Draft Genome Sequence of Lignin-Degrading Agrobacterium sp. Strain S2, Isolated from a Decaying Oil Palm Empty Fruit Bunch.
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ABSTRACT:
SUBMITTER: Faisal UH
PROVIDER: S-EPMC8142572 | biostudies-literature |
REPOSITORIES: biostudies-literature
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Project description:Lignin is one of the most abundant natural resources that can be exploited for the bioproduction of value-added commodity chemicals. Oil palm empty fruit bunches (OPEFBs), byproducts of palm oil production, are abundant lignocellulosic biomass but largely used for energy and regarded as waste. Pretreatment of OPEFB lignin can yield a mixture of aromatic compounds that can potentially serve as substrates to produce commercially important chemicals. However, separation of the mixture into desired individual substrates is required, which involves expensive steps that undermine the utility of OPEFB lignin. Here, we report successful engineering of microbial hosts that can directly utilize heterogeneous mixtures derived from OPEFB lignin to produce commodity chemicals, adipic acid and levulinic acid. Furthermore, the corresponding bioconversion pathway was placed under a genetic controller to autonomously activate the conversion process as the cells are fed with a depolymerized OPEFB lignin mixture. This study demonstrates a simple, one-pot biosynthesis approach that directly utilizes derivatives of agricultural waste to produce commodity chemicals.
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Project description:Oil palm empty fruit bunches (OPEFB) are the most abundant, inexpensive, and environmentally friendly lignocellulosic biomass in Malaysia. Investigations on the microbial diversity of decaying OPEFB may reveal microbes with complex enzymes that have the potential to enhance the conversion of lignocellulose into second-generation biofuels as well as the production of other value-added products. In the present study, fungal and bacterial diversities in decaying OPEFB were identified using Illumina MiSeq sequencing of the V3 region of the 16S rRNA gene and V4 region of the 18S rRNA gene. Fungal diversity in decaying OPEFB was dominated by the phylum Ascomycota (14.43%), while most of the bacterial sequences retrieved belonged to Proteobacteria (76.71%). Three bacterial strains isolated from decaying OPEFB, designated as S18, S20, and S36, appeared to grow with extracted OPEFB-lignin and Kraft lignin (KL) as the sole carbon source. 16S rRNA gene sequencing identified the 3 isolates as Paenibacillus sp.. The molecular weight distribution of KL before and after degradation showed significant depolymerization when treated with bacterial strains S18, S20, and S36. The presence of low-molecular-weight lignin-related compounds, such as vanillin and 2-methoxyphenol derivatives, which were detected by a GC-MS analysis, confirmed the KL-degrading activities of isolated Paenibacillus strains.
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Project description:Empty palm fruit bunch fiber (EPFBF) is a renewable resource in oil palm plantations that can be used for lignocellulosic bioethanol production. To enhance ethanol productivity with high-lignin-content EPFBF, the biomass was prepared with an alkali-thermal pretreatment (sodium hydroxide, 121°C, 60 min). The delignification yield was 55.4-56.9%, in proportion to the amount of sodium hydroxide, from 0.5 to 2.0 M. The lignin and hemicellulose contents of EPFBF were reduced by the pretreatment process, whereas the proportion of cellulose was increased. During enzymatic saccharification using Celluclast 1.5L and Novozyme 188 enzyme cocktails, about 62% of glucan was converted to a fermentable sugar. In simultaneous saccharification and fermentation, comparison among three ethanologenic yeast strains showed Saccharomyces cerevisiae W303-1A to be a candidate for maximum ethanol yield. In a batch fermentation with alkali-pretreated EPFBF hydrolysate, 21 g/L ethanol was obtained within 28 h, for a production yield of 0.102 g ethanol/g dry EPFBF or 0.458 g ethanol/g glucose. Moreover, a fed-batch fermentation produced 33.8±0.5 g/L ethanol with 1.57 g/L/h productivity in 20 h. These results show that the combination of alkaline pretreatment and biomass hydrolysate is useful for enhancing bioethanol productivity using delignified EPFBF.
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Project description:This paper aims to examine the effect of cellulose nanocrystals (CNCs) derived from oil palm empty fruit bunch fiber (EFB) incorporating cement mortar on its structural performances. Cellulose nanocrystals (CNCs) were extracted from ?-cellulose extracted from EFB using an acid hydrolysis process with a concentration of acid used was 64% w/v under the temperature of 45?°C for 60?minutes. The Cellulose nanocrystals (CNCs) were mixed into the cement mortar ranging from 0 to 0.8% w/w and its mechanical properties were determined. The developed CNCs mortar was characterized for their compressive and flexural properties as well as microstructure. The influence of CNCs concentration, curing method, dispersion of CNCs on mortar's mechanical performance was thoroughly examined to find out the optimum condition. Overall results revealed that an addition of 0.4% cellulose nanocrystals has shown to increase the compressive and flexural strength to 46% and 20%, respectively cured under the wrapping method. The hydration of cementitious composites also improved significantly with the addition of CNCs by the formation of highly crystalline of portlandite observed under the XRD test. This present work demonstrates the importance of palm oil empty fruit bunch waste as a sustainable resource of cellulose nanocrystals admixture to achieve structural strength of cement mortar and promotes green technologies in construction.
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Project description:Oil palm empty fruit bunch (OPEFB) is considered the cheapest natural fiber with good properties and exists abundantly in Malaysia. It has great potential as an alternative main raw material to substitute woody plants. On the other hand, the well-known polymeric hydrogel has gathered a lot of interest due to its three-dimensional (3D) cross-linked network with high porosity. However, some issues regarding its performance like poor interfacial connectivity and mechanical strength have been raised, hence nanocellulose has been introduced. In this review, the plantation of oil palm in Malaysia is discussed to show the potential of OPEFB as a nanocellulose material in hydrogel production. Nanocellulose can be categorized into three nano-structured celluloses, which differ in the processing method. The most popular nanocellulose hydrogel processing methods are included in this review. The 3D printing method is taking the lead in current hydrogel production due to its high complexity and the need for hygiene products. Some of the latest advanced applications are discussed to show the high commercialization potential of nanocellulose hydrogel products. The authors also considered the challenges and future direction of nanocellulose hydrogel. OPEFB has met the requirements of the marketplace and product value chains as nanocellulose raw materials in hydrogel applications.
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Project description:Lignocellulosic biomass can provide a consistent and sustainable source of bioenergy. Degraded empty fruit bunch (DEFB) from oil palm is a suitable candidate for biofuels and biochemicals production by using alkaline ethylene glycol pretreatment and two-staged acid hydrolysis. This paper provided several important physical and chemical properties of treated DEFB after alkaline ethylene glycol pretreatment. The dataset for analysis methods which were used in two-staged acid hydrolysis for the determination of reducing sugars, phenolic compounds, furfural and hydroxymethyfurfural (HMF) in the acid hydrolysate was also provided. The key information and dataset provided in this article can be useful for researchers to determine the product compositions from lignocellulosic biomass after the pretreatment and acid hydrolysis processes in the future.
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Project description:This study was conducted in order to optimise simultaneous saccharification and fermentation (SSF) for biobutanol production from a pretreated oil palm empty fruit bunch (OPEFB) by Clostridium acetobutylicum ATCC 824. Temperature, initial pH, cellulase loading and substrate concentration were screened using one factor at a time (OFAT) and further statistically optimised by central composite design (CCD) using the response surface methodology (RSM) approach. Approximately 2.47 g/L of biobutanol concentration and 0.10 g/g of biobutanol yield were obtained after being screened through OFAT with 29.55% increment (1.42 fold). The optimised conditions for SSF after CCD were: temperature of 35 °C, initial pH of 5.5, cellulase loading of 15 FPU/g-substrate and substrate concentration of 5% (w/v). This optimisation study resulted in 55.95% increment (2.14 fold) of biobutanol concentration equivalent to 3.97 g/L and biobutanol yield of 0.16 g/g. The model and optimisation design obtained from this study are important for further improvement of biobutanol production, especially in consolidated bioprocessing technology.
| S-EPMC6222772 | biostudies-literature
Project description:The palm oil industry produces large amounts of empty fruit bunches (EFB) as waste. EFB are very recalcitrant toward further processing, although their valorization could create novel incentives and bio-economic opportunities for the industries involved. Herein, EFB have been successfully subjected to the OrganoCat pretreatment-using 2,5-furandicarboxylic acid as the biogenic catalyst-to fractionate and separate this lignocellulosic material into its main components in a single step. The pretreatment of EFB leads to the deacetylation and depolymerization of noncellulosic polysaccharides and to the partial delignification of the cellulosic fiber. The OrganoCat processing of EFB yielded 45 ± 0.5 wt % cellulose-enriched pulp, 20 ± 0.7 wt % extracted lignin, 3.8 ± 0.2 wt % furfural, and 11 ± 0.6 wt % hydrolyzed sugars. The obtained EFB-pulp showed high accessibility to cellulases, resulting in a glucan conversion of 73 ± 2% after 72 h (15 ± 2% after 1 h) with commercial cellulase cocktail (Accellerase 1500). Overall, the results suggest that the treatment of the EFB material using OrganoCat may create promising paths for the full valorization of EFBs.
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Project description:The changes in lignocellulosic biomass composition and in vitro rumen digestibility of oil palm empty fruit bunch (OPEFB) after pre-treatment with the fungus Ganoderma lucidum were evaluated. The results demonstrated that the pre-treatment for 2-12 weeks has gradually degraded the OPEFB in a time-dependent manner; whereby lignin, cellulose, and hemicellulose were respectively degraded by 41.0, 20.5, and 26.7% at the end of the incubation period. The findings were corroborated using the physical examination of the OPEFB by scanning electron microscopy. Moreover, the OPEFB pre-treated for 12 weeks has shown the highest in vitro digestibility of dry (77.20%) and organic (69.78%) matter, where they were enhanced by 104.07 and 96.29%, respectively, as compared to the untreated control. The enhancement in the in vitro ruminal digestibility was negatively correlated with the lignin content in the OPEFB. Therefore, biologically delignified OPEFB with G. lucidum fungal culture pre-treatment have the potential to be utilized as one of the ingredients for the development of a novel ruminant forage.
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Project description:Trichoderma asperellum PK1J2 is a promising cellulase-producing fungus isolated from a palm empty fruit bunch in Riau, Indonesia. Presented here is the genome assembly of T. asperellum PK1J2. The whole genome of the fungi was sequenced using Illumina NovaSeq PE150. The genome assembly was performed using SOAPdenovo, SPAdes, and Abyss software, and the assembly results of the three types of software were integrated with CISA software. T. asperellum PK1J2 has 6,835 protein-coding genes with a length of 9,233,597 bp. The final genome assembly was approximately 36 Mbp with a GC content of 48.45%. This whole genome shotgun project has been deposited at DDBJ/ENA/GenBank under accession JAGJIK000000000.
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