scholarly journals A guanidine-degrading enzyme controls genomic stability of ethylene-producing cyanobacteria

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Bo Wang ◽  
Yao Xu ◽  
Xin Wang ◽  
Joshua S. Yuan ◽  
Carl H. Johnson ◽  
...  

AbstractRecent studies have revealed the prevalence and biological significance of guanidine metabolism in nature. However, the metabolic pathways used by microbes to degrade guanidine or mitigate its toxicity have not been widely studied. Here, via comparative proteomics and subsequent experimental validation, we demonstrate that Sll1077, previously annotated as an agmatinase enzyme in the model cyanobacterium Synechocystis sp. PCC 6803, is more likely a guanidinase as it can break down guanidine rather than agmatine into urea and ammonium. The model cyanobacterium Synechococcus elongatus PCC 7942 strain engineered to express the bacterial ethylene-forming enzyme (EFE) exhibits unstable ethylene production due to toxicity and genomic instability induced by accumulation of the EFE-byproduct guanidine. Co-expression of EFE and Sll1077 significantly enhances genomic stability and enables the resulting strain to achieve sustained high-level ethylene production. These findings expand our knowledge of natural guanidine degradation pathways and demonstrate their biotechnological application to support ethylene bioproduction.

2021 ◽  
Author(s):  
Bo Wang ◽  
Yao Xu ◽  
Xin Wang ◽  
Joshua Yuan ◽  
Carl Johnson ◽  
...  

Abstract Recent studies have revealed the prevalence and biological significance of guanidine metabolism in nature. However, the metabolic pathways used by microbes to degrade guanidine or mitigate its toxicity have not been widely studied. Here we report a novel guanidine-degrading enzyme, Sll1077, identified in the model cyanobacterium Synechocystis sp. PCC 6803 through comparative proteomics and subsequent experimental validation. Although previously annotated as an agmatinase enzyme, Sll1077 is more likely a “guanidinase”, because it degrades guanidine rather than agmatine to urea. We demonstrate that the model cyanobacterium Synechococcus elongatus PCC 7942 strain engineered to express the bacterial ethylene-forming enzyme (EFE) exhibits unstable ethylene production due to toxicity and genomic instability induced by accumulation of the EFE-byproduct guanidine. Co-expression of EFE and Sll1077 significantly enhanced genomic stability and enabled the resulting strain to achieve sustained high-level ethylene production. These findings expand our knowledge of natural guanidine degradation pathways and demonstrate their biotechnological application to support ethylene bioproduction.


2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Abraham Guerrero ◽  
Bruno Gomez-Gil ◽  
Marcial Leonardo Lizarraga-Partida

Abstract Background The V. parahaemolyticus pandemic clone, results in the development of gastrointestinal illness in humans. Toxigenic strains of this species are frequently isolated from aquatic habitats and organisms such as mollusks and crustaceans. Reports on the isolation of the pandemic clone started in 1996, when a new O3:K6 clone was identified in Asia, that rapidly spread worldwide, becoming the predominant clone isolated from clinical cases. In this study whole genome sequencing was accomplished with an Illumina MiniSeq platform, upon six novel V. parahaemolyticus strains, that have been isolated in Mexico since 1998 and three representative genomes of strains that were isolated from reported outbreaks in other American countries, and were deposited in the GenBank. These nine genomes were compared against the reference sequence of the O3:K6 pandemic strain (RIMD 2210633), which was isolated in 1996, to determine sequence differences within American isolates and between years of isolation. Results The results indicated that strains that were isolated at different times and from different countries, were highly genetically similar, among them as well as to the reference strain RIMD 2210633, indicating a high level of genetic stability among the strains from American countries between 1996 to 2012, without significant genetic changes relative to the reference strain RIMD 2210633, which was isolated in 1996 and was considered to be representative of a novel O3:K6 pandemic strain. Conclusions The genomes of V. parahaemolyticus strains isolated from clinical and environmental sources in Mexico and other American countries, presented common characteristics that have been reported for RIMD 2210633 O3:K6 pandemic strain. The major variations that were registered in this study corresponded to genes non associated to virulence factors, which could be the result of adaptations to different environmental conditions. Nevertheless, results do not show a clear pattern with the year or locality where the strains were isolated, which is an indication of a genomic stability of the studied strains.


2019 ◽  
Vol 20 (15) ◽  
pp. 3743 ◽  
Author(s):  
Xuan Wang ◽  
Tinashe Zenda ◽  
Songtao Liu ◽  
Guo Liu ◽  
Hongyu Jin ◽  
...  

Despite recent scientific headway in deciphering maize (Zea mays L.) drought stress responses, the overall picture of key proteins and genes, pathways, and protein–protein interactions regulating maize filling-kernel drought tolerance is still fragmented. Yet, maize filling-kernel drought stress remains devastating and its study is critical for tolerance breeding. Here, through a comprehensive comparative proteomics analysis of filling-kernel proteomes of two contrasting (drought-tolerant YE8112 and drought-sensitive MO17) inbred lines, we report diverse but key molecular actors mediating drought tolerance in maize. Using isobaric tags for relative quantification approach, a total of 5175 differentially abundant proteins (DAPs) were identified from four experimental comparisons. By way of Venn diagram analysis, four critical sets of drought-responsive proteins were mined out and further analyzed by bioinformatics techniques. The YE8112-exclusive DAPs chiefly participated in pathways related to “protein processing in the endoplasmic reticulum” and “tryptophan metabolism”, whereas MO17-exclusive DAPs were involved in “starch and sucrose metabolism” and “oxidative phosphorylation” pathways. Most notably, we report that YE8112 kernels were comparatively drought tolerant to MO17 kernels attributable to their redox post translational modifications and epigenetic regulation mechanisms, elevated expression of heat shock proteins, enriched energy metabolism and secondary metabolites biosynthesis, and up-regulated expression of seed storage proteins. Further, comparative physiological analysis and quantitative real time polymerase chain reaction results substantiated the proteomics findings. Our study presents an elaborate understanding of drought-responsive proteins and metabolic pathways mediating maize filling-kernel drought tolerance, and provides important candidate genes for subsequent functional validation.


2019 ◽  
Vol 187 (1) ◽  
pp. 42-49
Author(s):  
P Negri ◽  
F Campi ◽  
S De Crescenzo ◽  
L Garlati ◽  
O Tambussi

Abstract In IR procedures, in order to evaluate the effective dose, the importance of the double dosemeter has been recognised, one worn above and one under the apron. Over the last few decades several algorithms have been developed to combine the readings of the dosemeters, however currently there is no international consensus on which is the best one. In this work, eight irradiations, corresponding to typical interventional radiology procedures, were carried out in order to experimentally verify the accuracy of the algorithms. The patient was substituted by solid water-equivalent (RW3) layers, while effective dose to personnel was calculated by TLDs inside the Alderson Rando phantom. The results show that most of the algorithms, with a few exceptions, are too conservative, however there are many factors which can affect their accuracy, so it is impossible to achieve a high level of precision in the evaluation of the effective dose.


1985 ◽  
Vol 115 (1) ◽  
pp. 149-164 ◽  
Author(s):  
P. W. Hochachka

Muscle in all animals relies upon four potential sources of energy: ATP hydrolysis, phosphagen hydrolysis, fermentations or oxidative metabolism. Although the relative contributions of different fuels varies greatly in different organisms, in none is there a simple reliance on stored ATP. Muscle work therefore requires a balance between rates of utilization and formation of ATP, a provision supplied by one of the three remaining fuels and metabolic pathways. Useful endogenous fuels must be storable at high level, and rapidly mobilizable with minimal perturbation of [ATP] and with minimal end-product effects on pH, charge or osmotic balance. In addition to displaying these properties, good exogenous fuels must be transferable at high rates between depot sites and muscle; actual flux rates of exogenous fuels depend upon respective ATP yields and are lowest for fuels which most amplify the yield of ATP per mol substrate oxidized. Substrate flux rates must be matched with O2 flux rates and with rates of endogenous substrate mobilization in order that the right energy-yielding pathways are activated at the right times. Of various control possibilities, an effective competition for ADP (and possibly Pi) seems at this time to be the dominant strategy for assuring integration of aerobic and anaerobic ATP-yielding pathways.


2019 ◽  
Vol 10 (2) ◽  
pp. 42-59 ◽  
Author(s):  
Sakshi Gupta ◽  
Gajendra Pratap Singh ◽  
Sunita Kumawat

Due to the complexity of the metabolic pathways, their modeling has been a great challenge for the researchers. Various mathematical models have been developed and are continuing to be developed to model and study metabolic pathways. In this article, the authors have described Petri nets (PNs) as a recommender system to model one of the metabolic pathways of Polyhydroxyalkanoates. Recommender systems have become an integral part of today's world. Their applications lie in the fields of e-commerce, bioinformatics and many more. Petri nets are one of the promising mathematical tools which can be treated as a recommender system to model and analyze the complex metabolic pathways of various organisms because of the representation of these pathways as graphs. The PN toolbox validates the obtained Petri net model. Polyhydroxyalkanoates, commonly known as PHAs, are biodegradable microbial polyesters and have properties quite similar to commonly used non-biodegradable plastics. Due to their biodegradability, biocompatibility, and eco-friendly nature, they are of biological significance and are used in various applications in wide range of sectors like medical sector, drug delivery, tissue engineering, and many more. The obtained PN model of Polyhydroxyalkanoates has been validated using PN toolbox.


Blood ◽  
2006 ◽  
Vol 108 (11) ◽  
pp. 2285-2285 ◽  
Author(s):  
Julie Bergeron ◽  
Isabelle Radford ◽  
Corinne Millien ◽  
Patrick Villarese ◽  
Elizabeth A. Macintyre ◽  
...  

Abstract The TLX1 gene (10q24) codes for a homeodomain transcription factor not expressed in normal T lymphopoiesis. It’s expression as evaluated by RQ-PCR has been reported in 20–50% of T-ALLs while standard cytogenetic identifies TLX1 translocations to T cell receptor (TCR) genes in only 4–14% of T-ALLs. Accordingly, the stringency of the association between TLX1-TCR translocations and TLX1 overexpression has been questioned. To our knowledge, no systematic search for 10q24 translocations by FISH or molecular means has been conducted. Published T-ALL series demonstrate that a proportion of samples express TLX1 at very high levels while the remaining express TLX1 at either low or undetectable levels. In the absence of a uniform threshold, the biological significance of TLX1 levels of expression requires more exploration as it might account for the discrepancies regarding the prognosis impact of TLX1 expression and allow better T-ALL stratification. We have studied 224 unselected T-ALLs (147 adults and 77 children). Levels of TLX1 expression, assessed by RQ-PCR, were correlated to immunophenotypic, oncogenetic and molecular cytogenetic analysis. Thirty-two T-ALLs (14%, 27 adults and 5 children) expressed TLX1 at high levels (TLX1-high group) with a median level (normalised with ABL) of 746%. Fourty-nine samples (22%, 36 adults and 13 children) expressed TLX1 at lower levels (TLX1-low group) with a median level of 0,1% (range: 0,002%–11%). Caryotypes were available for 144 samples and demonstrated a 10q24 abnormality in only 11 cases, all within the TLX1-high group. Ongoing molecular analysis (FISH and LM-PCR) have revealed 17 additional 10q24 translocations/abnormalities among the TLX1-high samples with available material. Among those 17 samples, 12 had a representative caryotype without 10q24 abnormalities. In contrast, the 10q24 locus was normal in all 6 TLX1-low T-ALLs tested by FISH. Oncogenetic data show that HOX11-high T-ALLs form a homogeneous group, without coexisting TLX3, CALM-AF10 or TAL1 deregulation while TLX1-low and TLX1-negative T-ALLs often express either TLX3, CALM-AF10 or TAL1. Immunophenotypic data show that TLX1-high T-ALLs correspond to a β-selection stage of maturation arrest while TLX1-low T-ALLs show heterogeneous stages of maturation arrest: 20 immature(IM), 17 IMβ/pre-αβ, 5 TCRαβ and 6 TCRγδ. The respective prognosis of T-ALLs in correlation with their TLX1 expression level is currently being analysed. We conclude that virtually all T-ALLs expressing TLX1 at high level bear a 10q24 translocation and form a distinct homogeneous oncogenic group. Caryotype analysis largely underestimates 10q24 translocations. A uniform definition of TLX1 expression positivity has impact on T-ALL stratification in clinical protocols. Based on cytogenetic, immunophenotypic and oncogenetic arguments, we propose a definition of TLX1(+) T-ALLs restricted to T-ALLs expressing high levels (>100% ABL) of TLX1 and/or having a genetic abnormality implicating TLX1. T-ALLs expressing low levels of TLX1 do not share these characteristics and their clinical relevance should be assessed separately.


1989 ◽  
Vol 44 (3-4) ◽  
pp. 237-242 ◽  
Author(s):  
M. Thynn ◽  
A. Wolff ◽  
E. Gorge ◽  
D. Werner

Abstract In tissue cultures from shoot apex meristems with leaf primordias of Vicia faba cv. TP667, addition of low concentration of auxins (0.01 mg ・1-1) induced regeneration of whole plants at high frequency (100%). The combination of NAA and kinetin or GA , also induced a high yield of plant regeneration. Regenerated plants from various cultivars on a medium with 2 ,4 D (0.01 mg ・1-1) were infected with Botrytis cinerea, Phytophthora megasperma and R hizoctonia solani. Accumulation of phytoalexins, ethylene production and the resistance to fungal diseases were studied. In general, production of phytoalexins occurred at a high level in all cultivars infected with B. cinerea. Ethylene production varied more in the seven cultivars studied than phytoalexin accumulation. No cultivar was resistant to B. cinerea. The highest resistance and the low est concentration of phytoalexin was found after infection by R. solani, and phytoalexin accumulation and resistance were interm ediate in plants infected by P. megasperma. The data suggest that only low to medium concentrations of phytoalexin in faba beans are correlated with resistance of regenerated plants.


Sign in / Sign up

Export Citation Format

Share Document