Rapid succession of uncultured marine bacterial and archaeal populations in a denitrifying continuous culture

Beate Kraft, Halina E Tegetmeyer, Dimitri Meier, Jeanine S Geelhoed, Marc Strous

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningpeer review

Resumé

Marine denitrification constitutes an important part of the global nitrogen cycle and the diversity, abundance and process rates of denitrifying microorganisms have been the focus of many studies. Still, there is little insight in the ecophysiology of marine denitrifying communities. In this study, a heterotrophic denitrifying community from sediments of a marine intertidal flat active in nitrogen cycling was selected in a chemostat and monitored over a period of 50 days. The chemostat enabled the maintenance of constant and well-defined experimental conditions over the time-course of the experiment. Analysis of the microbial community composition by automated ribosomal intergenic spacer analysis (ARISA), Illumina sequencing and catalyzed reporter deposition fluorescence in situ hybridization (CARD-FISH) revealed strong dynamics in community composition over time, while overall denitrification by the enrichment culture was stable. Members of the genera Arcobacter, Pseudomonas, Pseudovibrio, Rhodobacterales and of the phylum Bacteroidetes were identified as the dominant denitrifiers. Among the fermenting organisms co-enriched with the denitrifiers was a novel archaeon affiliated with the recently proposed DPANN-superphylum. The pan-genome of populations affiliated to Pseudovibrio encoded a NirK as well as a NirS nitrite reductase, indicating the rare co-occurrence of both evolutionary unrelated nitrite reductases within coexisting subpopulations.

OriginalsprogEngelsk
TidsskriftEnvironmental Microbiology
Vol/bind16
Udgave nummer10
Sider (fra-til)3275-86
Antal sider12
ISSN1462-2912
DOI
StatusUdgivet - 2014
Udgivet eksterntJa

Fingeraftryk

Nitrite Reductases
nitrite reductase
chemostat
denitrification
nitrite
community composition
denitrifying microorganisms
Rhodobacterales
Arcobacter
Geologic Sediments
ecophysiology
enrichment culture
nitrogen cycle
marine sediments
Archaea
fluorescence in situ hybridization
subpopulation
intergenic DNA
Pseudomonas
Population

Citer dette

Kraft, Beate ; Tegetmeyer, Halina E ; Meier, Dimitri ; Geelhoed, Jeanine S ; Strous, Marc. / Rapid succession of uncultured marine bacterial and archaeal populations in a denitrifying continuous culture. I: Environmental Microbiology. 2014 ; Bind 16, Nr. 10. s. 3275-86.
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Rapid succession of uncultured marine bacterial and archaeal populations in a denitrifying continuous culture. / Kraft, Beate; Tegetmeyer, Halina E; Meier, Dimitri; Geelhoed, Jeanine S; Strous, Marc.

I: Environmental Microbiology, Bind 16, Nr. 10, 2014, s. 3275-86.

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningpeer review

TY - JOUR

T1 - Rapid succession of uncultured marine bacterial and archaeal populations in a denitrifying continuous culture

AU - Kraft, Beate

AU - Tegetmeyer, Halina E

AU - Meier, Dimitri

AU - Geelhoed, Jeanine S

AU - Strous, Marc

N1 - © 2014 Society for Applied Microbiology and John Wiley & Sons Ltd.

PY - 2014

Y1 - 2014

N2 - Marine denitrification constitutes an important part of the global nitrogen cycle and the diversity, abundance and process rates of denitrifying microorganisms have been the focus of many studies. Still, there is little insight in the ecophysiology of marine denitrifying communities. In this study, a heterotrophic denitrifying community from sediments of a marine intertidal flat active in nitrogen cycling was selected in a chemostat and monitored over a period of 50 days. The chemostat enabled the maintenance of constant and well-defined experimental conditions over the time-course of the experiment. Analysis of the microbial community composition by automated ribosomal intergenic spacer analysis (ARISA), Illumina sequencing and catalyzed reporter deposition fluorescence in situ hybridization (CARD-FISH) revealed strong dynamics in community composition over time, while overall denitrification by the enrichment culture was stable. Members of the genera Arcobacter, Pseudomonas, Pseudovibrio, Rhodobacterales and of the phylum Bacteroidetes were identified as the dominant denitrifiers. Among the fermenting organisms co-enriched with the denitrifiers was a novel archaeon affiliated with the recently proposed DPANN-superphylum. The pan-genome of populations affiliated to Pseudovibrio encoded a NirK as well as a NirS nitrite reductase, indicating the rare co-occurrence of both evolutionary unrelated nitrite reductases within coexisting subpopulations.

AB - Marine denitrification constitutes an important part of the global nitrogen cycle and the diversity, abundance and process rates of denitrifying microorganisms have been the focus of many studies. Still, there is little insight in the ecophysiology of marine denitrifying communities. In this study, a heterotrophic denitrifying community from sediments of a marine intertidal flat active in nitrogen cycling was selected in a chemostat and monitored over a period of 50 days. The chemostat enabled the maintenance of constant and well-defined experimental conditions over the time-course of the experiment. Analysis of the microbial community composition by automated ribosomal intergenic spacer analysis (ARISA), Illumina sequencing and catalyzed reporter deposition fluorescence in situ hybridization (CARD-FISH) revealed strong dynamics in community composition over time, while overall denitrification by the enrichment culture was stable. Members of the genera Arcobacter, Pseudomonas, Pseudovibrio, Rhodobacterales and of the phylum Bacteroidetes were identified as the dominant denitrifiers. Among the fermenting organisms co-enriched with the denitrifiers was a novel archaeon affiliated with the recently proposed DPANN-superphylum. The pan-genome of populations affiliated to Pseudovibrio encoded a NirK as well as a NirS nitrite reductase, indicating the rare co-occurrence of both evolutionary unrelated nitrite reductases within coexisting subpopulations.

KW - Archaea

KW - Bacteria

KW - Denitrification

KW - Geologic Sediments

KW - Nitrite Reductases

KW - Oceans and Seas

KW - Phylogeny

KW - Journal Article

KW - Research Support, Non-U.S. Gov't

U2 - 10.1111/1462-2920.12552

DO - 10.1111/1462-2920.12552

M3 - Journal article

VL - 16

SP - 3275

EP - 3286

JO - Environmental Microbiology

JF - Environmental Microbiology

SN - 1462-2912

IS - 10

ER -