Distribution and Functions of TonB-Dependent Transporters in Marine Bacteria and Environments: Implications for Dissolved Organic Matter Utilization

Tang, Kai; Jiao, Nianzhi; Liu, Keshao; Zhang, Yao; Li, Shuhui

doi:10.1371/journal.pone.0041204

Cited by 95 publications

(103 citation statements)

References 71 publications

(110 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The TBDT family contains integral membrane proteins that use proton gradients, like the ones produced by PR, to transport molecules of different molecular weight across the outer bacterial membrane (reviewed by Tang et al, 2012). Their high expression supports previous results on the lifestyle of Flavobacteria as degraders of high molecular weight compounds (Cottrell and Kirchman, 2000;Cottrell et al, 2005;Teeling et al, 2012).…”

Section: Proton Motive Force (Pmf)-dependent Processessupporting

confidence: 74%

“…However, analysis of operons suggests that they might be involved in the uptake of polysaccharides, peptides, heme groups and/or vitamins. In our study, we observed two susC TBDT of particularly high expression in MED134 and DSW-1 T (MED134_12381 and MED134_05219) (Supplementary Table S2), which are possibly involved in the uptake of high molecular weight compounds such as proteins or complex carbohydrates (González et al, 2011;Tang et al, 2012).…”

Section: Proton Motive Force (Pmf)-dependent Processesmentioning

confidence: 68%

See 1 more Smart Citation

Proteorhodopsin light-enhanced growth linked to vitamin-B1 acquisition in marine Flavobacteria

et al. 2015

View full text Add to dashboard Cite

Proteorhodopsins (PR) are light-driven proton pumps widely distributed in bacterioplankton. Although they have been thoroughly studied for more than a decade, it is still unclear how the proton motive force (pmf) generated by PR is used in most organisms. Notably, very few PR-containing bacteria show growth enhancement in the light. It has been suggested that the presence of specific functions within a genome may define the different PR-driven light responses. Thus, comparing closely related organisms that respond differently to light is an ideal setup to identify the mechanisms involved in PR light-enhanced growth. Here, we analyzed the transcriptomes of three PR-harboring Flavobacteria strains of the genus Dokdonia: Dokdonia donghaensis DSW-1 T , Dokdonia MED134 and Dokdonia PRO95, grown in identical seawater medium in light and darkness. Although only DSW-1 T and MED134 showed light-enhanced growth, all strains expressed their PR genes at least 10 times more in the light compared with dark. According to their genomes, DSW-1 T and MED134 are vitamin-B 1 auxotrophs, and their vitamin-B 1 TonB-dependent transporters (TBDT), accounted for 10-18% of all pmf-dependent transcripts. In contrast, the expression of vitamin-B 1 TBDT was 10 times lower in the prototroph PRO95, whereas its vitamin-B 1 synthesis genes were among the highest expressed. Our data suggest that light-enhanced growth in DSW-1 T and MED134 derives from the use of PR-generated pmf to power the uptake of vitamin-B 1 , essential for central carbon metabolism, including the TCA cycle. Other pmf-generating mechanisms available in darkness are probably insufficient to power transport of enough vitamin-B 1 to support maximum growth of these organisms.

show abstract

Section: Proton Motive Force (Pmf)-dependent Processessupporting

confidence: 74%

Section: Proton Motive Force (Pmf)-dependent Processesmentioning

confidence: 68%

Proteorhodopsin light-enhanced growth linked to vitamin-B1 acquisition in marine Flavobacteria

et al. 2015

View full text Add to dashboard Cite

show abstract

“…Bacteroidetes are particularly rich in carbohydrate-assimilation TBDT (Blanvillain et al, 2007;González et al, 2008;Hehemann et al, 2010;Tang et al, 2012) and biopolymer degradation enzymes (McBride et al, 2009;Hehemann et al, 2010;Qin et al, 2010;Thomas et al, 2012;Mann et al, 2013). Many Bacteroidetes glycoside hydrolase genes are organized in polysaccharide utilization loci, usually clustered with genes for TonB-dependent receptors, SusD-like proteins, sensors/transcription factors, transporters and frequently with genes for sulfatases (McBride et al, 2009;Hehemann et al, 2010;Qin et al, 2010;Thomas et al, 2012;Fernández-Gómez et al, 2013;Mann et al, 2013).…”

Section: Tonb-dependent Transportersmentioning

confidence: 99%

Perspectives on the microbial carbon pump with special reference to microbial respiration and ecosystem efficiency in large estuarine systems

Dang

Jiao

2014

Biogeosciences

View full text Add to dashboard Cite

Abstract. Although respiration-based oxidation of reduced carbon releases CO 2 into the environment, it provides an ecosystem with the metabolic energy for essential biogeochemical processes, including the newly proposed microbial carbon pump (MCP). The efficiency of MCP in heterotrophic microorganisms is related to the mechanisms of energy transduction employed and hence is related to the form of respiration utilized. Anaerobic organisms typically have lower efficiencies of energy transduction and hence lower efficiencies of energy-dependent carbon transformation. This leads to a lower MCP efficiency on a per-cell basis. Substantial input of terrigenous nutrients and organic matter into estuarine ecosystems typically results in elevated heterotrophic respiration that rapidly consumes dissolved oxygen, potentially producing hypoxic and anoxic zones in the water column. The lowered availability of dissolved oxygen and the excessive supply of nutrients such as nitrate from river discharge lead to enhanced anaerobic respiration processes such as denitrification and dissimilatory nitrate reduction to ammonium. Thus, some nutrients may be consumed through anaerobic heterotrophs, instead of being utilized by phytoplankton for autotrophic carbon fixation. In this manner, eutrophied estuarine ecosystems become largely fueled by anaerobic respiratory pathways and their efficiency is less due to lowered ecosystem productivity when compared to healthy and balanced estuarine ecosystems. This situation may have a negative impact on the ecological function and efficiency of the MCP which depends on the supply of both organic carbon and metabolic energy. This review presents our current understanding of the MCP mechanisms from the view point of ecosystem energy transduction efficiency, which has not been discussed in previous literature.

show abstract

“…For example, studies in which commercially available organic compounds are added to seawater to evaluate effects on microbial diversity have become commonplace and, although they unfortunately yield little insight into how microbes consume DOM (e.g. , Nelson & Carlson 2012, Gómez-Consarnau et al 2012, they have been instrumental in constructing a paradigm regarding trophic strategies among different heterotrophic bacterioplankton (Tang et al 2012). The recent addition of gene and protein expression analyses to these experiments is providing a first glimpse at the physiology behind the consumption of specific DOM components (Vila-Costa et al 2010, Mou et al 2011, sources (Poretsky et al 2010, Rinta-Kanto et al 2011, Teeling et al 2012, and size fractions .…”

Section: An Interdisciplinary Approachmentioning

confidence: 99%

“…Organisms of the OM60 clade contain anywhere from 27 to 37 TBDT per genome, indicating that these types of transporters play a large role in complementing the nutritional requirements of the cell (Tang et al, 2012).…”

Section: Om60 Cladementioning

confidence: 99%

Microbial production and consumption of marine dissolved organic matter

Becker¹

2013

View full text Add to dashboard Cite

Marine phytoplankton are the principal producers of oceanic dissolved organic matter (DOM), the organic substrate responsible for secondary production by heterotrophic microbes in the sea. Despite the importance of DOM in marine food webs, details regarding how marine microbes cycle DOM are limited, and few definitive connections have been made between specific producers and consumers. Consumption is thought to depend on the source of the DOM as well as the identity of the consumer; however, it remains unclear how phytoplankton diversity and DOM composition are related, and the metabolic pathways involved in the turnover of DOM by different microbial taxa are largely unknown. The motivation for this thesis is to examine the role of microbial diversity in determining the composition, lability, and physiological consumption of marine DOM. The chemical composition of DOM produced by marine phytoplankton was investigated at the molecular level using mass spectrometry. Results demonstrate that individual phytoplankton strains release a unique suite of organic compounds. Connections between DOM composition and the phylogenetic identity of the producing organism were identified on multiple levels, revealing a direct relationship between phytoplankton diversity and DOM composition. Phytoplankton-derived DOM was also employed in growth assays with oligotrophic bacterioplankton strains to examine effects on heterotrophic growth dynamics. Reproducible responses ranged from suppressed to enhanced growth rates and cell yields, and depended both on the identity of the heterotroph and the source of the DOM. Novel relationships between specific bacterioplankton types and DOM from known biological sources were found, and targets for additional studies on reactive DOM components were identified. The physiology of DOM consumption by a marine Oceanospirillales strain was studied using a combined transcriptomic and untargeted metabolomic approach. The transcriptional response of this bacterium to Prochlorococcus-derived DOM revealed an increase in anabolic processes related to metabolism of carboxylic acids and glucosides, increased gene expression related to proteorhodopsin-based phototrophy, and decreased gene expression related to motility. Putative identification of compounds present in Prochlorococcus-derived DOM supported these responses. Collectively, these findings highlight the potential for linking detailed chemical analyses of labile DOM from a known biological source with bacterioplankton diversity and physiology. My parents and my brother, Bob, Ellen, & Brian, who taught me young to pursue whatever it is that makes me happy. You've not only stood by my side, but also kept me from falling on many occasions.And finally…the menagerie. For love. For perspective. Misty, Will, Pac, & Lexi -I wouldn't trade a single crazy day. 6All things are one thing and that one thing is all things -plankton, a shimmering phosphorescence on the sea and the spinning planets and an expanding universe, all bound together by the elastic string ...

show abstract

Distribution and Functions of TonB-Dependent Transporters in Marine Bacteria and Environments: Implications for Dissolved Organic Matter Utilization

Cited by 95 publications

References 71 publications

Proteorhodopsin light-enhanced growth linked to vitamin-B1 acquisition in marine Flavobacteria

Proteorhodopsin light-enhanced growth linked to vitamin-B1 acquisition in marine Flavobacteria

Perspectives on the microbial carbon pump with special reference to microbial respiration and ecosystem efficiency in large estuarine systems

Microbial production and consumption of marine dissolved organic matter

Contact Info

Product

Resources

About