Dipeptide synthesis by internal adenylation domains of a multidomain enzyme involved in nonribosomal peptide synthesis

Abe, Tomoko; Kobayashi, Kenta; Kawamura, S.; Sakaguchi, Tatsuya; Shiiba, Kiwamu; Kobayashi, Michihiko

doi:10.2323/jgam.2018.03.001

Cited by 13 publications

(7 citation statements)

References 35 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Interestingly, another source of dipeptides may be active production. Recent studies have examined dipeptide formation by adenylation domains in nonribosomal peptide synthetases (NRPSs) (44,45). All strains in our study have numerous NRPSs that could contribute to the production of dipeptides (see Dataset 3 at the URL mentioned above).…”

Section: Discussionmentioning

confidence: 99%

Exometabolite Dynamics over Stationary Phase Reveal Strain-Specific Responses

Chodkowski

Shade

2020

mSystems

View full text Add to dashboard Cite

show abstract

Section: Discussionmentioning

confidence: 99%

Exometabolite Dynamics over Stationary Phase Reveal Strain-Specific Responses

Chodkowski

Shade

2020

mSystems

View full text Add to dashboard Cite

show abstract

“…Interestingly, another source of dipeptides may be attributed to active production. Recent studies have examined dipeptide formation by adenylation domains in nonribosomal peptide synthetases (NRPS) (35,36). All strains in our study have numerous NRPS that could contribute to the production of dipeptides (data not shown).…”

Section: Discussionmentioning

confidence: 99%

Exometabolite dynamics over stationary phase reveal strain-specific responses to nutrient limitation

Chodkowski

Shade

2020

Preprint

View full text Add to dashboard Cite

15Microbial exponential growth is expected to occur infrequently outside of the 16 laboratory, in the environment. Instead, resource-limited conditions impose non-growth 17 states for microbes. However, non-growth states are uncharacterized for the majority of 18 environmental bacteria, especially in regard to exometabolite production. To investigate 19 exometabolite production in response to nutrient limitation, we compared 20 exometabolites produced over time in stationary phase across three environmental 21 bacteria: Burkholderia thailandensis E264 (ATCC 700388), Chromobacterium 22 violaceum ATCC 31532, and Pseudomonas syringae pathovar tomato DC3000 (ATCC 23 BAA-871). We grew each strain in monoculture and investigated exometabolite 24 dynamics over time from mid-exponential to stationary phase. We focused on 25 phase is not at all "stationary" for these bacteria, and sets the stage for understanding 49 how individual metabolisms support interspecies interactions in resource-limited 50 environments. 51 52 Keywords 53 Burkholderia thailandensis, Chromobacterium violaceum, Pseudomonas syringae, 54 secondary metabolism, RNAseq, mass spectrometry, metabolomics, persistence, non-55 growth state 56 57 Introduction 58Much of microbiology research in the laboratory is conducted with bacterial or 59 archaeal cells that are growing exponentially. However, it is estimated that 60% of 60 microbial biomass in the environment is in a non-growing state (1, 2). Various abiotic 61 and biotic stressors are known to induce non-growth states, but perhaps the most 62 common is resource limitation. Labile resources can be low in an environment, as 63 characteristic of the oligotrophic open ocean, or they can be available but inaccessible, 64 as typical in heterogeneous soil matrices. Thus, unlike most cultivated laboratory 65 strains, environmental microbes experience short periods of accessible resources 66 punctuated by long periods of famine (3, 4). 67 While Gram-positive bacteria can survive resource limitation through sporulation 68 (5), Gram-negative bacteria can persist in stationary phase without entry into a 69 specialized dormant cell structure (6). Instead, Gram-negative bacteria survive in 70 stationary phase by employing various stress response adaptations (7). Stress 71 4 response adaptations include changes to cell morphology, transcription, translation, and 72metabolism. Furthermore, in stationary phase, microbes can re-route metabolic 73 pathways to maintain essential components of the cell and the proton motive force (8). 74While these adaptations are thought to serve as survival mechanisms, the levels and 75 types of metabolic activities in stationary phase are not well understood for most 76 environmental microbes. 77It is known, however, that microbes can exhibit appreciable metabolic activity in 78 stationary phase (9). For example, entry into stationary phase resulted in prolonged 79 protein production in Escherichia coli despite that overall protein levels decreased (10). 80Metabolomic studies of E. coli in...

show abstract

“…3). Bacillibactin biosynthesis relies on the dhbA-F operon encoding enzymes that carry out four sequential reactions converting 3-chorismate to bacillibactin (Abe et al, 2019;Qin et al, 2019). Comparative analysis of dhbC and dhbF genes expression revealed differences in mRNA abundance between two strains.…”

Section: Genome Variability Of the New Isolatesmentioning

confidence: 99%

Microbiological and genetic characteristics of Bacillus velezensis bacillibactinproducing strains and their effect on the sulfate-reducing bacteria biofilms on the poly(ethylene terephthalate) surface

Tkachuk

Zelena

Лукаш

et al. 2021

View full text Add to dashboard Cite

It was evaluated the antibiofilm-forming properties of NUChC C1 and NUChC C2b isolates (from the collection of the Department of Biology of the T.H. Shevchenko National University "Chernihiv Colehium") against the sulfate-reducing bacteria biofilms on the poly(ethylene terephthalate) surface. NUChC C1 and NUChC C2b isolates were isolated by classical microbiology methods on Postgate's "B" medium and their cultural-morphological, some physiological-biochemical properties and molecular-genetic characteristics were investigated. To identify bacteria the sequencing and analysis of the 16S rRNA gene were carried out. The bacteria were identified as Bacillus velezensis. Based on PCR-ISSR analysis, it was found that the studied bacteria belong to different strains. The 16S rRNA gene sequences were submitted in GenBank as MN508954.1 (NUChC C1), MN749356.1 and MN749357.1 (NUChC C2b). In the genome of B. velezensis the presence and transcriptional activity of the genes for the synthesis of bacillibactin (dhbC, dhbF), fengycin (fenA) and polyglutamic acid (epsK) were studied. Among these only genes belonging to bacillibactin synthesis operon were detected and only they demonstrated activity. The observed mode of dhbC and dhbF genes expression during 144 hours of cultivation differed between two B. velezensis strains: gradually increasing in NUChC C1 and sharply increased after 24 hours with decreasing on 144th hour in NUChC C2b. Antagonistic properties of the studied strains of B. velezensis against sulfate-reducing bacteria Desulfovibrio oryzae NUChC SRB1 and NUChC SRB2 were not observed. Siderophore-producing strains of Bacillus velezensis inhibit the formation of bacterial biofilms on the polymeric material poly(ethylene terephthalate) during its long-term exposure (50 days) in a culture of sulfate-reducing bacteria under conditions of sufficient iron supply. Bacillibactin-producing strains prevent the development of bacterial biofilms on the poly(ethylene terephthalate) surface. This is one of the reasons for the prolongation of the process of poly(ethylene terephthalate) biodegradation in natural ecosystems.

show abstract

Dipeptide synthesis by internal adenylation domains of a multidomain enzyme involved in nonribosomal peptide synthesis

Cited by 13 publications

References 35 publications

Exometabolite Dynamics over Stationary Phase Reveal Strain-Specific Responses

Exometabolite Dynamics over Stationary Phase Reveal Strain-Specific Responses

Exometabolite dynamics over stationary phase reveal strain-specific responses to nutrient limitation

Microbiological and genetic characteristics of Bacillus velezensis bacillibactinproducing strains and their effect on the sulfate-reducing bacteria biofilms on the poly(ethylene terephthalate) surface

Contact Info

Product

Resources

About