Effects of Bacterial Community Members on the Proteome of the Ammonia-Oxidizing Bacterium Nitrosomonas sp Strain Is79

Christopher J. Sedlacek; Susanne Nielsen; Kenneth D. Greis; Wendy D. Haffey; Niels Peter Revsbech; Tomislav Ticak; Hendrikus J. Laanbroek; Annette Bollmann

doi:10.1128/AEM.01171-16

Effects of Bacterial Community Members on the Proteome of the Ammonia-Oxidizing Bacterium Nitrosomonas sp Strain Is79

Christopher J. Sedlacek, Susanne Nielsen, Kenneth D. Greis, Wendy D. Haffey, Niels Peter Revsbech, Tomislav Ticak, Hendrikus J. Laanbroek, Annette Bollmann^*

^*Corresponding author for this work

Department of Biology - Microbiology

Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

43 Citations (Scopus)

Abstract

Microorganisms in the environment do not exist as the often-studied pure cultures but as members of complex microbial communities. Characterizing the interactions within microbial communities is essential to understand their function in both natural and engineered environments. In this study, we investigated how the presence of a nitrite-oxidizing bacterium (NOB) and heterotrophic bacteria affect the growth and proteome of the chemolithoautotrophic ammonia-oxidizing bacterium (AOB) Nitrosomonas sp. strain Is79. We investigated Nitrosomonas sp. Is79 in co-culture with Nitrobacter winogradskyi, in co-cultures with selected heterotrophic bacteria, and as a member of the nitrifying enrichment culture G5-7. In batch culture, N. winogradskyi and heterotrophic bacteria had positive effects on the growth of Nitrosomonas sp. Is79. An isobaric tag for relative and absolute quantification (iTRAQ) liquid chromatography-tandem mass spectrometry (LC-MS/MS) proteomics approach was used to investigate the effect of N. winogradskyi and the co-cultured heterotrophic bacteria from G5-7 on the proteome of Nitrosomonas sp. Is79. In co-culture with N. winogradskyi, several Nitrosomonas sp. Is79 oxidative stress response proteins changed in abundance, with periplasmic proteins increasing and cytoplasmic proteins decreasing in abundance. In the presence of heterotrophic bacteria, the abundance of proteins directly related to the ammonia oxidation pathway increased, while the abundance of proteins related to amino acid synthesis and metabolism decreased. In summary, the proteome of Nitrosomonas sp. Is79 was differentially influenced by the presence of either N. winogradskyi or heterotrophic bacteria. Together, N. winogradskyi and heterotrophic bacteria reduced the oxidative stress for Nitrosomonas sp. Is79, which resulted in more efficient metabolism.

Original language	English
Journal	Applied and Environmental Microbiology
Volume	82
Issue	15
Pages (from-to)	4776-4788
Number of pages	13
ISSN	0099-2240
DOIs	https://doi.org/10.1128/AEM.01171-16
Publication status	Published - Aug 2016

Keywords

AUTOTROPHIC NITRIFYING BIOFILMS
COMPLETE GENOME SEQUENCE
IN-SITU HYBRIDIZATION
16S RIBOSOMAL-RNA
HETEROTROPHIC BACTERIA
AMINO-ACIDS
COMPLETE NITRIFICATION
OXIDATION-KINETICS
SCHELDE ESTUARY
EUROPAEA

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10.1128/AEM.01171-16

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4984276/pdf/zam4776.pdf

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@article{f641ee1652b642f89bd134add1c77abb,

title = "Effects of Bacterial Community Members on the Proteome of the Ammonia-Oxidizing Bacterium Nitrosomonas sp Strain Is79",

abstract = "Microorganisms in the environment do not exist as the often-studied pure cultures but as members of complex microbial communities. Characterizing the interactions within microbial communities is essential to understand their function in both natural and engineered environments. In this study, we investigated how the presence of a nitrite-oxidizing bacterium (NOB) and heterotrophic bacteria affect the growth and proteome of the chemolithoautotrophic ammonia-oxidizing bacterium (AOB) Nitrosomonas sp. strain Is79. We investigated Nitrosomonas sp. Is79 in co-culture with Nitrobacter winogradskyi, in co-cultures with selected heterotrophic bacteria, and as a member of the nitrifying enrichment culture G5-7. In batch culture, N. winogradskyi and heterotrophic bacteria had positive effects on the growth of Nitrosomonas sp. Is79. An isobaric tag for relative and absolute quantification (iTRAQ) liquid chromatography-tandem mass spectrometry (LC-MS/MS) proteomics approach was used to investigate the effect of N. winogradskyi and the co-cultured heterotrophic bacteria from G5-7 on the proteome of Nitrosomonas sp. Is79. In co-culture with N. winogradskyi, several Nitrosomonas sp. Is79 oxidative stress response proteins changed in abundance, with periplasmic proteins increasing and cytoplasmic proteins decreasing in abundance. In the presence of heterotrophic bacteria, the abundance of proteins directly related to the ammonia oxidation pathway increased, while the abundance of proteins related to amino acid synthesis and metabolism decreased. In summary, the proteome of Nitrosomonas sp. Is79 was differentially influenced by the presence of either N. winogradskyi or heterotrophic bacteria. Together, N. winogradskyi and heterotrophic bacteria reduced the oxidative stress for Nitrosomonas sp. Is79, which resulted in more efficient metabolism.",

keywords = "AUTOTROPHIC NITRIFYING BIOFILMS, COMPLETE GENOME SEQUENCE, IN-SITU HYBRIDIZATION, 16S RIBOSOMAL-RNA, HETEROTROPHIC BACTERIA, AMINO-ACIDS, COMPLETE NITRIFICATION, OXIDATION-KINETICS, SCHELDE ESTUARY, EUROPAEA",

author = "Sedlacek, {Christopher J.} and Susanne Nielsen and Greis, {Kenneth D.} and Haffey, {Wendy D.} and Revsbech, {Niels Peter} and Tomislav Ticak and Laanbroek, {Hendrikus J.} and Annette Bollmann",

year = "2016",

month = aug,

doi = "10.1128/AEM.01171-16",

language = "English",

volume = "82",

pages = "4776--4788",

journal = "Applied and Environmental Microbiology",

issn = "0099-2240",

publisher = "American Society for Microbiology",

number = "15",

}

Effects of Bacterial Community Members on the Proteome of the Ammonia-Oxidizing Bacterium Nitrosomonas sp Strain Is79. / Sedlacek, Christopher J.; Nielsen, Susanne; Greis, Kenneth D. et al.
In: Applied and Environmental Microbiology, Vol. 82, No. 15, 08.2016, p. 4776-4788.

Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

TY - JOUR

T1 - Effects of Bacterial Community Members on the Proteome of the Ammonia-Oxidizing Bacterium Nitrosomonas sp Strain Is79

AU - Sedlacek, Christopher J.

AU - Nielsen, Susanne

AU - Greis, Kenneth D.

AU - Haffey, Wendy D.

AU - Revsbech, Niels Peter

AU - Ticak, Tomislav

AU - Laanbroek, Hendrikus J.

AU - Bollmann, Annette

PY - 2016/8

Y1 - 2016/8

N2 - Microorganisms in the environment do not exist as the often-studied pure cultures but as members of complex microbial communities. Characterizing the interactions within microbial communities is essential to understand their function in both natural and engineered environments. In this study, we investigated how the presence of a nitrite-oxidizing bacterium (NOB) and heterotrophic bacteria affect the growth and proteome of the chemolithoautotrophic ammonia-oxidizing bacterium (AOB) Nitrosomonas sp. strain Is79. We investigated Nitrosomonas sp. Is79 in co-culture with Nitrobacter winogradskyi, in co-cultures with selected heterotrophic bacteria, and as a member of the nitrifying enrichment culture G5-7. In batch culture, N. winogradskyi and heterotrophic bacteria had positive effects on the growth of Nitrosomonas sp. Is79. An isobaric tag for relative and absolute quantification (iTRAQ) liquid chromatography-tandem mass spectrometry (LC-MS/MS) proteomics approach was used to investigate the effect of N. winogradskyi and the co-cultured heterotrophic bacteria from G5-7 on the proteome of Nitrosomonas sp. Is79. In co-culture with N. winogradskyi, several Nitrosomonas sp. Is79 oxidative stress response proteins changed in abundance, with periplasmic proteins increasing and cytoplasmic proteins decreasing in abundance. In the presence of heterotrophic bacteria, the abundance of proteins directly related to the ammonia oxidation pathway increased, while the abundance of proteins related to amino acid synthesis and metabolism decreased. In summary, the proteome of Nitrosomonas sp. Is79 was differentially influenced by the presence of either N. winogradskyi or heterotrophic bacteria. Together, N. winogradskyi and heterotrophic bacteria reduced the oxidative stress for Nitrosomonas sp. Is79, which resulted in more efficient metabolism.

AB - Microorganisms in the environment do not exist as the often-studied pure cultures but as members of complex microbial communities. Characterizing the interactions within microbial communities is essential to understand their function in both natural and engineered environments. In this study, we investigated how the presence of a nitrite-oxidizing bacterium (NOB) and heterotrophic bacteria affect the growth and proteome of the chemolithoautotrophic ammonia-oxidizing bacterium (AOB) Nitrosomonas sp. strain Is79. We investigated Nitrosomonas sp. Is79 in co-culture with Nitrobacter winogradskyi, in co-cultures with selected heterotrophic bacteria, and as a member of the nitrifying enrichment culture G5-7. In batch culture, N. winogradskyi and heterotrophic bacteria had positive effects on the growth of Nitrosomonas sp. Is79. An isobaric tag for relative and absolute quantification (iTRAQ) liquid chromatography-tandem mass spectrometry (LC-MS/MS) proteomics approach was used to investigate the effect of N. winogradskyi and the co-cultured heterotrophic bacteria from G5-7 on the proteome of Nitrosomonas sp. Is79. In co-culture with N. winogradskyi, several Nitrosomonas sp. Is79 oxidative stress response proteins changed in abundance, with periplasmic proteins increasing and cytoplasmic proteins decreasing in abundance. In the presence of heterotrophic bacteria, the abundance of proteins directly related to the ammonia oxidation pathway increased, while the abundance of proteins related to amino acid synthesis and metabolism decreased. In summary, the proteome of Nitrosomonas sp. Is79 was differentially influenced by the presence of either N. winogradskyi or heterotrophic bacteria. Together, N. winogradskyi and heterotrophic bacteria reduced the oxidative stress for Nitrosomonas sp. Is79, which resulted in more efficient metabolism.

KW - AUTOTROPHIC NITRIFYING BIOFILMS

KW - COMPLETE GENOME SEQUENCE

KW - IN-SITU HYBRIDIZATION

KW - 16S RIBOSOMAL-RNA

KW - HETEROTROPHIC BACTERIA

KW - AMINO-ACIDS

KW - COMPLETE NITRIFICATION

KW - OXIDATION-KINETICS

KW - SCHELDE ESTUARY

KW - EUROPAEA

UR - http://www.scopus.com/inward/record.url?scp=84979915642&partnerID=8YFLogxK

U2 - 10.1128/AEM.01171-16

DO - 10.1128/AEM.01171-16

M3 - Journal article

C2 - 27235442

SN - 0099-2240

VL - 82

SP - 4776

EP - 4788

JO - Applied and Environmental Microbiology

JF - Applied and Environmental Microbiology

IS - 15

ER -

Effects of Bacterial Community Members on the Proteome of the Ammonia-Oxidizing Bacterium Nitrosomonas sp Strain Is79

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Keywords

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