Carbon utilization profiles of Fusarium virguliforme isolates

2010 ◽  
Vol 56 (12) ◽  
pp. 979-986 ◽  
Author(s):  
E. Tang ◽  
C.B. Hill ◽  
G.L. Hartman
Keyword(s):  
Carbon Source ◽  
Mycelial Growth ◽  
Carbon Sources ◽  
Geographic Origin ◽  
Acid Methyl Ester ◽  
Published Data ◽  
Carbon Source Utilization ◽  
Carbon Utilization ◽  
Fusarium Virguliforme ◽  
Carbon Utilization Profiles

Fusarium virguliforme is the cause of sudden death syndrome in soybean. Physiological variability among isolates of the fungus is unknown. One way to measure physiologic variability is to analyze growth on different carbon sources. The carbon source utilization profiles of 18 F. virguliforme isolates were examined using the Biolog FF 96-well microplate, which contains 95 different carbon sources. The utilization of dextrin, d-mannitol, maltotriose, d-lactic acid methyl ester, N-acetyl-d-galactosamine, salicin, d-trehalose, and l-alanine differed significantly among isolates (P = 0.05). Carbon sources were grouped into 3 clusters based on their ability to promote growth of F. virguliforme, after calculating Euclidean distances among them. About 12% of the carbon sources promoted a high amount of mycelial growth, 39% promoted a medium amount of growth, and 49% promoted a low amount of mycelial growth; the latter was not significantly different from the water blank control. A hierarchical tree diagram was produced for the 18 isolates based on their carbon source utilization profiles using Ward’s hierarchical analysis method. Two main clusters of isolates were formed. One cluster represented greater average mycelial growth on all of the carbon sources than the other cluster. In this study, variability in carbon source utilization among F. virguliforme isolates was evident, but the results were not associated with geographic origin of the isolates, year collected, or published data on aggressiveness. Additional research is needed to determine if these carbon utilization profiles are associated with other biological characteristics, like spore germination, propagule formation, and saprophytic competitiveness.

scholarly journals Carbon source utilization and hydrogen production by isolated anaerobic bacteria

2016 ◽  
Vol 9 (1) ◽  
pp. 62-67 ◽  
Author(s):  
R. Jame ◽  
V. Zelená ◽  
B. Lakatoš ◽  
Ľ. Varečka
Keyword(s):  
Carbon Source ◽  
Anaerobic Fermentation ◽  
Carbon Sources ◽  
Anaerobic Bacteria ◽  
Growth Yield ◽  
Bacterial Isolates ◽  
Carbon Source Utilization ◽  
Bacterial Strains ◽  
Monocarboxylic Acids ◽  
Sheep Rumen

Abstract Five bacterial isolates were tested for their ability to generate hydrogen during anaerobic fermentation with various carbon sources. One isolate from sheep rumen was identified as Escherichia coli and four isolates belonged to Clostridium spp. Glucose, arabinose, ribose, xylose, lactose and cellobiose were used as carbon sources. Results showed that all bacterial strains could utilize these compounds, although the utilization of pentoses diminished growth yield. The excretion of monocarboxylic acids (acetate, propionate, formiate, butyrate) into medium was changed after replacing glucose by other carbon sources. Di- and tricarboxylic acids were excreted in negligible amounts only. Spectra of excreted carboxylic acids were unique for each strain and all carbon sources. All isolates produced H2 between 4—9 mmol·L−1 during the stationary phase of growth with glucose as energy source. This value was dramatically reduced when pentoses were used as carbon source. Lactose and cellobiose, starch and cellulose were suitable substrates for the H2 production in some but not all isolates. No H2 was produced by proteinaceous substrate, such as blood. Results show that both substrate utilization and physiological responses (growth, excretion of carboxylates, H2 production) are unique functions of each isolate.

scholarly journals Assessment of the Importance of Similarity in Carbon Source Utilization Profiles between the Biological Control Agent and the Pathogen in Biological Control of Bacterial Speck of Tomato

2002 ◽  
Vol 68 (9) ◽  
pp. 4383-4389 ◽  
Author(s):  
Pingsheng Ji ◽  
Mark Wilson
Keyword(s):  
Biological Control ◽  
Carbon Source ◽  
Disease Severity ◽  
Pseudomonas Syringae ◽  
Biological Control Agent ◽  
Carbon Sources ◽  
Control Agent ◽  
Carbon Source Utilization ◽  
Bacterial Speck

ABSTRACT Bacterial speck of tomato, caused by Pseudomonas syringae pv. tomato, was used to determine whether similarity in carbon source utilization between a preemptive biological control agent and the pathogen was significant in determining the ability of the bacterium to suppress disease. Similarity in carbon source utilization was quantified as the ratio of the number of tomato carbon sources utilized in vitro by the biological control agent to the number of tomato carbon sources utilized in vitro by the target pathogen (the niche overlap index [NOI]). Suppression of the disease was quantified as the percent reduction in disease severity compared to the pathogen-only control when nonpathogenic bacteria were applied to foliage 48 h prior to the pathogen. In the collection of 36 nonpathogenic bacterial strains, there was a significant (P < 0.01), but weak (r2 = 0.25), correlation between reduction in disease severity and similarity in carbon source utilization, suggesting that similarity in carbon source use was significant in determining ability to suppress disease. The relationship was investigated further using catabolic mutants of P. syringae strain TLP2, an effective biological control agent of speck. Catabolic mutants exhibited lower levels of similarity (NOI = 0.07 to 0.90) than did wild-type TLP2 (NOI = 0.93). With these catabolic mutants there was a significant (P < 0.01), and stronger (r2 = 0.42), correlation between reduction in disease severity and similarity in carbon source utilization. This suggests that similarity in carbon source utilization was a more important component of biological control ability for the catabolic mutants than for the nonpathogenic bacteria. Together, these studies indicate that suppression of bacterial speck of tomato was correlated with nutritional similarity between the pathogenic and nonpathogenic bacteria and suggest that preemptive utilization of carbon sources was probably involved in the biological control of the disease by both the naturally occurring nonpathogenic bacteria and the catabolic mutants.

Mycelial growth, sclerotial production and carbon utilization of three Typhula species

1999 ◽  
Vol 77 (2) ◽  
pp. 312-317
Author(s):  
C Wu ◽  
T Hsiang
Keyword(s):  
Radial Growth ◽  
Mycelial Growth ◽  
Biocontrol Agent ◽  
Carbon Sources ◽  
Carbon Utilization ◽  
Turfgrass Disease ◽  
Snow Mould ◽  
Typhula Incarnata ◽  
And Storage ◽  
Temperature Optima

The mycelial growth, sclerotial production, and carbon utilization of the snow mould biocontrol agent Typhula phacorrhiza Fries were compared with the two grey snow mould fungi, Typhula ishikariensis Imai and Typhula incarnata Lasch ex Fries. Variation was observed among the four isolates for each species, but there was greater variation among species. All three species were able to grow at the lowest temperature (0°C), but temperature optima differed with T. ishikariensis lowest and T. phacorrhiza highest. On potato dextrose agar or potato malt agar at 10°C, T. phacorrhiza had greater radial growth than T. ishikariensis but less than T. incarnata. All species could utilize microcrystalline cellulose, bacto-cellulose, and glucose as carbon sources, but radial growth of T. phacorrhiza was significantly greater than T. incarnata and T. ishikariensis on these defined carbon sources tested, except for Indulin-AT, which was inhibitory to T. incarnata and T. phacorrhiza. This greater ability to utilize these structural and storage carbohydrates, combined with mycelial growth and sclerotial production over a wider range of temperatures, may help explain how some isolates of T. phacorrhiza are able to outcompete grey snow mould in field tests.Key words: turfgrass disease, biocontrol, psychrophilic.

scholarly journals Aca1 and Aca2, ATF/CREB Activators in Saccharomyces cerevisiae, Are Important for Carbon Source Utilization but Not the Response to Stress

2000 ◽  
Vol 20 (12) ◽  
pp. 4340-4349 ◽  
Author(s):  
M. Adelaida Garcia-Gimeno ◽  
Kevin Struhl
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Carbon Source ◽  
Target Genes ◽  
Carbon Sources ◽  
Biological Functions ◽  
Carbon Source Utilization ◽  
The Family ◽  
Response To Stress

ABSTRACT In Saccharomyces cerevisiae, the family of ATF/CREB transcriptional regulators consists of a repressor, Acr1 (Sko1), and two activators, Aca1 and Aca2. The AP-1 factor Gen4 does not activate transcription through ATF/CREB sites in vivo even though it binds these sites in vitro. Unlike ATF/CREB activators in other species, Aca1- and Aca2-dependent transcription is not affected by protein kinase A or by stress, and Aca1 and Aca2 are not required for Hog1-dependent salt induction of transcription through an optimal ATF/CREB site. Aca2 is important for a variety of biological functions including growth on nonoptimal carbon sources, and Aca2-dependent activation is modestly regulated by carbon source. Strains lacking Aca1 are phenotypically normal, but overexpression of Aca1 suppresses some defects associated with the loss of Aca2, indicating a functional overlap between Aca1 and Aca2. Acr1 represses transcription both by recruiting the Cyc8-Tup1 corepressor and by directly competing with Aca1 and Aca2 for target sites. Acr1 does not fully account for osmotic regulation through ATF/CREB sites, and a novel Hog1-dependent activator(s) that is not a bZIP protein is required for ATF/CREB site activation in response to high salt. In addition, Acr1 does not affect a number of phenotypes that arise from loss of Aca2. Thus, members of the S. cerevisiae ATF/CREB family have overlapping, but distinct, biological functions and target genes.

scholarly journals Pseudomonas aeruginosa transcriptome adaptations from colonization to biofilm infection of skin wounds

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Peter D’Arpa ◽  
S. L. Rajasekhar Karna ◽  
Tsute Chen ◽  
Kai P. Leung
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Carbon Source ◽  
Wound Infection ◽  
Glyoxylate Cycle ◽  
Acute Infection ◽  
Carbon Sources ◽  
Myeloid Cell ◽  
Carbon Utilization ◽  
Branched Chain ◽  
Biofilm Infection

AbstractIn burn patients Pseudomonas aeruginosa infection is a major cause of morbidity. Analysis of the pathogen’s gene expression as it transitions from colonization to acute and then biofilm wound infection may provide strategies for infection control. Toward this goal, we seeded log-phase P. aeruginosa (PAO1) into 3-day-old, full-thickness excision wounds (rabbit ear) and harvested the bacteria during colonization (Hrs 2 and 6), acute infection (Hr 24), and biofilm infection (Days 5 and 9) for transcriptome analysis (RNA-Seq). After 2–6 h in the wound, genes for metabolism and cell replication were down-regulated while wound-adaptation genes were up-regulated (vs. expression in log-phase culture). As the infection progressed from acute to biofilm infection, more genes became up-regulated than down-regulated, but the down-regulated genes enriched in more pathways, likely because the genes and pathways that bacteria already colonizing wounds up-regulate to establish biofilm infection are less known. Across the stages of infection, carbon-utilization pathways shifted. During acute infection, itaconate produced by myeloid cells appears to have been a carbon source because myeloid cell infiltration and the expression of the host gene, ACOD1, for itaconate production peaked coincidently with the expression of the PAO1 genes for itaconate transport and catabolism. Additionally, branched-chain amino acids are suggested to be a carbon source in acute infection and in biofilm infection. In biofilm infection, fatty acid degradation was also up-regulated. These carbon sources feed into the glyoxylate cycle that was coincidently up-regulated, suggesting it provided the precursors for P. aeruginosa to synthesize macromolecules in establishing wound infection.

scholarly journals Studies on Optimization of Growth Parameters for Mass Multiplication of Actinobacteria

2020 ◽  
pp. 59-69
Author(s):  
B. S. Nalini ◽  
R. Muthuraju
Keyword(s):  
Carbon Source ◽  
Growth Parameters ◽  
Carbon Sources ◽  
Aerial Mycelium ◽  
Maximum Growth ◽  
Carbon Source Utilization ◽  
Gram Positive ◽  
Gram Positive Bacteria ◽  
Mass Multiplication ◽  
Nacl Concentration

Aim: To isolate, characterize and optimize the growth parameters for mass multiplication of Actinobacteria. Place and Duration of Work: The study was carried out in Department of Agricultural Microbiology, GKVK, University of Agricultural Sciences, Bangalore during 2019-20. Methodology: Actinobacterial isolates were characterized morphologically and screened for optimization of growth parameters viz., pH, temperature, salt concentration and utilization of carbon source for their mass multiplication. Results: Forty actinobacterial isolates were enumerated from rhizosphere soil of finger millet, cowpea and also from different organic manures. Color of aerial mycelium in most of the actinobacterial isolates were white, grey or cream with dry, cottony or powdery appearance. All forty isolates were Gram positive, non-acid forming and motile. During optimization of growth parameters, results showed that all the actinobacterial isolates growth was observed good at 30℃, pH 7 and 2 per cent NaCl concentration. Starch was confirmed as the best carbon source for all the actinobacterial isolates during carbon source utilization ability. Conclusion: Based on the results, it is showed that all the actinobacterial isolates enumerated were aerobic, spore-forming, Gram positive bacteria, non-acid forming and motile. Maximum growth of Actinobacterial isolates was obtained at temperature of 30℃, pH 7 and 2 per cent NaCl concentration with the ability of growing on ten different carbon sources during the optimization of nutritional and cultural characterization studies. Among the different carbon sources, starch was confirmed as the best carbon source for all the isolates during the study of carbon source utilization ability.

scholarly journals Comparative Metabolomics of Mycoplasma bovis and Mycoplasma gallisepticum Reveals Fundamental Differences in Active Metabolic Pathways and Suggests Novel Gene Annotations

mSystems ◽  
2017 ◽  
Vol 2 (5) ◽  
Author(s):  
Y. Masukagami ◽  
D. P. De Souza ◽  
S. Dayalan ◽  
C. Bowen ◽  
S. O’Callaghan ◽  
...  
Keyword(s):  
Steady State ◽  
Carbon Source ◽  
Metabolic Pathways ◽  
Pathogenic Bacteria ◽  
Carbon Sources ◽  
Carbon Source Utilization ◽  
Chronic Infections ◽  
Content Type ◽  
Steady State Levels ◽  
Species Specific

ABSTRACT Mycoplasmas are pathogenic bacteria that cause serious chronic infections in production animals, resulting in considerable losses worldwide, as well as causing disease in humans. These bacteria have extremely reduced genomes and are thought to have limited metabolic flexibility, even though they are highly successful persistent parasites in a diverse number of species. The extent to which different Mycoplasma species are capable of catabolizing host carbon sources and nutrients, or synthesizing essential metabolites, remains poorly defined. We have used advanced metabolomic techniques to identify metabolic pathways that are active in two species of Mycoplasma that infect distinct hosts (poultry and cattle). We show that these species exhibit marked differences in metabolite steady-state levels and carbon source utilization. This information has been used to functionally characterize previously unknown genes in the genomes of these pathogens. These species-specific differences are likely to reflect important differences in host nutrient levels and pathogenic mechanisms. Mycoplasmas are simple, but successful parasites that have the smallest genome of any free-living cell and are thought to have a highly streamlined cellular metabolism. Here, we have undertaken a detailed metabolomic analysis of two species, Mycoplasma bovis and Mycoplasma gallisepticum, which cause economically important diseases in cattle and poultry, respectively. Untargeted gas chromatography-mass spectrometry and liquid chromatography-mass spectrometry analyses of mycoplasma metabolite extracts revealed significant differences in the steady-state levels of many metabolites in central carbon metabolism, while 13C stable isotope labeling studies revealed marked differences in carbon source utilization. These data were mapped onto in silico metabolic networks predicted from genome wide annotations. The analyses elucidated distinct differences, including a clear difference in glucose utilization, with a marked decrease in glucose uptake and glycolysis in M. bovis compared to M. gallisepticum, which may reflect differing host nutrient availabilities. The 13C-labeling patterns also revealed several functional metabolic pathways that were previously unannotated in these species, allowing us to assign putative enzyme functions to the products of a number of genes of unknown function, especially in M. bovis. This study demonstrates the considerable potential of metabolomic analyses to assist in characterizing significant differences in the metabolism of different bacterial species and in improving genome annotation. IMPORTANCE Mycoplasmas are pathogenic bacteria that cause serious chronic infections in production animals, resulting in considerable losses worldwide, as well as causing disease in humans. These bacteria have extremely reduced genomes and are thought to have limited metabolic flexibility, even though they are highly successful persistent parasites in a diverse number of species. The extent to which different Mycoplasma species are capable of catabolizing host carbon sources and nutrients, or synthesizing essential metabolites, remains poorly defined. We have used advanced metabolomic techniques to identify metabolic pathways that are active in two species of Mycoplasma that infect distinct hosts (poultry and cattle). We show that these species exhibit marked differences in metabolite steady-state levels and carbon source utilization. This information has been used to functionally characterize previously unknown genes in the genomes of these pathogens. These species-specific differences are likely to reflect important differences in host nutrient levels and pathogenic mechanisms.

scholarly journals Attached and Unattached Microbial Communities in a Simulated Basalt Aquifer under Fracture- and Porous-Flow Conditions

2001 ◽  
Vol 67 (6) ◽  
pp. 2799-2809 ◽  
Author(s):  
R. Michael Lehman ◽  
Frederick S. Colwell ◽  
Greg A. Bala
Keyword(s):  
Carbon Source ◽  
Acid Methyl Ester ◽  
Packed Columns ◽  
Most Probable Number ◽  
Total Biomass ◽  
Carbon Source Utilization ◽  
Probable Number ◽  
Geologic Medium ◽  
Utilization Patterns

ABSTRACT Bench scale column studies were used to examine the partitioning of microorganisms between groundwater and a geologic medium and to examine the effect of hydrogeology (i.e., porous- versus fracture-flow) on organism partitioning. Replicated columns were constructed with intact basalt core segments that contained natural fractures and with the same basalt crushed into particles. The columns were perfused with groundwater, and upon reaching a steady state, the columns were sacrificed and the attached and unattached communities were analyzed by multiple approaches. The analyses included the total number of cells, the phylogenetic affiliation of the cells (i.e., the α, β, and γ subclasses of the class Proteobacteria and gram positives with high G+C DNA content) by fluorescent in situ hybridization (FISH), number and taxonomic affiliation by fatty acid methyl ester profiles of culturable heterotrophs, most-probable-number estimates of methanotrophs and phenol oxidizers, and whole-community sole carbon source utilization patterns from Biolog GN microplates. In the packed columns, about 99% of the total biomass (per cubic centimeter of porous medium) was attached to the geologic medium. Lack of equitable units precluded a comparison of attached and unattached biomasses in the fractured columns where the attached biomass was expressed per unit of surface area. Compositional differences in the attached and unattached communities were evidenced by (i) the recovery ofPseudomonas stutzeri, an Enterococcus sp., andBacillus psychrophilus from the groundwater and not from the basalt, (ii) differences between community carbon source utilization patterns, and (iii) the relative abundances of different phylogenetic groups estimated by FISH in both column types. In the packed columns, attached communities were depleted of members of the α- and β-Proteobacteria subclasses in comparison to those in the corresponding groundwater. In the fractured columns, attached communities were enriched in gram-positive Bacteriaand γ-Proteobacteria and depleted of β-Proteobacteria, in comparison to those in the corresponding groundwater. Segregation of populations and their activities, possibly modified by attachment to geologic media, may influence contaminant fate and transport in the subsurface and impact other in situ applications.

scholarly journals A New Pathovar, Pseudomonas syringae pv. alisalensis pv. nov., Proposed for the Causal Agent of Bacterial Blight of Broccoli and Broccoli Raab

Plant Disease ◽  
2002 ◽  
Vol 86 (9) ◽  
pp. 992-998 ◽  
Author(s):  
N. A. Cintas ◽  
S. T. Koike ◽  
C. T. Bull
Keyword(s):  
Carbon Source ◽  
Host Range ◽  
Pseudomonas Syringae ◽  
Leaf Spot ◽  
Fatty Acid Analysis ◽  
Ice Nucleation ◽  
Carbon Source Utilization ◽  
Carbon Utilization ◽  
Single Carbon Source ◽  
Phage Sensitivity

The etiology of three foliar bacterial diseases of crucifers and the relationships between their causal agents were evaluated. Data from LOPAT, carbon utilization tests, and fatty acid analysis indicated that bacterial blights of broccoli and broccoli raab, and leaf spot of broccolini, were caused by strains of Pseudomonas syringae. Data from phage sensitivity, ice nucleation, single carbon source utilization, Polymerase chain reaction using BOXA1R primer (BOX-PCR), and host range analyses were identical for the pathogen causing leaf spot of broccolini and P. syringae pv. maculicola. The broccoli raab and broccoli pathogens infected broccoli raab, all crucifers tested, tomato, and three monocots (California brome, oat, and common timothy). None of the other pathogens tested (P. syringae pv. maculicola, P. syringae pv. tomato, or P. syringae pv. coronafaciens) caused disease on broccoli raab or on both crucifers and monocots. Data from phage sensitivity, ice nucleation, single carbon source utilization, BOX-PCR, and host range analyses were identical for the pathogens from broccoli raab and broccoli, but were different from other pathovars tested, and supported the hypothesis that a new pathovar of P. syringae pv. alisalensis pv. nov. caused a leaf blight on broccoli and broccoli raab.

scholarly journals Effects of Nanoplastics on Freshwater Biofilm Microbial Metabolic Functions as Determined by BIOLOG ECO Microplates

2019 ◽  
Vol 16 (23) ◽  
pp. 4639 ◽  
Author(s):  
Miao ◽  
Guo ◽  
Liu ◽  
Liu ◽  
You ◽  
...  
Keyword(s):  
Carbon Source ◽  
Functional Diversity ◽  
Diversity Index ◽  
Carbon Sources ◽  
Diversity Indices ◽  
Total Carbon ◽  
Carbon Source Utilization ◽  
Metabolic Functions ◽  
Wiener Diversity Index ◽  
Freshwater Biofilms

Nanoplastic (NP) contamination is becoming a pervasive issue as NPs, originating from microplastic particles, pose potentially harmful environmental impacts on aquatic ecosystems. The environmental hazards of NPs on microorganisms have been well documented in recent studies; however, little is known about their ecotoxicity effects on freshwater biofilms, which serve as important primary producers and decomposers and are highly connected with other ecosystem components. We investigated the effects of NPs on the microbial metabolic functions of freshwater biofilms in terms of carbon source utilization ability. Biofilm samples were collected, cultivated in a hydrodynamic flume for six weeks, and then exposed in polystyrene (PS) beads (100 nm in size) with different NP concentrations (1, 5, and 10 mg/L). BIOLOG ECO microplates were used to quantify carbon source utilization characteristics. The data were analyzed using average well-color development (AWCD), functional diversity indices, and principle component analysis (PCA). Results showed that the total carbon metabolic functions (represented by AWCD) remained constant (p > 0.05) with elevated NP concentrations, but some specific carbon sources (e.g., esters) changed in their utilization ability (p < 0.05). The microbial functional diversity (Shannon–Wiener diversity index, Simpson diversity index, and Shannon evenness index) was significantly reduced under 10 mg/L NPs (p < 0.05), indicating an inhibiting effect of NPs on biofilm metabolic diversity. This study examined NP ecotoxicity effects on microbial metabolic activities at the community level, but further studies are required to fully understand the mechanisms driving this change.

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