-
Plants (Basel, Switzerland) Dec 2023Based on the low content of water-soluble carbohydrate (WSC) and lactic acid bacteria (LAB) attachment in oat raw materials, we assumed that the neutral detergent fiber...
Based on the low content of water-soluble carbohydrate (WSC) and lactic acid bacteria (LAB) attachment in oat raw materials, we assumed that the neutral detergent fiber (NDF) content of oat can be reduced by adding cellulase or xylanase. The concentration of metabolizable sugars will be increased, which will assist the oat's bacterial community in fermentation and obtain a better quality of oat silage. After wilting the oat, it was treated as follows: (1) distributed water (CK); (2) silages inoculated with xylanase (X); and (3) silages inoculated with cellulase (C), ensiling for 3, 7, 14, 30, and 60 days. Cellulase and xylanase treatments both alter the fermentation and nutritional quality of ensiled oat, resulting in lower NDF, acid detergent fiber (ADF), cellulose, and hemicellulose contents, increased lactic acid and acetic acid contents, and a significant decrease in ensiling environment pH. The bacterial community undergoes significant changes with cellulase and xylanase treatments, with a significant increase in abundance in the C_14, X_30, C_30, X_60, and C_60 treatment groups, while abundance gradually decreases with longer ensiling times. Two exogenous fibrolytic enzymes also alter the bacterial diversity of ensiled oat, with different bacterial species and abundances observed in different treatment groups. Ensiled oat treated with cellulase and xylanase experiences significant changes in its own bacterial community, particularly in the abundance of . These changes result in improved fermentation and nutritional quality of oat, but the higher metabolism levels observed after 60 days of ensiling with cellulase treatment may lead to energy loss.
PubMed: 38202317
DOI: 10.3390/plants13010006 -
Journal of Food Science and Technology Oct 2023Different conveyor belt materials used by the meat and other food industries were compared, regarding their cleanability as bacterial reduction rates in relation to...
UNLABELLED
Different conveyor belt materials used by the meat and other food industries were compared, regarding their cleanability as bacterial reduction rates in relation to their surface topography. Eleven thermoplastic polymers, four stainless steels, and five aluminized nanostructured surfaces were investigated under laboratory conditions. Cleanings were conducted with water only, and with an alkaline foam detergent. Overall, scanning electron microscopy revealed remarkable differences in the surface topography of the tested surfaces. Water cleaning results showed that nanostructured aluminized surfaces achieved significantly higher cleanability rates compared to the eight thermoplastic surfaces, as well as the glass-bead blasted rough stainless steel. Thermoplastic surfaces showed overall low cleanability rates when cleaned with alkaline detergent, while stainless steel and nanoporous aluminum showed high variations. Overall, nanoporous aluminum showed promising results as it can be used to coat conveyor belts. However, compatibility with cleaning detergent and sensitivity to scratches must be further investigated. Overall, it can be concluded that cleanability is not only influenced by surface roughness, but also by the overall surface finish, scratches, and defects.
SUPPLEMENTARY INFORMATION
The online version contains supplementary material available at 10.1007/s13197-023-05778-0.
PubMed: 37599844
DOI: 10.1007/s13197-023-05778-0 -
Translational Animal Science 2023The aim was to evaluate the effect of particle size and hay quality on feed intake, granulometric profile, and composition of the ruminoreticulum content in goats. We...
The aim was to evaluate the effect of particle size and hay quality on feed intake, granulometric profile, and composition of the ruminoreticulum content in goats. We used 54 Alpine bucks in a completely randomized design with a factorial arrangement of 3 × 3. Treatments were a combination of Bermuda grass hay () with three quality levels: high (35 days), medium (50 days), and low (65 d) harvested at regrowth times. Were evaluated three particle sizes: small (16% ≥4.76 mm), medium (48% ≥4.76 mm), and large (75% ≥4.76 mm), which accounted for 66%, 75%, and 94% of physically effective fiber, respectively. Samples of offered diet, intake, and ruminoreticulum content were used to generate the granulometric profile. The offered diet, intake, and ruminoreticulum content presented different granulometric profiles regarding hay quality and particle size. Dry matter intake (DMI) and neutral detergent fiber intake (NDFI) increased ( < 0.05) when low-quality hay and large particles were offered. However, when particle size in low-quality hay was reduced, DMI and NDF decreased ( < 0.05). When analyzing the ruminoreticulum content (DM, NDF, peNDF, and indigestible DM), we did not observe any effect ( > 0.05) of hay quality or particle size on the variables. Thus, reducing hay quality and increasing particle size increase dry matter and fiber intake, presenting an interaction between forage quality and particle size. Forage quality and particle size promote intense selective behavior and chewing, which leads to a homogeneous content of particle profile in ruminoreticulum and a uniform average retention time.
PubMed: 38023420
DOI: 10.1093/tas/txad101 -
Applied Microbiology and Biotechnology Jan 2024The application of enzymes is expanding across diverse industries due to their nontoxic and biodegradable characteristics. Another advantage is their cost-effectiveness,... (Review)
Review
The application of enzymes is expanding across diverse industries due to their nontoxic and biodegradable characteristics. Another advantage is their cost-effectiveness, reflected in reduced processing time, water, and energy consumption. Although Gram-positive bacteria, Bacillus, and Streptomyces spp. are successfully used for production of industrially relevant enzymes, they still lag far behind Escherichia coli as hosts for recombinant protein production. Generally, proteins secreted by Bacillus and Streptomyces hosts are released into the culture medium; their native conformation is preserved and easier recovery process enabled. Given the resilience of both hosts in harsh environmental conditions and their spore-forming capability, a deeper understanding and broader use of Bacillus and Streptomyces as expression hosts could significantly enhance the robustness of industrial bioprocesses. This mini-review aims to compare two expression hosts, emphasizing their specific advantages in industrial surroundings such are chemical, detergent, textile, food, animal feed, leather, and paper industries. The homologous sources, heterologous hosts, and molecular tools used for the production of recombinant proteins in these hosts are discussed. The potential to use both hosts as biocatalysts is also evaluated. Undoubtedly, Bacillus and Streptomyces spp. as production hosts possess the potential to take on a more substantial role, providing superior (bio-based) process robustness and flexibility. KEY POINTS: • Bacillus and Streptomyces spp. as robust hosts for enzyme production. • Industrially relevant enzyme groups for production in alternative hosts highlighted. • Molecular biology techniques are enabling easier utilization of both hosts.
Topics: Animals; Bacillus; Animal Feed; Biological Transport; Culture Media; Escherichia coli
PubMed: 38289383
DOI: 10.1007/s00253-023-12900-x -
Biomimetics (Basel, Switzerland) Nov 2023Cell-derived extracellular matrix (ECM) has become increasingly popular in tissue engineering applications due to its ability to provide tailored signals for desirable...
Cell-derived extracellular matrix (ECM) has become increasingly popular in tissue engineering applications due to its ability to provide tailored signals for desirable cellular responses. Anisotropic cardiac-specific ECM scaffold decellularized from human induced pluripotent stem cell (hiPSC)-derived cardiac fibroblasts (hiPSC-CFs) mimics the native cardiac microenvironment and provides essential biochemical and signaling cues to hiPSC-derived cardiomyocytes (hiPSC-CMs). The objective of this study was to assess the efficacy of two detergent-based decellularization methods: (1) a combination of ethylenediaminetetraacetic acid and sodium dodecyl sulfate (EDTA + SDS) and (2) a combination of sodium deoxycholate and deoxyribonuclease (SD + DNase), in preserving the composition and bioactive substances within the aligned ECM scaffold while maximumly removing cellular components. The decellularization effects were evaluated by characterizing the ECM morphology, quantifying key structural biomacromolecules, and measuring preserved growth factors. Results showed that both treatments met the standard of cell removal (less than 50 ng/mg ECM dry weight) and substantially preserved major ECM biomacromolecules and growth factors. The EDTA + SDS treatment was more time-efficient and has been determined to be a more efficient method for generating an anisotropic ECM scaffold from aligned hiPSC-CFs. Moreover, this cardiac-specific ECM has demonstrated effectiveness in supporting the alignment of hiPSC-CMs and their expression of mature structural and functional proteins in in vitro cultures, which is crucial for cardiac tissue engineering.
PubMed: 37999192
DOI: 10.3390/biomimetics8070551 -
Scientific Reports Aug 2023The compound 2,4-diacetylphloroglucinol (DAPG) is a broad-spectrum antibiotic that is primarily produced by Pseudomonas spp. DAPG plays an important role in the...
The compound 2,4-diacetylphloroglucinol (DAPG) is a broad-spectrum antibiotic that is primarily produced by Pseudomonas spp. DAPG plays an important role in the biocontrol disease suppressing activity of Pseudomonas spp. In the current study, we report the discovery of the DAPG biosynthetic cluster in strains of Chromobacterium vaccinii isolated from Brazilian aquatic environments and the distribution of the biosynthetic cluster in the Chromobacterium genus. Phylogenetic analysis of the phlD protein suggests the biosynthetic cluster probably entered the genus of Chromobacterium after a horizontal gene transfer event with a member of the Pseudomonas fluorescens group. We were able to detect trace amounts of DAPG in wild type cultures and confirm the function of the cluster with heterologous expression in Escherichia coli. In addition, we identified and verified the presence of other secondary metabolites in these strains. We also confirmed the ability of C. vaccinii strains to produce bioactive pigment violacein and bioactive cyclic depsipeptide FR900359. Both compounds have been reported to have antimicrobial and insecticidal activities. These compounds suggest strains of C. vaccinii should be further explored for their potential as biocontrol agents.
Topics: Chromobacterium; Phylogeny; Anti-Bacterial Agents; Brazil; Escherichia coli; Pseudomonas
PubMed: 37653049
DOI: 10.1038/s41598-023-41277-0 -
Journal of Structural Biology: X Dec 2023The drug Rimantadine binds to two different sites in the M2 protein from influenza A, a peripheral site and a pore site that is the primary site of efficacy. It remained...
The drug Rimantadine binds to two different sites in the M2 protein from influenza A, a peripheral site and a pore site that is the primary site of efficacy. It remained enigmatic that pore binding did not occur in certain detergent micelles, and in particular incomplete binding was observed in a mixture of lipids selected to match the viral membrane. Here we show that two effects are responsible, namely changes in the protein upon pore binding that prevented detergent solubilization, and slow binding kinetics in the lipid samples. Using 55-100 kHz magic-angle spinning NMR, we characterize kinetics of drug binding in three different lipid environments: DPhPC, DPhPC with cholesterol and viral mimetic membrane lipid bilayers. Slow pharmacological binding kinetics allowed the characterization of spectral changes associated with non-specific binding to the protein periphery in the kinetically trapped pore-apo state. Resonance assignments were determined from a set of proton-detected 3D spectra. Chemical shift changes associated with functional binding in the pore of M2 were tracked in real time in order to estimate the activation energy. The binding kinetics are affected by pH and the lipid environment and in particular cholesterol. We found that the imidazole-imidazole hydrogen bond at residue histidine 37 is a stable feature of the protein across several lipid compositions. Pore binding breaks the imidazole-imidazole hydrogen bond and limits solubilization in DHPC detergent.
PubMed: 37363040
DOI: 10.1016/j.yjsbx.2023.100090 -
Frontiers in Microbiology 2023Enteric methane from cow burps, which results from microbial fermentation of high-fiber feed in the rumen, is a significant contributor to greenhouse gas emissions. A...
BACKGROUND
Enteric methane from cow burps, which results from microbial fermentation of high-fiber feed in the rumen, is a significant contributor to greenhouse gas emissions. A promising strategy to address this problem is microbiome-based precision feed, which involves identifying key microorganisms for methane production. While machine learning algorithms have shown success in associating human gut microbiome with various human diseases, there have been limited efforts to employ these algorithms to establish microbial biomarkers for methane emissions in ruminants.
METHODS
In this study, we aim to identify potential methane biomarkers for methane emission from ruminants by employing regression algorithms commonly used in human microbiome studies, coupled with different feature selection methods. To achieve this, we analyzed the microbiome compositions and identified possible confounding metadata variables in two large public datasets of Holstein cows. Using both the microbiome features and identified metadata variables, we trained different regressors to predict methane emission. With the optimized models, permutation tests were used to determine feature importance to find informative microbial features.
RESULTS
Among the regression algorithms tested, random forest regression outperformed others and allowed the identification of several crucial microbial taxa for methane emission as members of the native rumen microbiome, including the genera , and . Additionally, our results revealed that certain herd locations and feed composition markers, such as the lipid intake and neutral-detergent fiber intake, are also predictive features for methane emissions.
CONCLUSION
We demonstrated that machine learning, particularly regression algorithms, can effectively predict cow methane emissions and identify relevant rumen microorganisms. Our findings offer valuable insights for the development of microbiome-based precision feed strategies aiming at reducing methane emissions.
PubMed: 38143860
DOI: 10.3389/fmicb.2023.1308363 -
Biotechnology For Biofuels and... Aug 2023Lignocellulosic biomass is the most abundant and renewable terrestrial raw material for conversion into bioproducts and biofuels. However, the low utilization efficiency...
BACKGROUND
Lignocellulosic biomass is the most abundant and renewable terrestrial raw material for conversion into bioproducts and biofuels. However, the low utilization efficiency of lignocellulose causes environmental pollution and resource waste, which limits the large-scale application of bioconversion. The degradation of lignocellulose by microorganisms is an efficient and cost-effective way to overcome the challenge of utilizing plant biomass resources. This work aimed to screen valuable cellulolytic bacteria, explore its molecular mechanism from genomic insights, and investigate the ability of the strain to biodegrade wheat straw.
RESULTS
Bacillus subtilis (B. subtilis) RLI2019 was isolated from the intestine of Reticulitermes labralis. The strain showed comprehensive enzyme activities related to lignocellulose degradation, which were estimated as 4.06, 1.97, 4.12, 0.74, and 17.61 U/mL for endoglucanase, β-glucosidase, PASC enzyme, filter paper enzyme, and xylanase, respectively. Whole genome sequencing was performed to better understand the genetic mechanism of cellulose degradation. The genome size of B. subtilis RLI2019 was 4,195,306 bp with an average GC content of 43.54%, and the sequence characteristics illustrated an extremely high probability (99.41%) as a probiotic. The genome contained 4,381 protein coding genes with an average GC content of 44.20%, of which 145 genes were classified into six carbohydrate-active enzyme (CAZyme) families and 57 subfamilies. Eight cellulose metabolism enzyme-related genes and nine hemicellulose metabolism enzyme-related genes were annotated by the CAZyme database. The starch and sucrose metabolic pathway (ko00500) was the most enriched with 46 genes in carbohydrate metabolism. B. subtilis RLI2019 was co-cultured with wheat straw for 7 days of fermentation, the contents of neutral detergent fiber, acid detergent fiber, hemicellulose, and lignin were significantly reduced by 5.8%, 10.3%, 1.0%, and 4.7%, respectively. Moreover, the wheat straw substrate exhibited 664.9 μg/mL of reducing sugars, 1.22 U/mL and 6.68 U/mL of endoglucanase and xylanase activities, respectively. Furthermore, the fiber structures were effectively disrupted, and the cellulose crystallinity was significantly reduced from 40.2% to 36.9%.
CONCLUSIONS
The complex diversity of CAZyme composition mainly contributed to the strong cellulolytic attribute of B. subtilis RLI2019. These findings suggest that B. subtilis RLI2019 has favorable potential for biodegradation applications, thus it can be regarded as a promising candidate bacterium for lignocellulosic biomass degradation.
PubMed: 37598218
DOI: 10.1186/s13068-023-02375-3 -
Frontiers in Veterinary Science 2023Working dogs routinely operate in environmental conditions which may necessitate daily bathing to remove contaminants or soilage. The impacts of frequent or repeated...
INTRODUCTION
Working dogs routinely operate in environmental conditions which may necessitate daily bathing to remove contaminants or soilage. The impacts of frequent or repeated bathing on the canine dermal microbiota are unknown. The objective of this study was to characterize changes in canine dermal microbial populations following repeated daily bathing.
METHODS
Labrador retrievers ( = 16) were bathed daily using a dilute dish detergent solution (1.6% detergent solution) over the course of 14 days. Dermal microbial DNA was collected sterile swabs ( = 142) taken at days 0, 7, 14, 16, 21, 28, 35, 42, and 49 and analyzed for alpha diversity, beta diversity and relative abundance to assess changes in the dermal microbiota 16 s sequencing.
RESULTS
Results indicate that daily bathing significantly increased Shannon diversity, Chao1, and several rare amplicon sequence variants. Although typically reported in highest abundance, relative abundance was decreased in the phyla Actinobacteria, Firmicutes, and Proteobacteria ( < 0.05).
CONCLUSION
Repeated daily bathing with dilute dish detergent significantly reduced normal healthy dermal microbial taxa and created significant changes in the dermal microbiota of canines. Disruption to the canine dermal microbiota may cause negative impacts to canine dermal health and require further investigation.
PubMed: 37621867
DOI: 10.3389/fvets.2023.1204159