Bacterial cleanup: lateral diffusion of hydrophobic molecules through protein channel walls

2010 ◽  
Vol 1 (3-4) ◽  
pp. 263-270 ◽  
Author(s):  
Bert van den Berg

AbstractThe outer membrane (OM) of Gram-negative bacteria forms a very efficient barrier against the permeation of both hydrophilic and hydrophobic compounds, owing to the presence of lipopolysaccharides on the outside of the cell. Although much is known about the OM passage of hydrophilic molecules, it is much less clear how hydrophobic molecules cross this barrier. Members of the FadL channel family, which are widespread in Gram-negative bacteria, are so far the only proteins with an established role in the uptake of hydrophobic molecules across the OM. Recent structural and biochemical research has shown that these channels operate according to a unique lateral diffusion mechanism, in which the substrate moves from the lumen of the barrel into the OM via an unusual opening in the wall of the barrel. Understanding how hydrophobic molecules cross the OM is not only of fundamental importance but could also have applications in the design of novel, hydrophobic drugs, biofuel production and the generation of more efficient bacterial biodegrader strains.

2020 ◽  
Vol 11 (1) ◽  
Author(s):  
Kamolrat Somboon ◽  
Anne Doble ◽  
David Bulmer ◽  
Arnaud Baslé ◽  
Syma Khalid ◽  
...  

AbstractIn modern societies, biodegradation of hydrophobic pollutants generated by industry is important for environmental and human health. In Gram-negative bacteria, biodegradation depends on facilitated diffusion of the pollutant substrates into the cell, mediated by specialised outer membrane (OM) channels. Here we show, via a combined experimental and computational approach, that the uptake of monoaromatic hydrocarbons such as toluene in Pseudomonas putida F1 (PpF1) occurs via lateral diffusion through FadL channels. Contrary to classical diffusion channels via which polar substrates move directly into the periplasmic space, PpF1 TodX and CymD direct their hydrophobic substrates into the OM via a lateral opening in the channel wall, bypassing the polar barrier formed by the lipopolysaccharide leaflet on the cell surface. Our study suggests that lateral diffusion of hydrophobic molecules is the modus operandi of all FadL channels, with potential implications for diverse areas such as biodegradation, quorum sensing and gut biology.


2020 ◽  
Vol 87 ◽  
Author(s):  
Alex Augusto Tomaseto ◽  
Marcel Costa Alpiste ◽  
Alessandra Figueiredo de Castro Nassar ◽  
Suzete Aparecida Lanza Destéfano

ABSTRACT: The genus Streptomyces is associated with the ability to produce and excrete a variety of bioactive compounds, such as antibiotic, antifungal and antiviral. Biological active polyketide and peptide compounds with applications in medicine, agriculture and biochemical research are synthesized by PKS-I and NRPS genes. The evaluation of the presence of these genes associated with the biosynthesis of secondary metabolites in different phytopathogenic Streptomyces strains were performed using degenerated primers. The positive signal was observed in 58/63 Streptomyces strains for NRPS gene, 43/63 for PKS-I, and for PKS-II all the 63 strains showed positive signal of amplification. These strains also were tested with double layer agar-well technique against bacterial with clinical importance, and it was possible to observe the Streptomyces spp. strains were able to inhibit the growth of 14, 20, 13 and 3 isolates Gram-positive and Gram-negative bacteria, Staphylococcus aureus (ATCC 25923), Bacillus cereus (ATCC 14579), Pseudomonas aeruginosa (ATCC 27853) and Escherichia coli (ATCC 11775) respectively. The Streptomyces sp. strains IBSBF 2019 and IBSBF 2397 showed antibacterial activity against all four bacteria-target tested.


2020 ◽  
Author(s):  
Kamolrat Somboon ◽  
Anne Doble ◽  
David Bulmer ◽  
Arnaud Baslé ◽  
Syma Khalid ◽  
...  

AbstractIn modern societies, biodegradation of hydrophobic pollutants generated by industry is important for environmental and human health. In Gram-negative bacteria, biodegradation depends on facilitated diffusion of the pollutant substrates into the cell, mediated by specialised outer membrane (OM) channels. Here we show, via a combined experimental and computational approach, that the uptake of monoaromatic hydrocarbons such as toluene in Pseudomonas putida F1 (PpF1) occurs via lateral diffusion through FadL channels. Contrary to classical diffusion channels via which polar substrates move directly into the periplasmic space, PpF1 TodX and CymD direct their hydrophobic substrates into the OM via a lateral opening in the channel wall, bypassing the polar barrier formed by the lipopolysaccharide leaflet on the cell surface. Our study suggests that lateral diffusion of hydrophobic molecules is the modus operandi of all FadL channels, with potential implications for diverse areas such as biodegradation, quorum sensing and gut biology.


2015 ◽  
Vol 370 (1679) ◽  
pp. 20150029 ◽  
Author(s):  
Brent W. Simpson ◽  
Janine M. May ◽  
David J. Sherman ◽  
Daniel Kahne ◽  
Natividad Ruiz

The cell surface of most Gram-negative bacteria is covered with lipopolysaccharide (LPS). The network of charges and sugars provided by the dense packing of LPS molecules in the outer leaflet of the outer membrane interferes with the entry of hydrophobic compounds into the cell, including many antibiotics. In addition, LPS can be recognized by the immune system and plays a crucial role in many interactions between bacteria and their animal hosts. LPS is synthesized in the inner membrane of Gram-negative bacteria, so it must be transported across their cell envelope to assemble at the cell surface. Over the past two decades, much of the research on LPS biogenesis has focused on the discovery and understanding of Lpt, a multi-protein complex that spans the cell envelope and functions to transport LPS from the inner membrane to the outer membrane. This paper focuses on the early steps of the transport of LPS by the Lpt machinery: the extraction of LPS from the inner membrane. The accompanying paper (May JM, Sherman DJ, Simpson BW, Ruiz N, Kahne D. 2015 Phil. Trans. R. Soc. B 370 , 20150027. ( doi:10.1098/rstb.2015.0027 )) describes the subsequent steps as LPS travels through the periplasm and the outer membrane to its final destination at the cell surface.


2019 ◽  
Author(s):  
Wenfa Ng

Gram-negative bacteria such as Escherichia coli and Salmonella enterica possess two phospholipid bilayer membranes in the cell envelope. Known as the inner and outer membrane, proteins encased in the outer membrane as well as surface moieties displayed by the membrane play important roles in host-cell recognition, cell-cell interactions and triggering of immune response in host. One such molecule that partakes in triggering immune responses in human is lipopolysaccharides that constitute the outer leaflet of the outer membrane of Gram-negative bacteria. Specifically, recent research has added new details and mechanisms for the elaborate choreographed enzymatic reactions that synthesize lipopolysaccharides. In particular, lipopolysaccharides are synthesized in the inner membrane and transported to the outer membrane through a dedicated protein channel formed by proteins of the same lipopolysaccharide synthesis pathway. In short, significant amount of proteins and cellular resources are expended in the synthesis and transport of lipopolysaccharides which suggests important evolutionary significance and functionality of the molecule. Specifically, evolutionary significance of lipopolysaccharide can be gleaned from the organisation of the pathway that mediate its synthesis, where dedicated channels are constructed from proteins to help the unidirectional transfer of the molecule from the inner to outer membrane. Such dedicated channels are not of high occurrence in cells, which suggests critical functional importance of lipopolysaccharides to Gram-negative bacteria. Perhaps, signalling mechanisms responsible for cell-cell interactions are mediated by lipopolysaccharides, or the molecule might play important roles in cellular recognition between different bacterial species in community assemblage such as biofilm. Collectively, mechanistic studies aimed at understanding the formation of the outer membrane of Gram-negative bacteria has opened our eyes to the elaborate mechanism by which lipopolysaccharides on the outer leaflet of the outer membrane are synthesized. Comprising a synthetic machinery and a dedicated protein channel for transporting the synthesized lipopolysaccharides from the inner to outer membrane, a dedicated pathway of proteins mediates the synthesis of this molecule; thereby, pointing to its functional importance to the bacterial cell. While lipopolysaccharides are known to trigger immune responses in humans, its potential broader role in cell-cell communications such as those important for maintaining organisation and community structure in biofilm communities remain unappreciated. Overall, given the significant amount of energy and cellular resources dedicated to its synthesis, lipopolysaccharides should have broader functional roles and might partake in many as-yet unknown signalling and metabolic activities at the cellular and community level.


2019 ◽  
Author(s):  
Wenfa Ng

Gram-negative bacteria such as Escherichia coli and Salmonella enterica possess two phospholipid bilayer membranes in the cell envelope. Known as the inner and outer membrane, proteins encased in the outer membrane as well as surface moieties displayed by the membrane play important roles in host-cell recognition, cell-cell interactions and triggering of immune response in host. One such molecule that partakes in triggering immune responses in human is lipopolysaccharides that constitute the outer leaflet of the outer membrane of Gram-negative bacteria. Specifically, recent research has added new details and mechanisms for the elaborate choreographed enzymatic reactions that synthesize lipopolysaccharides. In particular, lipopolysaccharides are synthesized in the inner membrane and transported to the outer membrane through a dedicated protein channel formed by proteins of the same lipopolysaccharide synthesis pathway. In short, significant amount of proteins and cellular resources are expended in the synthesis and transport of lipopolysaccharides which suggests important evolutionary significance and functionality of the molecule. Specifically, evolutionary significance of lipopolysaccharide can be gleaned from the organisation of the pathway that mediate its synthesis, where dedicated channels are constructed from proteins to help the unidirectional transfer of the molecule from the inner to outer membrane. Such dedicated channels are not of high occurrence in cells, which suggests critical functional importance of lipopolysaccharides to Gram-negative bacteria. Perhaps, signalling mechanisms responsible for cell-cell interactions are mediated by lipopolysaccharides, or the molecule might play important roles in cellular recognition between different bacterial species in community assemblage such as biofilm. Collectively, mechanistic studies aimed at understanding the formation of the outer membrane of Gram-negative bacteria has opened our eyes to the elaborate mechanism by which lipopolysaccharides on the outer leaflet of the outer membrane are synthesized. Comprising a synthetic machinery and a dedicated protein channel for transporting the synthesized lipopolysaccharides from the inner to outer membrane, a dedicated pathway of proteins mediates the synthesis of this molecule; thereby, pointing to its functional importance to the bacterial cell. While lipopolysaccharides are known to trigger immune responses in humans, its potential broader role in cell-cell communications such as those important for maintaining organisation and community structure in biofilm communities remain unappreciated. Overall, given the significant amount of energy and cellular resources dedicated to its synthesis, lipopolysaccharides should have broader functional roles and might partake in many as-yet unknown signalling and metabolic activities at the cellular and community level.


Author(s):  
Roger C. Wagner

Bacteria exhibit the ability to adhere to the apical surfaces of intestinal mucosal cells. These attachments either precede invasion of the intestinal wall by the bacteria with accompanying inflammation and degeneration of the mucosa or represent permanent anchoring sites where the bacteria never totally penetrate the mucosal cells.Endemic gram negative bacteria were found attached to the surface of mucosal cells lining the walls of crypts in the rat colon. The bacteria did not intrude deeper than 0.5 urn into the mucosal cells and no degenerative alterations were detectable in the mucosal lining.


Author(s):  
Jacob S. Hanker ◽  
Paul R. Gross ◽  
Beverly L. Giammara

Blood cultures are positive in approximately only 50 per cent of the patients with nongonococcal bacterial infectious arthritis and about 20 per cent of those with gonococcal arthritis. But the concept that gram-negative bacteria could be involved even in chronic arthritis is well-supported. Gram stains are more definitive in staphylococcal arthritis caused by gram-positive bacteria than in bacterial arthritis due to gram-negative bacteria. In the latter situation where gram-negative bacilli are the problem, Gram stains are helpful for 50% of the patients; they are only helpful for 25% of the patients, however, where gram-negative gonococci are the problem. In arthritis due to gram-positive Staphylococci. Gramstained smears are positive for 75% of the patients.


Author(s):  
Xie Nianming ◽  
Ding Shaoqing ◽  
Wang Luping ◽  
Yuan Zenglin ◽  
Zhan Guolai ◽  
...  

Perhaps the data about periplasmic enzymes are obtained through biochemical methods but lack of morphological description. We have proved the existence of periplasmic bodies by electron microscope and described their ultrastructures. We hope this report may draw the attention of biochemists and mrophologists to collaborate on researches in periplasmic enzymes or periplasmic bodies with each other.One or more independent bodies may be seen in the periplasmic space between outer and inner membranes of Gram-negative bacteria, which we called periplasmic bodies. The periplasmic bodies have been found in seven species of bacteria at least, including the Pseudomonas aeroginosa. Shigella flexneri, Echerichia coli. Yersinia pestis, Campylobacter jejuni, Proteus mirabilis, Clostridium tetani. Vibrio cholerae and Brucella canis.


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