Expression of glutamine synthetase and glutamate dehydrogenase by marine bacterioplankton: Assay optimizations and efficacy for assessing nitrogen to carbon metabolic balance in situ

Hoch, Matthew P.; Snyder, Richard A.; Jeffrey, Wade H.; Dillon, Kevin S.; Coffin, Richard B.

doi:10.4319/lom.2006.4.308

Cited by 14 publications

(13 citation statements)

References 60 publications

(67 reference statements)

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“…In addition, glutamine synthetases and nitrogen regulatory P-II proteins, which are involved in the assimilation of ammonium into amino acids and nitrogen assimilation regulation, respectively, were frequently detected. Marine bacterioplankton express glutamine synthetase when dissolved organic or inorganic nitrogen is limiting in the environment (Hoch et al, 2006). Nitrogen regulatory protein P-II can activate the expression of ammonia transporters, glutamine synthetase and amino acid permease when bacterial cells are grown under nitrogen-limiting conditions (Zimmer et al, 2000).…”

Section: Nitrogen Assimilationmentioning

confidence: 99%

Metaproteomics reveals the major microbial players and their biogeochemical functions in a productive coastal system in the northern South China Sea

Dong

Hong

Lü

et al. 2014

Environ Microbiol Rep

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We study the metaproteome of the GF/F-prefiltered fraction of a microbial community from Shantou coast summer surface waters using a shotgun proteomic approach. Spectra attributed to the marine Roseobacter clade (MRC), the oligotrophic marine Gammaproteobacteria (OMG) group and Flavobacteria dominated in the microbial community, accounting for 21.0%, 23.2% and 12.7% of all of the detected spectra, respectively, whereas the SAR 92 clade accounted for 50% of the OMG group. The abundance of TonB-dependent receptors (TBDRs) was detected and the majority of TBDRs were attributed to the OMG, whereas a large number of ABC transporters matched to the MRC, which suggests niche separation in the microbial community. Expression of proteorhodopsin and RagB/SusD from Flavobacteria facilitates their attachment and growth on algal-derived organic matter. Taurine and glycine betaine appear to be an important source of carbon and nitrogen for the Rhodobacteraceae and SAR11 cluster. The detection of carbon monoxide dehydrogenase, formate dehydrogenase, O-acetylhomoserine sulfhydrylase and sulfur oxidation protein from the MRC demonstrated that members of the MRC play important roles in coastal ocean biogeochemical cycles. This study provides the first insight into functional processes occurring in microbial communities in coastal waters in the South China Sea.

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Section: Nitrogen Assimilationmentioning

confidence: 99%

Metaproteomics reveals the major microbial players and their biogeochemical functions in a productive coastal system in the northern South China Sea

Dong

Hong

Lü

et al. 2014

Environ Microbiol Rep

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“…Glutamine synthetase, which is involved in the assimilation of ammonium into amino acids, was also frequently detected, with 147 spectra matching 151 eCDSs identified. Hoch et al (2006) noted that marine bacterioplankton express this enzyme when dissolved organic or inorganic nitrogen is limiting in the environment. The presence of glutamine synthetase in coastal seawater in conjunction with high levels of expression of transporters whose substrate specificities are for nitrogen-containing compounds indicates that, in the nutrient-repleted Oregon coastal summer surface water, nitrogen may be more limiting than phosphorus or perhaps even carbon.…”

Section: Frequently Detected Proteinsmentioning

confidence: 99%

Environmental proteomics of microbial plankton in a highly productive coastal upwelling system

et al. 2010

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Metaproteomics is one of a suite of new approaches providing insights into the activities of microorganisms in natural environments. Proteins, the final products of gene expression, indicate cellular priorities, taking into account both transcriptional and posttranscriptional control mechanisms that control adaptive responses. Here, we report the proteomic composition of the o 1.2 lm fraction of a microbial community from Oregon coast summer surface waters, detected with two-dimensional liquid chromatography coupled with electrospray tandem mass spectrometry. Spectra corresponding to proteins involved in protein folding and biosynthesis, transport, and viral capsid structure were the most frequently detected. A total of 36% of all the detected proteins were best matches to the SAR11 clade, and other abundant coastal microbial clades were also well represented, including the Roseobacter clade (17%), oligotrophic marine gammaproteobacteria group (6%), OM43 clade (1%). Viral origins were attributed to 2.5% of proteins. In contrast to oligotrophic waters, phosphate transporters were not highly detected in this nutrient-rich system. However, transporters for amino acids, taurine, polyamines and glutamine synthetase were among the most highly detected proteins, supporting predictions that carbon and nitrogen are more limiting than phosphate in this environment. Intriguingly, one of the highly detected proteins was methanol dehydrogenase originating from the OM43 clade, providing further support for recent reports that the metabolism of one-carbon compounds by these streamlined methylotrophs might be an important feature of coastal ocean biogeochemistry.

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“…litchfieldiae and Hrr. lacusprofundi would be consistent with nitrogen limitation relative to carbon (28,44). DL31 is the second most abundant organism in Deep Lake, and GS was not detected, which may indicate that DL31 was not nitrogen limited.…”

Section: Figmentioning

confidence: 69%

Ecophysiological Distinctions of Haloarchaea from a Hypersaline Antarctic Lake as Determined by Metaproteomics

Tschitschko

Williams

Allen

et al. 2016

Appl Environ Microbiol

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Deep Lake in the Vestfold Hills is hypersaline and the coldest system in Antarctica known to support microbial growth (temperatures as low as ؊20°C). It represents a strong experimental model because the lake supports a low-complexity community of haloarchaea, with the three most abundant species totaling ϳ72%. Moreover, the dominant haloarchaea are cultivatable, and their genomes are sequenced. Here we use metaproteomics linked to metagenome data and the genome sequences of the isolates to characterize the main pathways, trophic strategies, and interactions associated with resource utilization. The dominance of the most abundant member, Halohasta litchfieldiae, appears to be predicated on competitive utilization of substrates (e.g., starch, glycerol, and dihydroxyacetone) produced by Dunaliella, the lake's primary producer, while also possessing diverse mechanisms for acquiring nitrogen and phosphorus. The second most abundant member, strain DL31, is proficient in degrading complex proteinaceous matter. Hht. litchfieldiae and DL31 are inferred to release labile substrates that are utilized by Halorubrum lacusprofundi, the third most abundant haloarchaeon in Deep Lake. The study also linked genome variation to specific protein variants or distinct genetic capacities, thereby identifying strain-level variation indicative of specialization. Overall, metaproteomics revealed that rather than functional differences occurring at different lake depths or through size partitioning, the main lake genera possess major trophic distinctions, and phylotypes (e.g., strains of Hht. litchfieldiae) exhibit a more subtle level of specialization. This study highlights the extent to which the lake supports a relatively uniform distribution of taxa that collectively possess the genetic capacity to effectively exploit available nutrients throughout the lake. IMPORTANCELife on Earth has evolved to colonize a broad range of temperatures, but most of the biosphere (ϳ85%) exists at low temperatures (<5°C). By performing unique roles in biogeochemical cycles, environmental microorganisms perform functions that are critical for the rest of life on Earth to survive. Cold environments therefore make a particularly important contribution to maintaining healthy, stable ecosystems. Here we describe the main physiological traits of the dominant microorganisms that inhabit Deep Lake in Antarctica, the coldest aquatic environment known to support life. The hypersaline system enables the growth of halophilic members of the Archaea: haloarchaea. By analyzing proteins of samples collected from the water column, we determined the functions that the haloarchaea were likely to perform. This study showed that the dominant haloarchaea possessed distinct lifestyles yet formed a uniform community throughout the lake that was collectively adept at using available light energy and diverse organic substrates for growth.

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Expression of glutamine synthetase and glutamate dehydrogenase by marine bacterioplankton: Assay optimizations and efficacy for assessing nitrogen to carbon metabolic balance in situ

Cited by 14 publications

References 60 publications

Metaproteomics reveals the major microbial players and their biogeochemical functions in a productive coastal system in the northern South China Sea

Metaproteomics reveals the major microbial players and their biogeochemical functions in a productive coastal system in the northern South China Sea

Environmental proteomics of microbial plankton in a highly productive coastal upwelling system

Ecophysiological Distinctions of Haloarchaea from a Hypersaline Antarctic Lake as Determined by Metaproteomics

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