Sporulation at minimum specific growth rate inAspergillus nidulans chemostat culture predicted using protein synthesis efficiency estimations

Exposure to an aerial environment or severe nutrient limitation induces asexual differentiation in filamentous fungi. Submerged cultivation of Aspergillus niger in carbon-and energy-limited retentostat cultures both induces and fuels conidiation. Physiological and transcriptomic analyses have revealed that this differentiation strongly affects product formation. Since conidiation is inherent in the aerial environment, we hypothesized that product formation near zero growth can be influenced by affecting differentiation or development of aerial hyphae in general. To investigate this idea, three developmental mutants (⌬fwnA, scl-1, and scl-2 mutants) that have no apparent vegetative growth defects were cultured in maltose-limited retentostat cultures. The secondary-metabolite profile of the wild-type strain defined flavasperone, aurasperone B, tensidol B, and two so far uncharacterized compounds as associated with conidium formation, while fumonisins B 2 , B 4 , and B 6 were characteristic of early response to nutrient limitation by the vegetative mycelium. The developmental mutants responded differently to the severe substrate limitation, which resulted in distinct profiles of growth and product formation. fwnA encodes the polyketide synthase responsible for melanin biosynthesis during aerial differentiation, and we show that conidial melanin synthesis in submerged retentostat cultures and aurasperone B production are fwnA dependent. The scl-1 and scl-2 strains are two UV mutants generated in the ⌬fwnA background that displayed reduced asexual conidiation and formed sclerotium-like structures on agar plates. The reduced conidiation phenotypes of the scl-1 and scl-2 strains are reflected in the retentostat cultivation and are accompanied by elimination or severely reduced accumulation of secondary metabolites and distinctly enhanced accumulation of extracellular protein. This investigation shows that submerged conidiation and product formation of a mitosporic fungus cultured at low specific growth rates can be fundamentally affected by interfering with the genetic program for differentiation of aerial hyphae, opening new perspectives for tailoring industrial performance.The black-spored ascomycete Aspergillus niger is a ubiquitous saprophyte in nature and occurs as a common spoilage mold on stored food and feed (15,26,30). Its successful occupation of these ecological niches results at least partially from an ability to secrete a wide array of substrate-degrading enzymes, which, like organic acid biosynthesis, is exploited in industrial production (32, 34). Also contributing to its economic importance are less desirable traits, such as conditional production of toxic secondary metabolites or mycotoxins, like ochratoxin A and fumonisins (30,36). Secondary-metabolite accumulation in the genus Aspergillus and its relatives is most diverse and abundant under subaerial growth conditions on solid media that allow differentiation or development of vegetative hyphae into conidia, sclerotia, or cleistothecia (2, 45).Despit...

supporting

confidence: 79%

mentioning

confidence: 99%

Submerged Conidiation and Product Formation by Aspergillus niger at Low Specific Growth Rates Are Affected in Aerial Developmental Mutants

Jørgensen

Nielsen

Arentshorst

et al. 2011

“…An increased q anabolism also implies an excess of ribosomal proteins at the 0.05 h Ϫ1 growth rate, as the amount of ribosomes for protein synthesis probably remains constant during the relatively short postpulse period. This excess capacity indicates a low ribosomal efficiency, which has been observed previously for low specific growth rates in both prokaryotes (17) and eukaryotes (6,35).…”

Section: Discussionmentioning

confidence: 99%

Short-Term Metabolome Dynamics and Carbon, Electron, and ATP Balances in Chemostat-Grown Saccharomyces cerevisiae CEN.PK 113-7D following a Glucose Pulse

Dam

Schipper

et al. 2006

The in vivo kinetics in Saccharomyces cerevisiae CEN.PK 113-7D was evaluated during a 300-second transient period after applying a glucose pulse to an aerobic, carbon-limited chemostat culture. We quantified the responses of extracellular metabolites, intracellular intermediates in primary metabolism, intracellular free amino acids, and in vivo rates of O 2 uptake and CO 2 evolution. With these measurements, dynamic carbon, electron, and ATP balances were set up to identify major carbon, electron, and energy sinks during the postpulse period. There were three distinct metabolic phases during this time. In phase I (0 to 50 seconds after the pulse), the carbon/electron balances closed up to 85%. The accumulation of glycolytic and storage compounds accounted for 60% of the consumed glucose, caused an energy depletion, and may have led to a temporary decrease in the anabolic flux. In phase II (50 to 150 seconds), the fermentative metabolism gradually became the most important carbon/electron sink. In phase III (150 to 300 seconds), 29% of the carbon uptake was not identified in the measurements, and the ATP balance had a large surplus. These results indicate an increase in the anabolic flux, which is consistent with macroscopic balances of extracellular fluxes and the observed increase in CO 2 evolution associated with nonfermentative metabolism. The identified metabolic processes involving major carbon, electron, and energy sinks must be taken into account in in vivo kinetic models based on short-term dynamic metabolome responses.Mathematical models of in vivo enzyme kinetics in microorganisms are important for understanding metabolic control mechanisms operating on the level of the metabolome and can be used to assist the rational redesign of metabolic pathways to enhance desired functionalities of microbes (54). Kinetic parameters in this kind of model can be obtained by stimulusresponse experiments, in which cells grown in a (quasi-)steady state are perturbed by an external stimulus and the dynamic responses of intra-and extracellular metabolites are monitored. The time window of observation is usually within tens to a few hundred seconds after the application of the stimulus, and the responses are usually attributed to rapid (allosteric) enzyme-metabolite interactions (38). Kinetic parameters can be estimated from the measured responses, based on a set of (dynamic) material balances (7, 30, 49), as follows: dx/dt ϭ Sv (equation 1), where x is a vector of the metabolite concentrations, S is the stoichiometry matrix, and v is a vector of the reaction rates as a function of (yet) unknown kinetic parameters. The stimulus-response methodology is an ideal tool for obtaining kinetic information and has been applied to various microorganisms under different growth conditions (7,26,32,38,52).For Saccharomyces cerevisiae, a frequently applied perturbation is the addition of a concentrated glucose solution, i.e., a glucose pulse, to a glucose-limited chemostat culture, thereby inducing a short-term Crabtree effect. Theoba...

“…During subaerial growth, A. niger produces chains of black spores from biseriate conidiophores (55), but like other molds (15,16,56,62) it also conidiates in submerged culture in response to severe nitrogen or carbon limitation (15,27,46). More recent molecular studies have shown that the transcription factor BrlA plays a central role as a positive regulator of conidiation in liquid as well as aerial environments (1,2,25,40,67,74) and that nutrient starvation is associated with induction of brlA transcription (62).…”

mentioning

confidence: 99%

mentioning

confidence: 99%

Transcriptomic Insights into the Physiology of Aspergillus niger Approaching a Specific Growth Rate of Zero

Jørgensen

Nitsche

Lamers

et al. 2010

The physiology of filamentous fungi at growth rates approaching zero has been subject to limited study and exploitation. With the aim of uncoupling product formation from growth, we have revisited and improved the retentostat cultivation method for Aspergillus niger. A new retention device was designed allowing reliable and nearly complete cell retention even at high flow rates. Transcriptomic analysis was used to explore the potential for product formation at very low specific growth rates. The carbon-and energy-limited retentostat cultures were highly reproducible. While the specific growth rate approached zero (<0.005 h ؊1 ), the growth yield stabilized at a minimum (0.20 g of dry weight per g of maltose). The severe limitation led to asexual differentiation, and the supplied substrate was used for spore formation and secondary metabolism. Three physiologically distinct phases of the retentostat cultures were subjected to genome-wide transcriptomic analysis. The severe substrate limitation and sporulation were clearly reflected in the transcriptome. The transition from vegetative to reproductive growth was characterized by downregulation of genes encoding secreted substrate hydrolases and cell cycle genes and upregulation of many genes encoding secreted small cysteine-rich proteins and secondary metabolism genes. Transcription of known secretory pathway genes suggests that A. niger becomes adapted to secretion of small cysteine-rich proteins. The perspective is that A. niger cultures as they approach a zero growth rate can be used as a cell factory for production of secondary metabolites and cysteine-rich proteins. We propose that the improved retentostat method can be used in fundamental studies of differentiation and is applicable to filamentous fungi in general.The filamentous fungus Aspergillus niger is one of the most important microorganisms in industrial biotechnology because of its ability to produce high levels of enzymes and organic acids (6,50,57). Apart from their biotechnological importance, filamentous fungi in the Aspergillus section Nigri (the black aspergilli) represent some of the most widespread storage molds which contaminate food and feedstocks with mycotoxins (26,37,48).Both metabolic engineering approaches and the search for optimal cultivation conditions have long been used to improve A. niger as a production host (e.g., 14, 22, 41). With the availability of the A. niger genome sequence (50), systems biology tools are being developed (4, 5, 33) which, together with new efficient methods for constructing gene knockout mutants (43), open new possibilities for further improvement of A. niger as a cell factory.A major ongoing challenge for microbial production processes is to minimize the amount of biomass formed while maintaining high productivity. Solutions to uncouple product formation from biomass accumulation or growth are therefore highly desirable. However, production at zero growth is difficult to achieve when nutrients are supplied to allow formation of a desired product. Carbon-a...