Literature DB >> 31227812

EcoFABs: advancing microbiome science through standardized fabricated ecosystems.

Karsten Zengler1,2, Kirsten Hofmockel3,4, Nitin S Baliga5,6,7, Scott W Behie8, Hans C Bernstein9,10, James B Brown11,12,13,14, José R Dinneny15, Sheri A Floge16,17, Samuel P Forry18, Matthias Hess19, Scott A Jackson18, Christer Jansson3, Stephen R Lindemann20,21, Jennifer Pett-Ridge22, Costas Maranas23, Ophelia S Venturelli24, Matthew D Wallenstein25, Elizabeth A Shank26,27, Trent R Northen28,29.   

Abstract

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Year:  2019        PMID： 31227812      PMCID： PMC6733021          DOI： 10.1038/s41592-019-0465-0

Source DB:  PubMed          Journal:  Nat Methods        ISSN： 1548-7091            Impact factor:   28.547


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  25 in total

Review 1.  Communication among oral bacteria.

Authors:  Paul E Kolenbrander; Roxanna N Andersen; David S Blehert; Paul G Egland; Jamie S Foster; Robert J Palmer
Journal:  Microbiol Mol Biol Rev       Date:  2002-09       Impact factor: 11.056

2.  The RootChip: an integrated microfluidic chip for plant science.

Authors:  Guido Grossmann; Woei-Jiun Guo; David W Ehrhardt; Wolf B Frommer; Rene V Sit; Stephen R Quake; Matthias Meier
Journal:  Plant Cell       Date:  2011-12-20       Impact factor: 11.277

Review 3.  The role of ecological theory in microbial ecology.

Authors:  James I Prosser; Brendan J M Bohannan; Tom P Curtis; Richard J Ellis; Mary K Firestone; Rob P Freckleton; Jessica L Green; Laura E Green; Ken Killham; Jack J Lennon; A Mark Osborn; Martin Solan; Christopher J van der Gast; J Peter W Young
Journal:  Nat Rev Microbiol       Date:  2007-05       Impact factor: 60.633

Review 4.  Rules of engagement: interspecies interactions that regulate microbial communities.

Authors:  Ainslie E F Little; Courtney J Robinson; S Brook Peterson; Kenneth F Raffa; Jo Handelsman
Journal:  Annu Rev Microbiol       Date:  2008       Impact factor: 15.500

5.  Effect of flow and peristaltic mixing on bacterial growth in a gut-like channel.

Authors:  Jonas Cremer; Igor Segota; Chih-Yu Yang; Markus Arnoldini; John T Sauls; Zhongge Zhang; Edgar Gutierrez; Alex Groisman; Terence Hwa
Journal:  Proc Natl Acad Sci U S A       Date:  2016-09-28       Impact factor: 11.205

6.  Spatial organization of a model 15-member human gut microbiota established in gnotobiotic mice.

Authors:  Jessica L Mark Welch; Yuko Hasegawa; Nathan P McNulty; Jeffrey I Gordon; Gary G Borisy
Journal:  Proc Natl Acad Sci U S A       Date:  2017-10-09       Impact factor: 11.205

Review 7.  Core microbiomes for sustainable agroecosystems.

Authors:  Hirokazu Toju; Kabir G Peay; Masato Yamamichi; Kazuhiko Narisawa; Kei Hiruma; Ken Naito; Shinji Fukuda; Masayuki Ushio; Shinji Nakaoka; Yusuke Onoda; Kentaro Yoshida; Klaus Schlaeppi; Yang Bai; Ryo Sugiura; Yasunori Ichihashi; Kiwamu Minamisawa; E Toby Kiers
Journal:  Nat Plants       Date:  2018-05       Impact factor: 15.793

8.  Indigenous bacteria from the gut microbiota regulate host serotonin biosynthesis.

Authors:  Jessica M Yano; Kristie Yu; Gregory P Donaldson; Gauri G Shastri; Phoebe Ann; Liang Ma; Cathryn R Nagler; Rustem F Ismagilov; Sarkis K Mazmanian; Elaine Y Hsiao
Journal:  Cell       Date:  2015-04-09       Impact factor: 41.582

Review 9.  The development of Arabidopsis as a model plant.

Authors:  Maarten Koornneef; David Meinke
Journal:  Plant J       Date:  2010-03       Impact factor: 6.417

10.  Contributions of microbiome and mechanical deformation to intestinal bacterial overgrowth and inflammation in a human gut-on-a-chip.

Authors:  Hyun Jung Kim; Hu Li; James J Collins; Donald E Ingber
Journal:  Proc Natl Acad Sci U S A       Date:  2015-12-14       Impact factor: 11.205
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  12 in total

Review 1.  Emerging strategies for precision microbiome management in diverse agroecosystems.

Authors:  Elizabeth French; Ian Kaplan; Anjali Iyer-Pascuzzi; Cindy H Nakatsu; Laramy Enders
Journal:  Nat Plants       Date:  2021-03-08       Impact factor: 15.793

Review 2.  Microbiome engineering for bioremediation of emerging pollutants.

Authors:  L Paikhomba Singha; Pratyoosh Shukla
Journal:  Bioprocess Biosyst Eng       Date:  2022-08-27       Impact factor: 3.434

3.  Environmental stimuli drive a transition from cooperation to competition in synthetic phototrophic communities.

Authors:  Cristal Zuñiga; Chien-Ting Li; Geng Yu; Mahmoud M Al-Bassam; Tingting Li; Liqun Jiang; Livia S Zaramela; Michael Guarnieri; Michael J Betenbaugh; Karsten Zengler
Journal:  Nat Microbiol       Date:  2019-10-07       Impact factor: 17.745

Review 4.  Common principles and best practices for engineering microbiomes.

Authors:  Christopher E Lawson; William R Harcombe; Roland Hatzenpichler; Stephen R Lindemann; Frank E Löffler; Michelle A O'Malley; Héctor García Martín; Brian F Pfleger; Lutgarde Raskin; Ophelia S Venturelli; David G Weissbrodt; Daniel R Noguera; Katherine D McMahon
Journal:  Nat Rev Microbiol       Date:  2019-09-23       Impact factor: 60.633

Review 5.  Integrating Systems and Synthetic Biology to Understand and Engineer Microbiomes.

Authors:  Patrick A Leggieri; Yiyi Liu; Madeline Hayes; Bryce Connors; Susanna Seppälä; Michelle A O'Malley; Ophelia S Venturelli
Journal:  Annu Rev Biomed Eng       Date:  2021-03-29       Impact factor: 9.590

6.  Mechanism Across Scales: A Holistic Modeling Framework Integrating Laboratory and Field Studies for Microbial Ecology.

Authors:  Lauren M Lui; Erica L-W Majumder; Heidi J Smith; Hans K Carlson; Frederick von Netzer; Matthew W Fields; David A Stahl; Jizhong Zhou; Terry C Hazen; Nitin S Baliga; Paul D Adams; Adam P Arkin
Journal:  Front Microbiol       Date:  2021-03-24       Impact factor: 5.640

Review 7.  Specialized Plant Growth Chamber Designs to Study Complex Rhizosphere Interactions.

Authors:  Mon Oo Yee; Peter Kim; Yifan Li; Anup K Singh; Trent R Northen; Romy Chakraborty
Journal:  Front Microbiol       Date:  2021-03-26       Impact factor: 5.640

Review 8.  Conceptual strategies for characterizing interactions in microbial communities.

Authors:  Sho M Kodera; Promi Das; Jack A Gilbert; Holly L Lutz
Journal:  iScience       Date:  2022-01-15

9.  Root-TRAPR: a modular plant growth device to visualize root development and monitor growth parameters, as applied to an elicitor response of Cannabis sativa.

Authors:  Pipob Suwanchaikasem; Alexander Idnurm; Jamie Selby-Pham; Robert Walker; Berin A Boughton
Journal:  Plant Methods       Date:  2022-04-09       Impact factor: 4.993

10.  Exploring the roles of microbes in facilitating plant adaptation to climate change.

Authors:  Elle M Barnes; Susannah G Tringe
Journal:  Biochem J       Date:  2022-02-11       Impact factor: 3.857
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