging technologies and their potential impact on gut microbiome studies.
Copyright © 2016 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  automated culturing; gut microbiome; high-throughput sequencing; microbial cultivation; personalized medicine

Mesh:

Substances:

Year:  2016        PMID: 27426971      PMCID: PMC5074899          DOI: 10.1016/j.tim.2016.06.008

Source DB:  PubMed          Journal:  Trends Microbiol        ISSN: 0966-842X            Impact factor:   17.079


  133 in total

1.  Gut microbiome compositional and functional differences between tumor and non-tumor adjacent tissues from cohorts from the US and Spain.

Authors:  Imane Allali; Susana Delgado; Pablo Isidro Marron; Aurora Astudillo; Jen Jen Yeh; Hassan Ghazal; Saaïd Amzazi; Temitope Keku; M Andrea Azcarate-Peril
Journal:  Gut Microbes       Date:  2015

Review 2.  Influence of high-fat diet on gut microbiota: a driving force for chronic disease risk.

Authors:  E Angela Murphy; Kandy T Velazquez; Kyle M Herbert
Journal:  Curr Opin Clin Nutr Metab Care       Date:  2015-09       Impact factor: 4.294

3.  Identification of bacterial isolates obtained from intestinal contents associated with 12,000-year-old mastodon remains.

Authors:  A N Rhodes; J W Urbance; H Youga; H Corlew-Newman; C A Reddy; M J Klug; J M Tiedje; D C Fisher
Journal:  Appl Environ Microbiol       Date:  1998-02       Impact factor: 4.792

4.  Relating the metatranscriptome and metagenome of the human gut.

Authors:  Eric A Franzosa; Xochitl C Morgan; Nicola Segata; Levi Waldron; Joshua Reyes; Ashlee M Earl; Georgia Giannoukos; Matthew R Boylan; Dawn Ciulla; Dirk Gevers; Jacques Izard; Wendy S Garrett; Andrew T Chan; Curtis Huttenhower
Journal:  Proc Natl Acad Sci U S A       Date:  2014-05-19       Impact factor: 11.205

5.  Vitamin B12 modulates the transcriptome of the skin microbiota in acne pathogenesis.

Authors:  Dezhi Kang; Baochen Shi; Marie C Erfe; Noah Craft; Huiying Li
Journal:  Sci Transl Med       Date:  2015-06-24       Impact factor: 17.956

6.  Reshaping the gut microbiome with bacterial transplantation and antibiotic intake.

Authors:  Chaysavanh Manichanh; Jens Reeder; Prudence Gibert; Encarna Varela; Marta Llopis; Maria Antolin; Roderic Guigo; Rob Knight; Francisco Guarner
Journal:  Genome Res       Date:  2010-08-24       Impact factor: 9.043

Review 7.  Oligosaccharides in infant formula: more evidence to validate the role of prebiotics.

Authors:  Yvan Vandenplas; Irina Zakharova; Yulia Dmitrieva
Journal:  Br J Nutr       Date:  2015-05-14       Impact factor: 3.718

Review 8.  Microfluidics expanding the frontiers of microbial ecology.

Authors:  Roberto Rusconi; Melissa Garren; Roman Stocker
Journal:  Annu Rev Biophys       Date:  2014       Impact factor: 12.981

9.  Selective carbohydrate utilization by lactobacilli and bifidobacteria.

Authors:  D Watson; M O'Connell Motherway; M H C Schoterman; R J Joost van Neerven; A Nauta; D van Sinderen
Journal:  J Appl Microbiol       Date:  2013-01-11       Impact factor: 3.772

10.  Metagenomic microbial community profiling using unique clade-specific marker genes.

Authors:  Nicola Segata; Levi Waldron; Annalisa Ballarini; Vagheesh Narasimhan; Olivier Jousson; Curtis Huttenhower
Journal:  Nat Methods       Date:  2012-06-10       Impact factor: 28.547

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  42 in total

1.  Parkinson's disease and Parkinson's disease medications have distinct signatures of the gut microbiome.

Authors:  Erin M Hill-Burns; Justine W Debelius; James T Morton; William T Wissemann; Matthew R Lewis; Zachary D Wallen; Shyamal D Peddada; Stewart A Factor; Eric Molho; Cyrus P Zabetian; Rob Knight; Haydeh Payami
Journal:  Mov Disord       Date:  2017-02-14       Impact factor: 10.338

2.  Introduction to the special focus issue on the impact of diet on gut microbiota composition and function and future opportunities for nutritional modulation of the gut microbiome to improve human health.

Authors:  Sharon M Donovan
Journal:  Gut Microbes       Date:  2017-02-28

3.  Oropharyngeal Microbiome in Obstructive Sleep Apnea: Decreased Diversity and Abundance.

Authors:  Wenbo Yang; Liang Shao; Mulalibieke Heizhati; Ting Wu; Xiaoguang Yao; Yingchun Wang; Lei Wang; Nanfang Li
Journal:  J Clin Sleep Med       Date:  2019-11-05       Impact factor: 4.062

Review 4.  Synthetic Biology Approaches to Engineer Probiotics and Members of the Human Microbiota for Biomedical Applications.

Authors:  Josef R Bober; Chase L Beisel; Nikhil U Nair
Journal:  Annu Rev Biomed Eng       Date:  2018-03-12       Impact factor: 9.590

Review 5.  Is adolescence the missing developmental link in Microbiome-Gut-Brain axis communication?

Authors:  Jessica Flannery; Bridget Callaghan; Thomas Sharpton; Philip Fisher; Jennifer Pfeifer
Journal:  Dev Psychobiol       Date:  2019-01-28       Impact factor: 3.038

6.  Systematic Review of the Effect of Enteral Feeding on Gut Microbiota in Preterm Infants.

Authors:  Wanli Xu; Michelle P Judge; Kendra Maas; Naveed Hussain; Jacqueline M McGrath; Wendy A Henderson; Xiaomei Cong
Journal:  J Obstet Gynecol Neonatal Nurs       Date:  2017-10-14

Review 7.  The emerging science of precision medicine and pharmacogenomics for Parkinson's disease.

Authors:  Haydeh Payami
Journal:  Mov Disord       Date:  2017-07-07       Impact factor: 10.338

Review 8.  Diet and the Human Gut Microbiome: An International Review.

Authors:  Annette S Wilson; Kathryn R Koller; Matsepo C Ramaboli; Lucky T Nesengani; Soeren Ocvirk; Caixia Chen; Christie A Flanagan; Flora R Sapp; Zoe T Merritt; Faheem Bhatti; Timothy K Thomas; Stephen J D O'Keefe
Journal:  Dig Dis Sci       Date:  2020-03       Impact factor: 3.199

Review 9.  Healthy Human Gastrointestinal Microbiome: Composition and Function After a Decade of Exploration.

Authors:  Wenly Ruan; Melinda A Engevik; Jennifer K Spinler; James Versalovic
Journal:  Dig Dis Sci       Date:  2020-03       Impact factor: 3.199

Review 10.  The Gut Microbiota and Hematopoietic Stem Cell Transplantation: Challenges and Potentials.

Authors:  Fozia Noor; Anne Kaysen; Paul Wilmes; Jochen G Schneider
Journal:  J Innate Immun       Date:  2018-10-04       Impact factor: 7.349

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