scholarly journals A nitrite-oxidizing bacterium constitutively consumes atmospheric hydrogen

2021 ◽  
Author(s):  
Pok Man Leung ◽  
Anne Daebeler ◽  
Eleonora Chiri ◽  
Paul R. F. Cordero ◽  
Iresha Hanchapola ◽  
...  

Chemolithoautotrophic nitrite-oxidizing bacteria (NOB) of the genus Nitrospira contribute to nitrification in diverse natural environments and engineered systems. Nitrospira are thought to be well-adapted to substrate limitation owing to their high affinity for nitrite and capacity to use alternative energy sources. Here, we demonstrate that the canonical nitrite oxidizer Nitrospira moscoviensis oxidizes hydrogen (H2) below atmospheric levels using a high-affinity group 2a nickel-iron hydrogenase [Km(app) = 32 nM]. Atmospheric H2 oxidation occurred under both nitrite-replete and nitrite-deplete conditions, suggesting low-potential electrons derived from H2 oxidation promote nitrite-dependent growth and enable survival during nitrite limitation. Proteomic analyses confirmed the hydrogenase was abundant under both conditions and indicated extensive metabolic changes occur to reduce energy expenditure and growth under nitrite-deplete conditions. Respirometry analysis indicates the hydrogenase and nitrite oxidoreductase are bona fide components of the aerobic respiratory chain of N. moscoviensis, though they transfer electrons to distinct electron carriers in accord with the contrasting redox potentials of their substrates. Collectively, this study suggests atmospheric H2 oxidation enhances the growth and survival of NOB in amid variability of nitrite supply. These findings also extend the phenomenon of atmospheric H2 oxidation to a seventh phylum (Nitrospirota) and reveal unexpected new links between the global hydrogen and nitrogen cycles.

Author(s):  
Anna J. Mueller ◽  
Man-Young Jung ◽  
Cameron R. Strachan ◽  
Craig W. Herbold ◽  
Rasmus H. Kirkegaard ◽  
...  

Abstract Chemolithoautotrophic nitrite-oxidizing bacteria (NOB) are key players in global nitrogen and carbon cycling. Members of the phylum Nitrospinae are the most abundant, known NOB in the oceans. To date, only two closely affiliated Nitrospinae species have been isolated, which are only distantly related to the environmentally abundant uncultured Nitrospinae clades. Here, we applied live cell sorting, activity screening, and subcultivation on marine nitrite-oxidizing enrichments to obtain novel marine Nitrospinae. Two binary cultures were obtained, each containing one Nitrospinae strain and one alphaproteobacterial heterotroph. The Nitrospinae strains represent two new genera, and one strain is more closely related to environmentally abundant Nitrospinae than previously cultured NOB. With an apparent half-saturation constant of 8.7 ± 2.5 µM, this strain has the highest affinity for nitrite among characterized marine NOB, while the other strain (16.2 ± 1.6 µM) and Nitrospina gracilis (20.1 ± 2.1 µM) displayed slightly lower nitrite affinities. The new strains and N. gracilis share core metabolic pathways for nitrite oxidation and CO2 fixation but differ remarkably in their genomic repertoires of terminal oxidases, use of organic N sources, alternative energy metabolisms, osmotic stress and phage defense. The new strains, tentatively named “Candidatus Nitrohelix vancouverensis” and “Candidatus Nitronauta litoralis”, shed light on the niche differentiation and potential ecological roles of Nitrospinae.


1983 ◽  
Vol 40 (7) ◽  
pp. 948-954 ◽  
Author(s):  
Andre L. Mallet ◽  
L. E. Haley

Phenotypic differences were observed among pure population matings and crosses grown in two natural environments for the following characters: larval shell length, juvenile and adult shell length, weight, and survival at different times. For growth characters, the phenotypic variability between locations was greater than the variability among genetic groups within locations; however, the magnitude of the differences depended on the locality. The crosses exhibited higher survival than pure population matings, and locality had no effect on survival. In growth and survival, some crosses deviated positively from the mean of the parental populations. This may be a manifestation of heterosis. The genetic enhancement of commercially important characters in shellfish will eventually require the formation of a closed breeding unit with a broad genetic base for domestication and selection. It is recommended that an evaluation of natural populations as outlined in this study is a necessary prerequisite to achieve this objective.


2020 ◽  
Author(s):  
Anna J. Mueller ◽  
Man-Young Jung ◽  
Cameron R. Strachan ◽  
Craig W. Herbold ◽  
Rasmus H. Kirkegaard ◽  
...  

AbstractChemolithoautotrophic nitrite-oxidizing bacteria (NOB) are key players in global nitrogen and carbon cycling. Members of the phylum Nitrospinae are the most abundant, known NOB in the oceans. To date, only two closely affiliated Nitrospinae species have been isolated, which are only distantly related to the environmentally abundant uncultured Nitrospinae clades. Here, we applied live cell sorting, activity screening, and subcultivation on marine nitrite-oxidizing enrichments to obtain novel marine Nitrospinae. Two binary cultures were obtained, each containing one Nitrospinae strain and one alphaproteobacterial heterotroph. The Nitrospinae strains represent two new genera, and one strain is more closely related to environmentally abundant Nitrospinae than previously cultured NOB. With an apparent half-saturation constant of 8.7±2.5 µM, this strain has the highest affinity for nitrite among characterized marine NOB, while the other strain (16.2±1.6 µM) and Nitrospina gracilis (20.1±2.1 µM) displayed slightly lower nitrite affinities. The new strains and N. gracilis share core metabolic pathways for nitrite oxidation and CO2 fixation but differ remarkably in their genomic repertoires of terminal oxidases, use of organic N sources, alternative energy metabolisms, osmotic stress and phage defense. The new strains, tentatively named “Candidatus Nitrohelix vancouverensis” and “Candidatus Nitronauta litoralis”, shed light on the niche differentiation and potential ecological roles of Nitrospinae.


Blood ◽  
2008 ◽  
Vol 112 (11) ◽  
pp. 3245-3245
Author(s):  
Mitsufumi Nishio ◽  
Tomoyuki Endo ◽  
Katsuya Fujimoto ◽  
Satoshi Yamamoto ◽  
Masato Obara ◽  
...  

Abstract Recent studies have indicated that patients who receive stem cell transplantation (SCT) and an adjuvant rituximab demonstrate an increased risk of developing hypogammaglobulinemia. We have found that such hypogammaglobulinemia were due to the delayed recovery of memory B cells with an abnormal cell marker expression and impaired immunoglobulin production in vitro. (Nishio et al. Eur J Haemtol, 2006, Nishio et al. Br J Haematol, 2007) However, no speculation has been made regarding what factor(s) determined the risk of developing hypogammaglobulinemia after autologous SCT with the identical conditioning regimen and rituximab. Accumulated evidences have shown that FCGR3A of valine (V) allele has a higher affinity to human IgG than the phenylalanine (F) allele, and that cells bearing the FCGR3A V allele mediate antibody dependent cellular cytotoxicity more effectively. Compatibly, previous clinical studies that have examined single nucleotide polymorphisms (SNPs) of Fc receptor genes demonstrated that FCGR3A gene SNPs are associated with the response to rituximab, as a single agent, in patients with follicular lymphoma or Waldenstrom’s macroglobulinemia. These findings suggest that FCGR3A SNPs may be related to the levels of immunoglobulin after SCT and an adjuvant rituximab. To clarify this hypothesis, the FCGR3A-158V/F genotype and the levels of serum immunoglobulin six months after SCT were tested in twenty non- Hodgkin’s lymphoma (NHL) patients having received autlogous peripheral blood stem cell transplantation (APBSCT) with an adjuvant rituximab. We also compared the levels of immunoglobulin in ten NHL patients who received an identical conditioning regimen and APBSCT, but no rituximab (control group). Of the twenty patients tested for the FCGR3A-158V/F polymorphism, seven patients (35%) had homozygous F/F (158 F/F), 12 (60%) had heterozygous V/F (158 V/F), and one (5%) had homozygous V/V (158 V/V). Since only one patient was found to have 158 V/V polymorphism in this study, we defined those patients who had 158 F/F as the low affinity group, while those who had at least one 158 V allele were defined as the high affinity group following the previous definition by Anolik et al (Arthritis Rheum 2003). The three groups were not different in terms of gender, age, the disease stage, bone marrow involvement or number of extranodal sites involved at diagnosis. Before starting induction therapy, there was no significant difference in the levels of immunoglobulin among three groups. However, after APBSCT, the levels of IgG were significantly lower in the low affinity group (6.87 ± 2.38 g/l) than those in the high affinity group (10.20 ± 2.43 g/l) and control group (10.64 ± 3.04 g/l; both P<0.05). In addition, a significant difference was seen in the levels of IgA between the low affinity group (0.95 ± 0.64 g/l) and control group (1.63 ± 0.51 g/l) (P<0.05). The levels of IgA in the high affinity group (1.19 ± 0.55 g/l) were not significantly different from either those of control group or the low affinity group. In contrast to the levels of IgG or IgA, no significant differences were observed in the levels of IgM among three groups. These data suggest that the FCGR3A genotype may influence not only the outcome of rituximab therapy, but also the levels of IgG and IgA after APBSCT and rituximab.


2006 ◽  
Vol 72 (6) ◽  
pp. 3993-4000 ◽  
Author(s):  
Fanny Ewann ◽  
Paul S. Hoffman

ABSTRACT Growth of Legionella pneumophila on buffered charcoal-yeast extract (BCYE) medium is dependent on l-cysteine (but not l-cystine), which is added in excess over what is required for nutrition. We investigated the biochemical and genetic bases for this unusual requirement and determined that much of the l-cysteine in BCYE medium is rapidly oxidized to l-cystine and is unavailable to the bacteria. Analysis of cysteine consumption during bacterial growth indicated that of the 11% consumed, 3.85% (∼0.1 mM) was incorporated into biomass. The activities of two key cysteine biosynthetic enzymes (serine acetyltransferase and cysteine synthase) were not detected in cell extracts of L. pneumophila, and the respective genes were not present in the genome sequences, confirming cysteine auxotrophy. Kinetic studies identified two energy-dependent cysteine transporters, one with high affinity (apparent Km , 3.29 μM) and the other with low affinity (apparent Km , 93 μM), each of which was inhibited by the uncoupling agent carbonyl cyanide m-chlorophenylhydrazone. Cystine was not transported by L. pneumophila; however, a mutant strain capable of growth on l-cystine (CYS1 mutant) transported l-cystine with similar kinetics (Km , 4.4 μM and 90 μM). Based on the bipartite kinetics, requirement for proton motive force, and inhibitor studies, we suggest that a high-affinity periplasmic binding protein and a major facilitator/symporter (low affinity) mediate uptake. The latter most likely is functional at high cysteine concentrations and most likely displays altered substrate specificity in the CYS-1 mutant. Our studies provide biochemical evidence to support a general view that L. pneumophila is restricted to an intracellular lifestyle in natural environments by an inability to utilize cystine, which most likely ensures that the dormant cyst-like transmissible forms do not germinate outside suitable protozoan hosts.


2013 ◽  
Vol 1569 ◽  
pp. 245-249
Author(s):  
Arishaun Donald ◽  
Tariq Taylor ◽  
Jianjun Miao ◽  
Robert Linhardt ◽  
Duane Jackson ◽  
...  

ABSTRACTThe United States dependence on fossil fuels has become mandatory over the past few decades. The fuel shortage during the 1970s and after Hurricane Katrina has catalyzed a need for creating alternative energy sources, improving the efficacy of these alternative energy sources, and enhancing energy sustainability. The U.S. Department of Energy has set goals to replace 30% of the liquid petroleum transportation fuel with biofuels and to replace 25% of industrial organic chemicals with biomass-derived chemicals by 2025. In the southeast United States, subterranean termites are prevalent and microbes in their gut degrade wood based materials such as cellulose which produce simple sugars that can be used to produce bioethanol. Upon seasonal change, subterranean termites undergo less enzymatic activity and wood-eating capability limiting the amount of sugars that may be produced. This limited activity sparks an interest to investigate this poorly understood phenomenon of how temperature may affect the enzymatic activity in subterranean termites’ guts. In this study, we report the development thermoresponsive biomaterial nanofiber mats containing cellulose to model cellulase activity. Using electrospinning techniques, poly(N-vinylcaprolactam) celluose fiber mats have been prepared via alkaline hydrolysis and labeled with fluorescent tags. Subterranean termites (reticulitermes species) were feed fiber mats for 10 consecutive days to assess enzyme mapping and kinetics. Fluorescent microscopy images confirmed spatial and temporal localization of cellulase enzyme throughout the termite gut upon time and temperature change. These novel high affinity enzyme detection membranes show promise towards future biofuel production.


1987 ◽  
Author(s):  
J A Berkner ◽  
G Mitra ◽  
J W Bloom

The interactions of monoclonal antibodies with highly purified Factor VIII:c have been studied utilizing the ELISA technique. ELISA plates were coated with Factor VIII:c, protein A purified monoclonal IgG was then added and bound antibody detected with peroxidase labeled antimouse IgG. A Scatchard-Sips plot approach to data analysis was used to calculate binding constants. The binding constants for four antibodies designated BD10, AD7, C7F7 and 39MH8 were as follows: BD10, KO = 7.1 x 108 M-1, n = 1.1 (moles antibody/moles ligand); AD7, KO = 3.1 x 108 M-1, n = 2.7; C7F7, KO = 3.6 x 1011M-1, n = 0.03; 39MH8, K = 6.0 x 1011 M-1, n = 0.03. The binding constants for C7F7 to the purified carboxy-terminal (residues 1649-2332) 80 kD functional region of the Factor VIII:c molecule were also determined: KO = 1.0 x 1011 M-1, n = 0.55. On the basis of these results the following conclusions can be drawn: 1) the antibodies can be divided into two groups: high affinity (suitable for use in immunopurification), C7F7 and 39MH8; low affinity: BD10 and AD7; 2) the antibodies in the low affinity group have valance values two orders of magnitude higher than the high affinity antibodies, C7F7 and 39MH8. The difference might be explained by the high affinity antibody epitopes on the immobilized Factor VIII:c being less exposed to the solution; 3) C7F7 binding to the 80 kD polypeptide, compared to the whole Factor VIII:c molecule, gave virtually identical Kc values, but dramatically different valance values. This suggests that the C7F7 epitope is more accessible on the 80 kD polypeptide.


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