Rapid Shifts in Bacterial Community Assembly under Static and Dynamic Hydration Conditions in Porous Media.
Fluidigm
absolute quantification
bacterial community assembly
microbial ecology
microbial interactions
porous media
quantitative real-time PCR (qPCR)
Journal
Applied and environmental microbiology
ISSN: 1098-5336
Titre abrégé: Appl Environ Microbiol
Pays: United States
ID NLM: 7605801
Informations de publication
Date de publication:
13 12 2019
13 12 2019
Historique:
received:
13
09
2019
accepted:
04
10
2019
pubmed:
28
10
2019
medline:
6
8
2020
entrez:
27
10
2019
Statut:
epublish
Résumé
The complexity of natural soils presents a challenge to the systematic identification and disentanglement of governing processes that shape natural bacterial communities. Studies have highlighted the critical role of the soil aqueous phase in shaping interactions among soil bacterial communities. To quantify and improve the attributability of soil aqueous-phase effects, we introduced a synthetic and traceable bacterial community to simple porous microcosms and subjected the community to constant or dynamic hydration conditions. The results were expressed in terms of absolute abundance and show species-specific responses to hydration and nutrient conditions. Hydration dynamics exerted a significant influence on the fraction of less-abundant species, especially after extended incubation periods. Phylogenetic relationships did not explain the group of most abundant species. The ability to quantify species-level dynamics in a bacterial community offers an important step toward deciphering the links between community composition and functions in dynamic terrestrial environments.
Identifiants
pubmed: 31653789
pii: AEM.02057-19
doi: 10.1128/AEM.02057-19
pmc: PMC6912082
pii:
doi:
Substances chimiques
RNA, Ribosomal, 16S
0
Soil
0
Water
059QF0KO0R
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Subventions
Organisme : European Research Council
ID : 320499
Pays : International
Informations de copyright
Copyright © 2019 Kleyer et al.
Références
ISME J. 2010 Apr;4(4):553-63
pubmed: 20033070
Microb Ecol. 2003 Jan;45(1):63-71
pubmed: 12469245
Sci Rep. 2017 Jun 27;7(1):4280
pubmed: 28655916
Front Microbiol. 2018 Mar 07;9:294
pubmed: 29563897
Front Microbiol. 2015 Jan 30;6:24
pubmed: 25688238
PLoS One. 2016 Nov 3;11(11):e0165850
pubmed: 27812150
Sci Rep. 2017 Jul 18;7(1):5752
pubmed: 28720878
Cell Host Microbe. 2017 Aug 9;22(2):142-155
pubmed: 28799900
Nat Rev Microbiol. 2017 Oct;15(10):579-590
pubmed: 28824177
Proc Natl Acad Sci U S A. 2012 Jul 3;109(27):10931-6
pubmed: 22715291
PLoS One. 2013 Jul 26;8(7):e69705
pubmed: 23922779
Nat Ecol Evol. 2017 Mar 27;1(5):109
pubmed: 28812687
Appl Environ Microbiol. 2008 Aug;74(16):5195-200
pubmed: 18586968
Front Microbiol. 2017 Jun 14;8:1078
pubmed: 28659896
ISME J. 2011 Feb;5(2):173-83
pubmed: 20574458
Nat Commun. 2013;4:1383
pubmed: 23340423
mSystems. 2019 Feb 5;4(1):null
pubmed: 30746494
Nucleic Acids Res. 2013 Jan;41(Database issue):D590-6
pubmed: 23193283
Mol Ecol. 2017 Feb;26(4):1190-1206
pubmed: 28028891
ISME J. 2018 Apr;12(4):1061-1071
pubmed: 29476139
Front Microbiol. 2017 Oct 25;8:2017
pubmed: 29118739
Appl Environ Microbiol. 2019 Jul 1;85(14):null
pubmed: 31076430
Sci Rep. 2016 May 12;6:25815
pubmed: 27170469
Nat Microbiol. 2018 Feb;3(2):189-196
pubmed: 29158606
Sci Rep. 2016 Jan 13;6:19409
pubmed: 26757676
Sci Rep. 2017 Apr 06;7:45735
pubmed: 28383531
mBio. 2014 Jul 15;5(4):e01371-14
pubmed: 25028427
Ecology. 2017 Feb;98(2):555-564
pubmed: 27882545
Sci Rep. 2017 Jul 20;7(1):6008
pubmed: 28729641
Genes Dev. 2010 Dec 1;24(23):2603-14
pubmed: 21123647
FEMS Microbiol Rev. 2016 Nov 1;40(6):961-979
pubmed: 28201744
Appl Environ Microbiol. 2002 Jan;68(1):326-34
pubmed: 11772642
ISME J. 2013 Feb;7(2):395-404
pubmed: 23051694
FEMS Microbiol Rev. 2017 Sep 1;41(5):599-623
pubmed: 28961933
Nat Commun. 2016 Jan 28;7:10541
pubmed: 26817514
FEMS Microbiol Ecol. 2017 Mar 1;93(3):
pubmed: 28115400
Ecology. 2014 Jan;95(1):110-22
pubmed: 24649651
Science. 2018 Aug 3;361(6401):469-474
pubmed: 30072533
Proc Natl Acad Sci U S A. 2010 Aug 10;107(32):14369-72
pubmed: 20660312