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Singh A, T V A, Singh S, Saxena AK, Nain L. Application of fungal inoculants enhances colonization of secondary bacterial degraders during in situ paddy straw degradation: a genomic insights into cross-domain synergism. Int Microbiol 2024:10.1007/s10123-024-00570-2. [PMID: 39138687 DOI: 10.1007/s10123-024-00570-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2024] [Revised: 06/01/2024] [Accepted: 08/01/2024] [Indexed: 08/15/2024]
Abstract
Rice cultivation generates huge amounts of on farm residues especially under mechanical harvesting. Paddy straw being recalcitrant hinders sowing of upcoming rabi crops like wheat and mustard. Non-environmental sustainable practice of on-farm burning of the paddy residues is being popularly followed for quick disposal of the agro-residues and land preparation. However, conservation agriculture involving in situ residue incorporation can be a sustainable option to utilize the residues for improvement of soil biological health. However, low temperature coupled with poor nitrogen status of soil reduces the decomposition rate of residues that may lead to nitrogen immobilization and hindrance in land preparation. In this direction, ecological impact of two approaches viz priming with urea and copiotrophic fungus-based bioformulation (CFB) consisting of Coprinopsis cinerea LA2 and Cyathus stercoreus ITCC3745 was studied for in situ degradation of residues. Succession of bacterial diversity was deciphered through high throughput whole metagenomic sequencing along with studies on dynamics of soil microbial enzymes. Treatments receiving CFB (T1) and urea (T2) when compared with bulk soil (absolute control) showed an increase in richness of the microbial diversity as compared to control straw retained treatment control (T3). The β diversity indices also indicated sufficient group variations among the treatments receiving CFB and urea as compared to only straw retained treatment and bulk soil. Priming of paddy straw with CFB and urea also induced significant rewiring of the bacterial co-occurrence networks. Quantification of soil ligno-cellulolytic activity as well as abundance of carbohydrate active enzymes (CAZy) genes indicated high activities of hydrolytic enzymes in CFB primed straw retention treatment as compared to urea primed straw retention treatment. The genomic insights on effectiveness of copiotrophic fungus bioformulation for in situ degradation of paddy straw will further help in developing strategies for management of crop residues in eco-friendly manner.
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Affiliation(s)
- Arjun Singh
- ICAR-National Bureau of Agriculturally Important Microorganisms, Maunath Bhanjan, Kushmaur, UP, India
- ICAR-Central Soil Salinity Research Institute, RRS Lucknow, Lucknow, UP, India
| | - Abiraami T V
- Division of Microbiology, ICAR-Indian Agricultural Research Institute, New Delhi, India
- Molecular Biology Division, Bhabha Atomic Research Centre, Mumbai, Maharashtra, India
| | - Surender Singh
- Department of Microbiology, Central University of Haryana, Mahendergarh, Haryana, India.
| | - Anil Kumar Saxena
- ICAR-National Bureau of Agriculturally Important Microorganisms, Maunath Bhanjan, Kushmaur, UP, India
| | - Lata Nain
- Division of Microbiology, ICAR-Indian Agricultural Research Institute, New Delhi, India
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2
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Zhou L, Lai CY, Wu M, Guo J. Simultaneous Biogas Upgrading and Valuable Chemical Production Using Homoacetogens in a Membrane Biofilm Reactor. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:12509-12519. [PMID: 38963393 DOI: 10.1021/acs.est.4c02021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/05/2024]
Abstract
Biogas produced from anaerobic digestion usually contains impurities, particularly with a high content of CO2 (15-60%), thus decreasing its caloric value and limiting its application as an energy source. H2-driven biogas upgrading using homoacetogens is a promising approach for upgrading biogas to biomethane and converting CO2 to acetate simultaneously. Herein, we developed a novel membrane biofilm reactor (MBfR) with H2 and biogas separately supplied via bubbleless hollow fiber membranes. The gas-permeable hollow fibers of the MBfR enabled high H2 and CO2 utilization efficiencies (∼98% and ∼97%, respectively) and achieved concurrent biomethane (∼94%) and acetate (∼450 mg/L/d) production. High-throughput 16S rRNA gene amplicon sequencing suggested that enriched microbial communities were dominated by Acetobacterium (38-48% relative abundance). In addition, reverse transcription quantitative PCR of the functional marker gene formyltetrahydrofolate synthetase showed that its expression level increased with increasing H2 and CO2 utilization efficiencies. These results indicate that Acetobacterium plays a key role in CO2 to acetate conversion. These findings are expected to facilitate energy-positive wastewater treatment and contribute to the development of a new solution to biogas upgrading.
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Affiliation(s)
- Linjie Zhou
- Australian Centre for Water and Environmental Biotechnology, The University of Queensland, St Lucia, Brisbane 4072, Australia
| | - Chun-Yu Lai
- Australian Centre for Water and Environmental Biotechnology, The University of Queensland, St Lucia, Brisbane 4072, Australia
| | - Mengxiong Wu
- Australian Centre for Water and Environmental Biotechnology, The University of Queensland, St Lucia, Brisbane 4072, Australia
| | - Jianhua Guo
- Australian Centre for Water and Environmental Biotechnology, The University of Queensland, St Lucia, Brisbane 4072, Australia
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3
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Ji J, Escobar M, Cui S, Zhang W, Bao C, Su X, Wang G, Zhang S, Chen H, Chen G. Isolation and Characterization of a Low-Temperature, Cellulose-Degrading Microbial Consortium from Northeastern China. Microorganisms 2024; 12:1059. [PMID: 38930441 PMCID: PMC11205951 DOI: 10.3390/microorganisms12061059] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2024] [Revised: 05/17/2024] [Accepted: 05/22/2024] [Indexed: 06/28/2024] Open
Abstract
The lack of efficient ways to dispose of lignocellulosic agricultural residues is a serious environmental issue. Low temperatures greatly impact the ability of organisms to degrade these wastes and convert them into nutrients. Here, we report the isolation and genomic characterization of a microbial consortium capable of degrading corn straw at low temperatures. The microorganisms isolated showed fast cellulose-degrading capabilities, as confirmed by scanning electron microscopy and the weight loss in corn straw. Bacteria in the consortium behaved as three diverse and functionally distinct populations, while fungi behaved as a single population in both diversity and functions overtime. The bacterial genus Pseudomonas and the fungal genus Thermoascus had prominent roles in the microbial consortium, showing significant lignocellulose waste-degrading functions. Bacteria and fungi present in the consortium contained high relative abundance of genes for membrane components, with amino acid breakdown and carbohydrate degradation being the most important metabolic pathways for bacteria, while fungi contained more genes involved in energy use, carbohydrate degradation, lipid and fatty acid decomposition, and biosynthesis.
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Affiliation(s)
- Jiaoyang Ji
- College of Life Science, Jilin Agricultural University, Changchun 130022, China
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Maia Escobar
- College of Life Science, Jilin Agricultural University, Changchun 130022, China
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Shijia Cui
- College of Life Science, Jilin Agricultural University, Changchun 130022, China
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Wei Zhang
- Jilin Province Hydraulic Research Institute, Changchun 130022, China
| | - Changjie Bao
- College of Life Science, Jilin Agricultural University, Changchun 130022, China
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Xuhan Su
- College of Life Science, Jilin Agricultural University, Changchun 130022, China
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Gang Wang
- College of Life Science, Jilin Agricultural University, Changchun 130022, China
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Sitong Zhang
- College of Life Science, Jilin Agricultural University, Changchun 130022, China
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Huan Chen
- College of Life Science, Jilin Agricultural University, Changchun 130022, China
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
| | - Guang Chen
- College of Life Science, Jilin Agricultural University, Changchun 130022, China
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, Jilin Agricultural University, Changchun 130118, China
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4
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Akram F, Fatima T, Ibrar R, Shabbir I, Shah FI, Haq IU. Trends in the development and current perspective of thermostable bacterial hemicellulases with their industrial endeavors: A review. Int J Biol Macromol 2024; 265:130993. [PMID: 38508567 DOI: 10.1016/j.ijbiomac.2024.130993] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2023] [Revised: 03/12/2024] [Accepted: 03/17/2024] [Indexed: 03/22/2024]
Abstract
Hemicellulases are enzymes that hydrolyze hemicelluloses, common polysaccharides in nature. Thermophilic hemicellulases, derived from microbial strains, are extensively studied as natural biofuel sources due to the complex structure of hemicelluloses. Recent research aims to elucidate the catalytic principles, mechanisms and specificity of hemicellulases through investigations into their high-temperature stability and structural features, which have applications in biotechnology and industry. This review article targets to serve as a comprehensive resource, highlighting the significant progress in the field and emphasizing the vital role of thermophilic hemicellulases in eco-friendly catalysis. The primary goal is to improve the reliability of hemicellulase enzymes obtained from thermophilic bacterial strains. Additionally, with their ability to break down lignocellulosic materials, hemicellulases hold immense potential for biofuel production. Despite their potential, the commercial viability is hindered by their high enzyme costs, necessitating the development of efficient bioprocesses involving waste pretreatment with microbial consortia to overcome this challenge.
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Affiliation(s)
- Fatima Akram
- Institute of Industrial Biotechnology, Government College University, Lahore 54000, Pakistan.
| | - Taseer Fatima
- Institute of Industrial Biotechnology, Government College University, Lahore 54000, Pakistan
| | - Ramesha Ibrar
- Institute of Industrial Biotechnology, Government College University, Lahore 54000, Pakistan
| | - Ifrah Shabbir
- Institute of Industrial Biotechnology, Government College University, Lahore 54000, Pakistan
| | | | - Ikram Ul Haq
- Institute of Industrial Biotechnology, Government College University, Lahore 54000, Pakistan; Pakistan Academy of Sciences, Islamabad, Pakistan
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5
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McNichol SM, Sanchez-Quete F, Loeb SK, Teske AP, Shah Walter SR, Mahmoudi N. Dynamics of carbon substrate competition among heterotrophic microorganisms. THE ISME JOURNAL 2024; 18:wrae018. [PMID: 38366177 PMCID: PMC10942773 DOI: 10.1093/ismejo/wrae018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/12/2023] [Revised: 01/06/2024] [Accepted: 01/26/2024] [Indexed: 02/18/2024]
Abstract
Growing evidence suggests that interactions among heterotrophic microorganisms influence the efficiency and rate of organic matter turnover. These interactions are dynamic and shaped by the composition and availability of resources in their surrounding environment. Heterotrophic microorganisms inhabiting marine environments often encounter fluctuations in the quality and quantity of carbon inputs, ranging from simple sugars to large, complex compounds. Here, we experimentally tested how the chemical complexity of carbon substrates affects competition and growth dynamics between two heterotrophic marine isolates. We tracked cell density using species-specific polymerase chain reaction (PCR) assays and measured rates of microbial CO2 production along with associated isotopic signatures (13C and 14C) to quantify the impact of these interactions on organic matter remineralization. The observed cell densities revealed substrate-driven interactions: one species exhibited a competitive advantage and quickly outgrew the other when incubated with a labile compound whereas both species seemed to coexist harmoniously in the presence of more complex organic matter. Rates of CO2 respiration revealed that coincubation of these isolates enhanced organic matter turnover, sometimes by nearly 2-fold, compared to their incubation as mono-cultures. Isotopic signatures of respired CO2 indicated that coincubation resulted in a greater remineralization of macromolecular organic matter. These results demonstrate that simple substrates promote competition whereas high substrate complexity reduces competitiveness and promotes the partitioning of degradative activities into distinct niches, facilitating coordinated utilization of the carbon pool. Taken together, this study yields new insight into how the quality of organic matter plays a pivotal role in determining microbial interactions within marine environments.
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Affiliation(s)
- Samuel M McNichol
- Department of Earth and Planetary Sciences, McGill University, 3450 University St, Montréal, Quebec H3A 0E8, Canada
| | - Fernando Sanchez-Quete
- Department of Civil Engineering, McGill University, 817 Rue Sherbrooke Ouest, Montréal, Quebec H3A 0C3, Canada
| | - Stephanie K Loeb
- Department of Civil Engineering, McGill University, 817 Rue Sherbrooke Ouest, Montréal, Quebec H3A 0C3, Canada
| | - Andreas P Teske
- Department of Earth, Marine and Environmental Sciences, University of North Carolina, Chapel Hill, NC 27599, United States
| | - Sunita R Shah Walter
- School of Marine Science and Policy, University of Delaware, 700 Pilottown Rd, Lewes, DE 19958, United States
| | - Nagissa Mahmoudi
- Department of Earth and Planetary Sciences, McGill University, 3450 University St, Montréal, Quebec H3A 0E8, Canada
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6
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Li S, Li C, Chen S, Wang X, Liu J, Deng X, Cai H, Liu G. Effects of Solid-State Fermentation on the Standardized Ileal Digestibility of Amino Acids and Apparent Metabolizable Energy in Peanut Meal Fed to Broiler Chickens. FERMENTATION-BASEL 2023. [DOI: 10.3390/fermentation9040346] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/05/2023]
Abstract
Peanut meal (PNM) is a byproduct of the peanut oil extraction process, but its application is seriously limited by the presence of anti-nutritional factors, imbalance in amino acid profiles, and susceptibility to mycotoxin contamination. This study was conducted to investigate the effects of solid-state fermentation on the nutritional quality of PNM, as well as the effects of PNM and fermented peanut meal (FPNM) on the ileal digestibility of amino acids and apparent metabolizable energy (AME) of broiler chickens. The results indicated that the fermentation improved the quality of PNM by increasing the crude protein, TCA-soluble protein, and L-lactic acid concentration (p < 0.05), and decreasing the crude fiber, phytic acid, and aflatoxin B1 concentration (p < 0.05). Solid-state fermentation also increased the free amino acids level and improved the balance of hydrolyzed amino acids of PNM. A nitrogen-free diet was used to determine the loss of endogenous amino acid in birds, and the PNM or FPNM as the only protein source to formulate semi-purified diets. The result showed that feeding on FPNM resulted in higher apparent ileal digestibility (AID) and standardized ileal digestibility (SID) values of the essential amino acids of methionine, lysine, leucine, and phenylalanine (p < 0.05). Moreover, the AID and SID values of the non-essential amino acids of FPNM were both higher than those of PNM, except for proline (p < 0.05). The AME was determined by the classic substitution method, and the results showed that fermentation had no effect on the AME value (p > 0.05). In conclusion, solid-state fermentation improved the nutritional value of PNM, and FPNM was a potential ingredient as an alternative protein source for broilers.
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Affiliation(s)
- Shuzhen Li
- Key Laboratory for Feed Biotechnology of the Ministry of Agriculture and Rural Affairs, Institute of Feed Research, Chinese Academy of Agriculture Sciences, Beijing 100081, China
| | - Chong Li
- Key Laboratory for Feed Biotechnology of the Ministry of Agriculture and Rural Affairs, Institute of Feed Research, Chinese Academy of Agriculture Sciences, Beijing 100081, China
- Precision Livestock and Nutrition Laboratory, Teaching and Research Centre (TERRA), Gembloux Agro-Bio Tech, University of Liège, 5030 Gembloux, Belgium
| | - Si Chen
- Department of Molecular Cell Biology, Samsung Medical Center, Sungkyunkwan University School of Medicine, Suwon 16419, Republic of Korea
| | - Xiaoying Wang
- Key Laboratory for Feed Biotechnology of the Ministry of Agriculture and Rural Affairs, Institute of Feed Research, Chinese Academy of Agriculture Sciences, Beijing 100081, China
| | - Jinmei Liu
- Key Laboratory for Feed Biotechnology of the Ministry of Agriculture and Rural Affairs, Institute of Feed Research, Chinese Academy of Agriculture Sciences, Beijing 100081, China
| | - Xuejuan Deng
- National Engineering Research Center of Biological Feed, Beijing 100081, China
| | - Huiyi Cai
- Key Laboratory for Feed Biotechnology of the Ministry of Agriculture and Rural Affairs, Institute of Feed Research, Chinese Academy of Agriculture Sciences, Beijing 100081, China
- National Engineering Research Center of Biological Feed, Beijing 100081, China
| | - Guohua Liu
- Key Laboratory for Feed Biotechnology of the Ministry of Agriculture and Rural Affairs, Institute of Feed Research, Chinese Academy of Agriculture Sciences, Beijing 100081, China
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7
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Wongfaed N, O-Thong S, Sittijunda S, Reungsang A. Taxonomic and enzymatic basis of the cellulolytic microbial consortium KKU-MC1 and its application in enhancing biomethane production. Sci Rep 2023; 13:2968. [PMID: 36804594 PMCID: PMC9941523 DOI: 10.1038/s41598-023-29895-0] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2022] [Accepted: 02/13/2023] [Indexed: 02/22/2023] Open
Abstract
Lignocellulosic biomass is a promising substrate for biogas production. However, its recalcitrant structure limits conversion efficiency. This study aims to design a microbial consortium (MC) capable of producing the cellulolytic enzyme and exploring the taxonomic and genetic aspects of lignocellulose degradation. A diverse range of lignocellulolytic bacteria and degrading enzymes from various habitats were enriched for a known KKU-MC1. The KKU-MC1 was found to be abundant in Bacteroidetes (51%), Proteobacteria (29%), Firmicutes (10%), and other phyla (8% unknown, 0.4% unclassified, 0.6% archaea, and the remaining 1% other bacteria with low predominance). Carbohydrate-active enzyme (CAZyme) annotation revealed that the genera Bacteroides, Ruminiclostridium, Enterococcus, and Parabacteroides encoded a diverse set of cellulose and hemicellulose degradation enzymes. Furthermore, the gene families associated with lignin deconstruction were more abundant in the Pseudomonas genera. Subsequently, the effects of MC on methane production from various biomasses were studied in two ways: bioaugmentation and pre-hydrolysis. Methane yield (MY) of pre-hydrolysis cassava bagasse (CB), Napier grass (NG), and sugarcane bagasse (SB) with KKU-MC1 for 5 days improved by 38-56% compared to non-prehydrolysis substrates, while MY of prehydrolysed filter cake (FC) for 15 days improved by 56% compared to raw FC. The MY of CB, NG, and SB (at 4% initial volatile solid concentration (IVC)) with KKU-MC1 augmentation improved by 29-42% compared to the non-augmentation treatment. FC (1% IVC) had 17% higher MY than the non-augmentation treatment. These findings demonstrated that KKU-MC1 released the cellulolytic enzyme capable of decomposing various lignocellulosic biomasses, resulting in increased biogas production.
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Affiliation(s)
- Nantharat Wongfaed
- grid.9786.00000 0004 0470 0856Department of Biotechnology, Faculty of Technology, Khon Kaen University, Khon Kaen, 40002 Thailand
| | - Sompong O-Thong
- grid.440406.20000 0004 0634 2087International College, Thaksin University, Songkhla, 90000 Thailand
| | - Sureewan Sittijunda
- grid.10223.320000 0004 1937 0490Faculty of Environment and Resource Studies, Mahidol University, Nakhon Pathom, 73170 Thailand
| | - Alissara Reungsang
- Department of Biotechnology, Faculty of Technology, Khon Kaen University, Khon Kaen, 40002, Thailand. .,Research Group for Development of Microbial Hydrogen Production Process from Biomass, Khon Kaen University, Khon Kaen, 40002, Thailand. .,Academy of Science, Royal Society of Thailand, Bangkok, 10300, Thailand.
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8
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Benatti ALT, Polizeli MDLTDM. Lignocellulolytic Biocatalysts: The Main Players Involved in Multiple Biotechnological Processes for Biomass Valorization. Microorganisms 2023; 11:microorganisms11010162. [PMID: 36677454 PMCID: PMC9864444 DOI: 10.3390/microorganisms11010162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2022] [Revised: 12/11/2022] [Accepted: 12/26/2022] [Indexed: 01/10/2023] Open
Abstract
Human population growth, industrialization, and globalization have caused several pressures on the planet's natural resources, culminating in the severe climate and environmental crisis which we are facing. Aiming to remedy and mitigate the impact of human activities on the environment, the use of lignocellulolytic enzymes for biofuel production, food, bioremediation, and other various industries, is presented as a more sustainable alternative. These enzymes are characterized as a group of enzymes capable of breaking down lignocellulosic biomass into its different monomer units, making it accessible for bioconversion into various products and applications in the most diverse industries. Among all the organisms that produce lignocellulolytic enzymes, microorganisms are seen as the primary sources for obtaining them. Therefore, this review proposes to discuss the fundamental aspects of the enzymes forming lignocellulolytic systems and the main microorganisms used to obtain them. In addition, different possible industrial applications for these enzymes will be discussed, as well as information about their production modes and considerations about recent advances and future perspectives in research in pursuit of expanding lignocellulolytic enzyme uses at an industrial scale.
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9
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Gladkov GV, Kimeklis AK, Afonin AM, Lisina TO, Orlova OV, Aksenova TS, Kichko AA, Pinaev AG, Andronov EE. The Structure of Stable Cellulolytic Consortia Isolated from Natural Lignocellulosic Substrates. Int J Mol Sci 2022; 23:ijms231810779. [PMID: 36142684 PMCID: PMC9501375 DOI: 10.3390/ijms231810779] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2022] [Revised: 08/31/2022] [Accepted: 09/04/2022] [Indexed: 10/27/2022] Open
Abstract
Recycling plant matter is one of the challenges facing humanity today and depends on efficient lignocellulose degradation. Although many bacterial strains from natural substrates demonstrate cellulolytic activities, the CAZymes (Carbohydrate-Active enZYmes) responsible for these activities are very diverse and usually distributed among different bacteria in one habitat. Thus, using microbial consortia can be a solution to rapid and effective decomposition of plant biomass. Four cellulolytic consortia were isolated from enrichment cultures from composting natural lignocellulosic substrates—oat straw, pine sawdust, and birch leaf litter. Enrichment cultures facilitated growth of similar, but not identical cellulose-decomposing bacteria from different substrates. Major components in all consortia were from Proteobacteria, Actinobacteriota and Bacteroidota, but some were specific for different substrates—Verrucomicrobiota and Myxococcota from straw, Planctomycetota from sawdust and Firmicutes from leaf litter. While most members of the consortia were involved in the lignocellulose degradation, some demonstrated additional metabolic activities. Consortia did not differ in the composition of CAZymes genes, but rather in axillary functions, such as ABC-transporters and two-component systems, usually taxon-specific and associated with CAZymes. Our findings show that enrichment cultures can provide reproducible cellulolytic consortia from various lignocellulosic substrates, the stability of which is ensured by tight microbial relations between its components.
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Affiliation(s)
- Grigory V. Gladkov
- All-Russian Research Institute of Agricultural Microbiology, 196608 Saint Petersburg, Russia
- Correspondence: ; Tel.: +7-921-402-65-16
| | - Anastasiia K. Kimeklis
- All-Russian Research Institute of Agricultural Microbiology, 196608 Saint Petersburg, Russia
- Department of Applied Ecology, Saint-Petersburg State University, 199034 Saint Petersburg, Russia
| | - Alexey M. Afonin
- All-Russian Research Institute of Agricultural Microbiology, 196608 Saint Petersburg, Russia
| | - Tatiana O. Lisina
- All-Russian Research Institute of Agricultural Microbiology, 196608 Saint Petersburg, Russia
| | - Olga V. Orlova
- All-Russian Research Institute of Agricultural Microbiology, 196608 Saint Petersburg, Russia
| | - Tatiana S. Aksenova
- All-Russian Research Institute of Agricultural Microbiology, 196608 Saint Petersburg, Russia
| | - Arina A. Kichko
- All-Russian Research Institute of Agricultural Microbiology, 196608 Saint Petersburg, Russia
| | - Alexander G. Pinaev
- All-Russian Research Institute of Agricultural Microbiology, 196608 Saint Petersburg, Russia
| | - Evgeny E. Andronov
- All-Russian Research Institute of Agricultural Microbiology, 196608 Saint Petersburg, Russia
- Dokuchaev Soil Science Institute, 119017 Moscow, Russia
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10
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Zhu D, Qaria MA, Zhu B, Sun J, Yang B. Extremophiles and extremozymes in lignin bioprocessing. RENEWABLE AND SUSTAINABLE ENERGY REVIEWS 2022; 157:112069. [DOI: 10.1016/j.rser.2021.112069] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/01/2023]
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11
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RNA-Seq Analysis on the Microbiota Associated with the White Shrimp (Litopenaeus vannamei) in Different Stages of Development. APPLIED SCIENCES-BASEL 2022. [DOI: 10.3390/app12052483] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
White leg shrimp (Litopenaeus vannamei) is a widely cultured species along the Pacific coast and is one of the most important crustaceans in world aquaculture. The microbiome composition of L. vannamei has been previously studied in different developmental stages, but there is limited information regarding the functional role of the microbiome during the development of L. vannamei. In this study the metatranscriptome in different developmental stages of L. vannamei (larvae, juvenile and adult) were generated using next generation sequencing techniques. The bacterial phyla found throughout all the stages of development belonged to the Proteobacteria, Firmicutes and Actinobacteria, these bacterial phyla are present in the digestive tract and are capable of producing several hydrolytic enzymes, which agrees with high representation of the primary metabolism and energy production, in both host and the microbiome. In this sense, functional changes were observed as the development progressed, in both host and the microbiome, in stages of larvae the most represented metabolic functions were associated with biomass production; while in juvenile and adult stages a higher proportion of metabolic functions associated to biotic and abiotic stress in L. vannamei and the microbiome were shown. This study provides evidence of the interaction of the microbiome with L. vannamei, and how the stage of development and the culture conditions of this species influences the gene expression and the microbiome composition, which suggests a complex metabolic network present throughout the life cycle of L. vannamei.
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12
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Vu V, Farkas C, Riyad O, Bujna E, Kilin A, Sipiczki G, Sharma M, Usmani Z, Gupta VK, Nguyen QD. Enhancement of the enzymatic hydrolysis efficiency of wheat bran using the Bacillus strains and their consortium. BIORESOURCE TECHNOLOGY 2022; 343:126092. [PMID: 34634465 DOI: 10.1016/j.biortech.2021.126092] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/26/2021] [Revised: 09/30/2021] [Accepted: 10/01/2021] [Indexed: 06/13/2023]
Abstract
In the downstream process, the bioconversion of lignocellulosic biomass can be improved by applying a biological pretreatment procedure using microorganisms to produce hydrolytic enzymes to modify the recalcitrant structure of lignocellulose. In this study, various Bacillus strains (B. subtilis B.01162 and B.01212, B. coagulans B.01123 and B.01139, B. cereus B.00076 and B.01718, B. licheniformis B.01223 and B.01231) were evaluated for the degrading capacity of wheat bran in the submerged medium using enzymatic activities, reducing sugars and weight loss as indicators. The obtained results revealed that the B. subtilis B.01162, B. coagulans B.01123 and B. cereus B.00076 could be promising degraders for the wheat bran pretreatment. Besides, the application of their consortium (the combination of 2-3 Bacillus species) showed the positive effects on cellulose bioconversion compared with monocultures. Among them, the mixture of B. subtilis B.01162 and B. coagulans B.01123 increased significantly the cellulase, endo-glucanase, and xylanase enzyme activity resulting in accelerating the lignocellulose degradation. Our results served a very good base for the development of microbial consortium for biological pretreatment of lignocellulosic raw materials.
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Affiliation(s)
- Vi Vu
- Department of Bioengineering and Alcoholic Drink Technology, Institute of Food Science and Technology, Hungarian University of Agriculture and Life Sciences, 1118 Budapest, Ménesi út 45, Hungary
| | - Csilla Farkas
- Department of Bioengineering and Alcoholic Drink Technology, Institute of Food Science and Technology, Hungarian University of Agriculture and Life Sciences, 1118 Budapest, Ménesi út 45, Hungary
| | - Ouahab Riyad
- Department of Bioengineering and Alcoholic Drink Technology, Institute of Food Science and Technology, Hungarian University of Agriculture and Life Sciences, 1118 Budapest, Ménesi út 45, Hungary
| | - Erika Bujna
- Department of Bioengineering and Alcoholic Drink Technology, Institute of Food Science and Technology, Hungarian University of Agriculture and Life Sciences, 1118 Budapest, Ménesi út 45, Hungary
| | - Akos Kilin
- Department of Bioengineering and Alcoholic Drink Technology, Institute of Food Science and Technology, Hungarian University of Agriculture and Life Sciences, 1118 Budapest, Ménesi út 45, Hungary
| | - Gizella Sipiczki
- Department of Bioengineering and Alcoholic Drink Technology, Institute of Food Science and Technology, Hungarian University of Agriculture and Life Sciences, 1118 Budapest, Ménesi út 45, Hungary
| | - Minaxi Sharma
- Department of Applied Biology, University of Science and Technology, Meghalaya 793101, India
| | - Zeba Usmani
- Department of Applied Biology, University of Science and Technology, Meghalaya 793101, India
| | - Vijai Kumar Gupta
- Biorefining and Advanced Materials Research Center, Scotland's Rural College (SRUC), Kings Buildings, West Mains Road, Edinburgh EH9 3JG, UK
| | - Quang D Nguyen
- Department of Bioengineering and Alcoholic Drink Technology, Institute of Food Science and Technology, Hungarian University of Agriculture and Life Sciences, 1118 Budapest, Ménesi út 45, Hungary.
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Liu H, Zhang L, Sun Y, Xu G, Wang W, Piao R, Cui Z, Zhao H. Degradation of lignocelluloses in straw using AC-1, a thermophilic composite microbial system. PeerJ 2021; 9:e12364. [PMID: 34760379 PMCID: PMC8567851 DOI: 10.7717/peerj.12364] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Accepted: 10/01/2021] [Indexed: 11/21/2022] Open
Abstract
In composting, the degradation of lignocellulose in straw is problematic due to its complex structures such as lignin. A common solution to this problem is the addition of exogenous inoculants. AC-1, a stable thermophilic microbial composite, was isolated from high temperature compost samples that can decompose lignocellulose at 50–70 °C. AC-1 had a best degradation efficiency of rice straw at 60 °C (78.92%), of hemicellulose, cellulose and lignin were 82.49%, 97.20% and 20.12%, respectively. It showed degrad-ability on both simple (filter paper, absorbent cotton) and complex (rice straw) cellulose materials. It produced acetic and formic acid during decomposition process and the pH had a trend of first downward then upward. High throughput sequencing revealed the main bacterial components of AC-1 were Tepidimicrobium, Haloplasma, norank-f-Limnochordaceae, Ruminiclostridium and Rhodothermus which provides major theoretical basis for further application of AC-1.
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Affiliation(s)
- Hongdou Liu
- Yanbian University, Yanji, China.,College of Land and Environment, Shenyang Agricultural University, Shenyang, China
| | - Liqiang Zhang
- Heilongjiang Provincial Key Laboratory of Environmental Microbiology and Recycling of Argo-Waste in Cold Region, College of Life Science and Technology, Heilongjiang Bayi Agricultural University, Daqing, China
| | - Yu Sun
- Yanbian University, Yanji, China
| | | | - Weidong Wang
- Heilongjiang Provincial Key Laboratory of Environmental Microbiology and Recycling of Argo-Waste in Cold Region, College of Life Science and Technology, Heilongjiang Bayi Agricultural University, Daqing, China
| | | | - Zongjun Cui
- China Agricultural University, Beijing, China
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Bioconversion of Lignocellulosic Biomass into Value Added Products under Anaerobic Conditions: Insight into Proteomic Studies. Int J Mol Sci 2021; 22:ijms222212249. [PMID: 34830131 PMCID: PMC8624197 DOI: 10.3390/ijms222212249] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2021] [Revised: 11/07/2021] [Accepted: 11/09/2021] [Indexed: 01/14/2023] Open
Abstract
Production of biofuels and other value-added products from lignocellulose breakdown requires the coordinated metabolic activity of varied microorganisms. The increasing global demand for biofuels encourages the development and optimization of production strategies. Optimization in turn requires a thorough understanding of the microbial mechanisms and metabolic pathways behind the formation of each product of interest. Hydrolysis of lignocellulosic biomass is a bottleneck in its industrial use and often affects yield efficiency. The accessibility of the biomass to the microorganisms is the key to the release of sugars that are then taken up as substrates and subsequently transformed into the desired products. While the effects of different metabolic intermediates in the overall production of biofuel and other relevant products have been studied, the role of proteins and their activity under anaerobic conditions has not been widely explored. Shifts in enzyme production may inform the state of the microorganisms involved; thus, acquiring insights into the protein production and enzyme activity could be an effective resource to optimize production strategies. The application of proteomic analysis is currently a promising strategy in this area. This review deals on the aspects of enzymes and proteomics of bioprocesses of biofuels production using lignocellulosic biomass as substrate.
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Li J, Tang X, Chen S, Zhao J, Shao T. Ensiling pretreatment with two novel microbial consortia enhances bioethanol production in sterile rice straw. BIORESOURCE TECHNOLOGY 2021; 339:125507. [PMID: 34303101 DOI: 10.1016/j.biortech.2021.125507] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Revised: 06/30/2021] [Accepted: 07/01/2021] [Indexed: 06/13/2023]
Abstract
The present study extracts and enriches cellulolytic microbial consortia from yak (Bos grunniens) and evaluates their effects on the fermentation profile and bioethanol yield in rice straw silage. Two microbial consortia (CF and PY) with high cellulolytic activity were isolated and observed to be prone to utilize natural carbon sources. Two consortia were introduced with and without combined lactic acid bacteria (CLAB) to rice straw for up to 60 days of ensiling, and their application notably decreased the levels of structural carbohydrates and pH values of rice straw silages. Treatments that combining microbial consortia and CLAB resulted in the highest levels of lactic acid, water soluble carbohydrates, mono- and disaccharides, and lignocellulose degradation, with PY + CLAB group yielding the highest bioethanol production. The microbial consortia identified herein exhibit great potential for degrading fibrous substrates, and their combination with CLAB provides a feasible way to efficiently use rice straw for bioethanol production.
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Affiliation(s)
- Junfeng Li
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Xiaoyue Tang
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Sifan Chen
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Jie Zhao
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | - Tao Shao
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing 210095, China.
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Sinha D, Banerjee S, Mandal S, Basu A, Banerjee A, Balachandran S, Chandra Mandal N, Chaudhury S. Enhanced biogas production from Lantana camara via bioaugmentation of cellulolytic bacteria. BIORESOURCE TECHNOLOGY 2021; 340:125652. [PMID: 34332446 DOI: 10.1016/j.biortech.2021.125652] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/17/2021] [Revised: 07/19/2021] [Accepted: 07/21/2021] [Indexed: 06/13/2023]
Abstract
A study was designed to isolate cellulolytic bacteria from termite-gut and soil, optimizing their cellulase production to enhance biogas generation, using Lantana camara as a substrate. Out of 57 bacteria screened, two isolates DSB1 and DSB12, showed significant cellulolytic activity. 16S rRNA based methods identified these isolates as Microbacterium sp. and Arthrobacter sp. respectively. Maximum cellulase activity of 1.26 ± 0.044 U/ml and 1.31 ± 0.052 U/ml for DSB1 and DSB12 was observed at pH 7 and 7.2 under 35⁰C and 37⁰C, respectively. The L. camara biomass substrate with cow dung as an inoculum, bioaugmented with DSB1 and DSB12 separately, was tested for biogas production, producing 950 l/kg and 980 l/kg VS biogas with 57% and 60% methane, respectively. DSB1 and DSB12 revealed as potent cellulase producers that can be harnessed in the anaerobic digester for biomass conversion practices for enhanced biogas production.
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Affiliation(s)
- Debasree Sinha
- Department of Environmental Studies, Siksha -Bhavana, Visva-Bharati, Santiniketan, West Bengal, 731235, India
| | - Sandipan Banerjee
- Mycology and Plant Pathology Laboratory, Department of Botany, Siksha-Bhavana, Visva-Bharati, Santiniketan, West Bengal, 731235, India
| | - Subhrangshu Mandal
- Department of Botany, Siksha-Bhavana, Visva-Bharati, Santiniketan, Birbhum, West Bengal, 731235, India
| | - Aman Basu
- Department of Environmental Studies, Siksha -Bhavana, Visva-Bharati, Santiniketan, West Bengal, 731235, India; Department of Biology, York University, Toronto, Ontario, Canada
| | - Aishiki Banerjee
- Department of Environmental Studies, Siksha -Bhavana, Visva-Bharati, Santiniketan, West Bengal, 731235, India
| | - Srinivasan Balachandran
- Department of Environmental Studies, Siksha -Bhavana, Visva-Bharati, Santiniketan, West Bengal, 731235, India
| | - Narayan Chandra Mandal
- Mycology and Plant Pathology Laboratory, Department of Botany, Siksha-Bhavana, Visva-Bharati, Santiniketan, West Bengal, 731235, India
| | - Shibani Chaudhury
- Department of Environmental Studies, Siksha -Bhavana, Visva-Bharati, Santiniketan, West Bengal, 731235, India.
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Li J, Ding H, Zhao J, Wang S, Dong Z, Shao T. Characterization and identification of a novel microbial consortium M2 and its effect on fermentation quality and enzymatic hydrolysis of sterile rice straw. J Appl Microbiol 2021; 132:1687-1699. [PMID: 34662476 DOI: 10.1111/jam.15328] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2021] [Revised: 10/04/2021] [Accepted: 10/07/2021] [Indexed: 11/30/2022]
Abstract
AIMS To isolate and enrich lignocellulolytic microbial consortia from yak (Bos grunniens) rumen and evaluate their effects on the fermentation characteristics and enzymatic hydrolysis in rice straw silage. METHODS AND RESULTS A novel microbial consortium M2 with high CMCase and xylanase activities was enriched and observed to be prone to use natural carbon sources. Its predominant genus was Enterococcus, and most carbohydrate-active enzyme (CAZyme) genes belonged to the glycosyl hydrolases class. The consortium M2 was introduced with or without combined lactic acid bacteria (XA) to rice straw silage for 60 days. Inoculating the consortium M2 notably decreased the structural carbohydrate contents and pH of rice straw silages. Treatment that combines consortium M2 and XA resulted in the highest levels of lactic acid and lignocellulose degradation. The consortium M2 alone or combined with XA significantly (p < 0.01) increased water-soluble carbohydrates (WSCs), mono- and disaccharides contents compared with the XA silage. Combined addition obviously improved the enzymatic conversion efficiency of rice straw silage with higher glucose and xylose yields (23.39 and 12.91 w/w% DM, respectively). CONCLUSIONS Ensiling pretreatment with the microbial consortium M2 in sterile rice straw improved fermentation characteristics. The combined application of consortium M2 with XA had synergistic effects on promoting the degradation of structural carbohydrates and enzymatic hydrolysis. SIGNIFICANCE AND IMPACT OF THE STUDY Rice straw is difficult to ensile because of its low WSC and high structural carbohydrate contents. The microbial consortium M2 identified herein exhibits great potential for degrading fibrous substrates, and their combination with XA provides a faster and more effective synergistic strategy for biorefinery of lignocellulosic biomass.
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Affiliation(s)
- Junfeng Li
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing, China
| | - Hao Ding
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing, China
| | - Jie Zhao
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing, China
| | - Siran Wang
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing, China
| | - Zhihao Dong
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing, China
| | - Tao Shao
- Institute of Ensiling and Processing of Grass, College of Agro-grassland Science, Nanjing Agricultural University, Nanjing, China
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18
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Biorefinery Gets Hot: Thermophilic Enzymes and Microorganisms for Second-Generation Bioethanol Production. Processes (Basel) 2021. [DOI: 10.3390/pr9091583] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022] Open
Abstract
To mitigate the current global energy and the environmental crisis, biofuels such as bioethanol have progressively gained attention from both scientific and industrial perspectives. However, at present, commercialized bioethanol is mainly derived from edible crops, thus raising serious concerns given its competition with feed production. For this reason, lignocellulosic biomasses (LCBs) have been recognized as important alternatives for bioethanol production. Because LCBs supply is sustainable, abundant, widespread, and cheap, LCBs-derived bioethanol currently represents one of the most viable solutions to meet the global demand for liquid fuel. However, the cost-effective conversion of LCBs into ethanol remains a challenge and its implementation has been hampered by several bottlenecks that must still be tackled. Among other factors related to the challenging and variable nature of LCBs, we highlight: (i) energy-demanding pretreatments, (ii) expensive hydrolytic enzyme blends, and (iii) the need for microorganisms that can ferment mixed sugars. In this regard, thermophiles represent valuable tools to overcome some of these limitations. Thus, the aim of this review is to provide an overview of the state-of-the-art technologies involved, such as the use of thermophilic enzymes and microorganisms in industrial-relevant conditions, and to propose possible means to implement thermophiles into second-generation ethanol biorefineries that are already in operation.
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Singh D, Chavan D, Pandey AK, Periyaswami L, Kumar S. Determination of landfill gas generation potential from lignocellulose biomass contents of municipal solid waste. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 785:147243. [PMID: 33930808 DOI: 10.1016/j.scitotenv.2021.147243] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2021] [Revised: 03/31/2021] [Accepted: 04/15/2021] [Indexed: 06/12/2023]
Abstract
The presence of heat, methane (CH4) and oxygen in landfill sub-surface causes initiation of spontaneous waste ignition posing severe environmental impacts. A municipal solid waste (MSW) reactor (trough) was designed to monitor landfill gases (LFGs) i.e., CH4 and CO2 and its potential from different waste categories (synthetic waste, fresh waste, 3-month, 6-month, 3-year and 5-year-old waste) collected from open MSW dumpsite. The quantity of cellulose (C), hemicellulose (H) and lignin (L) contents (C + H: L) present in organic waste fraction of each waste category was determined. Results showed that fresh waste which has higher ratio of C + H: L is responsible for maximum CH4 and CO2 generation i.e., 31,660 and 46,078 ml/g of volatile solid, respectively. The ratio of C + H: L observed in fresh waste, 3-month, 6-month, 3-year and 5-year-old waste was 2.62, 1.70, 1.32, 1.21 and 1, respectively. The study also showed that LFG generation is directly proportional to lignocellulose biomass contents present in MSW. Artificial neural network (ANN) modelling was used for the cross validation of CH4 yield (valuable product) which showed ±4% error between experimental and predicted data.
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Affiliation(s)
- Deval Singh
- CSIR-National Environmental Engineering Research Institute (CSIR-NEERI), Nehru Marg, Nagpur 440 020, India
| | - Digambar Chavan
- CSIR-National Environmental Engineering Research Institute (CSIR-NEERI), Nehru Marg, Nagpur 440 020, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, Uttar Pradesh, India
| | - Ashutosh Kumar Pandey
- CSIR-National Environmental Engineering Research Institute (CSIR-NEERI), Nehru Marg, Nagpur 440 020, India
| | - Lakshmikanthan Periyaswami
- CSIR-National Environmental Engineering Research Institute (CSIR-NEERI), Nehru Marg, Nagpur 440 020, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, Uttar Pradesh, India
| | - Sunil Kumar
- CSIR-National Environmental Engineering Research Institute (CSIR-NEERI), Nehru Marg, Nagpur 440 020, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201 002, Uttar Pradesh, India.
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20
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Pérez-Hernández V, Hernández-Guzmán M, Luna-Guido M, Navarro-Noya YE, Romero-Tepal EM, Dendooven L. Bacterial Communities in Alkaline Saline Soils Amended with Young Maize Plants or Its (Hemi)Cellulose Fraction. Microorganisms 2021; 9:1297. [PMID: 34203640 PMCID: PMC8232260 DOI: 10.3390/microorganisms9061297] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2021] [Revised: 05/11/2021] [Accepted: 05/12/2021] [Indexed: 11/28/2022] Open
Abstract
We studied three soils of the former lake Texcoco with different electrolytic conductivity (1.9 dS m-1, 17.3 dS m-1, and 33.4 dS m-1) and pH (9.3, 10.4, and 10.3) amended with young maize plants and their neutral detergent fibre (NDF) fraction and aerobically incubated in the laboratory for 14 days while the soil bacterial community structure was monitored by means of 454-pyrosequencing of their 16S rRNA marker gene. We identified specific bacterial groups that showed adaptability to soil salinity, i.e., Prauseria in soil amended with young maize plants and Marinobacter in soil amended with NDF. An increase in soil salinity (17.3 dS m-1, 33.4 dS m-1) showed more bacterial genera enriched than soil with low salinity (1.9 dS m-1). Functional prediction showed that members of Alfa-, Gamma-, and Deltaproteobacteria, which are known to adapt to extreme conditions, such as salinity and low nutrient soil content, were involved in the lignocellulose degradation, e.g., Marinimicrobium and Pseudomonas as cellulose degraders, and Halomonas and Methylobacterium as lignin degraders. This research showed that the taxonomic annotation and their functional prediction both highlighted keystone bacterial groups with the ability to degrade complex C-compounds, such as lignin and (hemi)cellulose, in the extreme saline-alkaline soil of the former Lake of Texcoco.
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Affiliation(s)
- Valentín Pérez-Hernández
- Laboratory of Soil Ecology, Department of Chemistry and Biochemistry, Instituto Tecnológico de Tuxtla-Gutiérrez, Tecnológico Nacional de México, Tuxtla Gutiérrez, Chiapas 29050, Mexico;
- Laboratory of Soil Ecology, Cinvestav, Mexico City 07360, Mexico; (M.H.-G.); (M.L.-G.); (E.M.R.-T.)
| | - Mario Hernández-Guzmán
- Laboratory of Soil Ecology, Cinvestav, Mexico City 07360, Mexico; (M.H.-G.); (M.L.-G.); (E.M.R.-T.)
| | - Marco Luna-Guido
- Laboratory of Soil Ecology, Cinvestav, Mexico City 07360, Mexico; (M.H.-G.); (M.L.-G.); (E.M.R.-T.)
| | - Yendi E. Navarro-Noya
- Centro de Investigación en Ciencias Biológicas, Universidad Autónoma de Tlaxcala, Tlaxcala 90070, Mexico;
| | - Elda M. Romero-Tepal
- Laboratory of Soil Ecology, Cinvestav, Mexico City 07360, Mexico; (M.H.-G.); (M.L.-G.); (E.M.R.-T.)
| | - Luc Dendooven
- Laboratory of Soil Ecology, Cinvestav, Mexico City 07360, Mexico; (M.H.-G.); (M.L.-G.); (E.M.R.-T.)
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21
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Chukwuma OB, Rafatullah M, Tajarudin HA, Ismail N. A Review on Bacterial Contribution to Lignocellulose Breakdown into Useful Bio-Products. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2021; 18:6001. [PMID: 34204975 PMCID: PMC8199887 DOI: 10.3390/ijerph18116001] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/14/2021] [Revised: 05/28/2021] [Accepted: 05/28/2021] [Indexed: 12/15/2022]
Abstract
Discovering novel bacterial strains might be the link to unlocking the value in lignocellulosic bio-refinery as we strive to find alternative and cleaner sources of energy. Bacteria display promise in lignocellulolytic breakdown because of their innate ability to adapt and grow under both optimum and extreme conditions. This versatility of bacterial strains is being harnessed, with qualities like adapting to various temperature, aero tolerance, and nutrient availability driving the use of bacteria in bio-refinery studies. Their flexible nature holds exciting promise in biotechnology, but despite recent pointers to a greener edge in the pretreatment of lignocellulose biomass and lignocellulose-driven bioconversion to value-added products, the cost of adoption and subsequent scaling up industrially still pose challenges to their adoption. However, recent studies have seen the use of co-culture, co-digestion, and bioengineering to overcome identified setbacks to using bacterial strains to breakdown lignocellulose into its major polymers and then to useful products ranging from ethanol, enzymes, biodiesel, bioflocculants, and many others. In this review, research on bacteria involved in lignocellulose breakdown is reviewed and summarized to provide background for further research. Future perspectives are explored as bacteria have a role to play in the adoption of greener energy alternatives using lignocellulosic biomass.
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Affiliation(s)
| | - Mohd Rafatullah
- Division of Environmental Technology, School of Industrial Technology, Universiti Sains Malaysia, Gelugor 11800, Penang, Malaysia; (O.B.C.); (H.A.T.); (N.I.)
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Wang J, Zhu D, Zhao S, Xu S, Yang R, Zhao W, Zhang X, Huang Z. Effect of liquid volume and microflora source on degradation rate and microbial community in corn stover degradation. AMB Express 2021; 11:80. [PMID: 34061258 PMCID: PMC8169732 DOI: 10.1186/s13568-021-01233-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2021] [Accepted: 05/15/2021] [Indexed: 11/10/2022] Open
Abstract
Degradation is the bottleneck in the utilization of crop straw. In this paper, we screened the microbial consortia degrading corn stover from straw degrading consortia MC1 (M), sheep feces (Y), and mixtures (Q) of M, Y, and cattle feces. The effects of microflora source and liquid volume (representing dissolved oxygen) on the microbial community and degradation rate of corn stover were investigated. The results showed that the degradation rate and cellulase activity of a 200 mL liquid volume (L2) were significantly higher than that of 100 mL (L1). Microflora source had a significant effect on bacterial and fungal diversity, composition and taxa. Q and Y had higher bacterial and fungal α-diversity than that of M. The degradation rate was significantly correlated with cellulase activity but not with microbial diversity. This indicated that liquid volume had a significant effect on degradation rate while microflora source had a significant effect on microbial community in corn stover degradation.
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Lekakarn H, Bunterngsook B, Laothanachareon T, Champreda V. Functional characterization of endoglucanase (CelB) isolated from lignocellulose-degrading microbial consortium for biomass saccharification. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2021. [DOI: 10.1016/j.bcab.2020.101888] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Bhati N, Shreya, Sharma AK. Cost‐effective cellulase production, improvement strategies, and future challenges. J FOOD PROCESS ENG 2020. [DOI: 10.1111/jfpe.13623] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Nikita Bhati
- Department of Bioscience and Biotechnology Banasthali Vidyapith Vanasthali India
| | - Shreya
- Department of Bioscience and Biotechnology Banasthali Vidyapith Vanasthali India
| | - Arun Kumar Sharma
- Department of Bioscience and Biotechnology Banasthali Vidyapith Vanasthali India
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25
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Park H, Patel A, Hunt KA, Henson MA, Carlson RP. Artificial consortium demonstrates emergent properties of enhanced cellulosic-sugar degradation and biofuel synthesis. NPJ Biofilms Microbiomes 2020; 6:59. [PMID: 33268782 PMCID: PMC7710750 DOI: 10.1038/s41522-020-00170-8] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2020] [Accepted: 10/23/2020] [Indexed: 01/03/2023] Open
Abstract
Planktonic cultures, of a rationally designed consortium, demonstrated emergent properties that exceeded the sums of monoculture properties, including a >200% increase in cellobiose catabolism, a >100% increase in glycerol catabolism, a >800% increase in ethanol production, and a >120% increase in biomass productivity. The consortium was designed to have a primary and secondary-resource specialist that used crossfeeding with a positive feedback mechanism, division of labor, and nutrient and energy transfer via necromass catabolism. The primary resource specialist was Clostridium phytofermentans (a.k.a. Lachnoclostridium phytofermentans), a cellulolytic, obligate anaerobe. The secondary-resource specialist was Escherichia coli, a versatile, facultative anaerobe, which can ferment glycerol and byproducts of cellobiose catabolism. The consortium also demonstrated emergent properties of enhanced biomass accumulation when grown as biofilms, which created high cell density communities with gradients of species along the vertical axis. Consortium biofilms were robust to oxic perturbations with E. coli consuming O2, creating an anoxic environment for C. phytofermentans. Anoxic/oxic cycling further enhanced biomass productivity of the biofilm consortium, increasing biomass accumulation ~250% over the sum of the monoculture biofilms. Consortium emergent properties were credited to several synergistic mechanisms. E. coli consumed inhibitory byproducts from cellobiose catabolism, driving higher C. phytofermentans growth and higher cellulolytic enzyme production, which in turn provided more substrate for E. coli. E. coli necromass enhanced C. phytofermentans growth while C. phytofermentans necromass aided E. coli growth via the release of peptides and amino acids, respectively. In aggregate, temporal cycling of necromass constituents increased flux of cellulose-derived resources through the consortium. The study establishes a consortia-based, bioprocessing strategy built on naturally occurring interactions for improved conversion of cellulose-derived sugars into bioproducts.
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Affiliation(s)
- Heejoon Park
- Department of Chemical and Biological Engineering, Montana State University, Bozeman, MT, USA.,Center for Biofilm Engineering, Montana State University, Bozeman, MT, USA.,Department of Engineering and Technology, University of North Alabama, Florence, AL, USA
| | - Ayushi Patel
- Department of Chemical Engineering and Institute for Applied Life Sciences, University of Massachusetts, Amherst, MA, USA
| | - Kristopher A Hunt
- Department of Chemical and Biological Engineering, Montana State University, Bozeman, MT, USA.,Center for Biofilm Engineering, Montana State University, Bozeman, MT, USA.,Department of Civil and Environmental Engineering, University of Washington, Seattle, WA, USA
| | - Michael A Henson
- Department of Chemical Engineering and Institute for Applied Life Sciences, University of Massachusetts, Amherst, MA, USA
| | - Ross P Carlson
- Department of Chemical and Biological Engineering, Montana State University, Bozeman, MT, USA. .,Center for Biofilm Engineering, Montana State University, Bozeman, MT, USA.
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26
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Lignocellulolytic Enzymes in Biotechnological and Industrial Processes: A Review. SUSTAINABILITY 2020. [DOI: 10.3390/su12187282] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Tons of anthropological activities contribute daily to the massive amount of lignocellulosic wastes produced annually. Unfortunately, their full potential usually is underutilized, and most of the biomass ends up in landfills. Lignocellulolytic enzymes are vital and central to developing an economical, environmentally friendly, and sustainable biological method for pre-treatment and degradation of lignocellulosic biomass which can lead to the release of essential end products such as enzymes, organic acids, chemicals, feed, and biofuel. Sustainable degradation of lignocellulosic biomass via hydrolysis is achievable by lignocellulolytic enzymes, which can be used in various applications, including but not limited to biofuel production, the textile industry, waste treatment, the food and drink industry, personal care industry, health and pharmaceutical industries. Nevertheless, for this to materialize, feasible steps to overcome the high cost of pre-treatment and lower operational costs such as handling, storage, and transportation of lignocellulose waste need to be deployed. Insight on lignocellulolytic enzymes and how they can be exploited industrially will help develop novel processes that will reduce cost and improve the adoption of biomass, which is more advantageous. This review focuses on lignocellulases, their use in the sustainable conversion of waste biomass to produce valued-end products, and challenges impeding their adoption.
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27
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Pason P, Tachaapaikoon C, Panichnumsin P, Ketbot P, Waeonukul R, Kosugi A, Ratanakhanokchai K. One-step biohydrogen production from cassava pulp using novel enrichment of anaerobic thermophilic bacteria community. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2020. [DOI: 10.1016/j.bcab.2020.101658] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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28
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Exploring the Potential of Two Bacterial Consortia to Degrade Cellulosic Biomass for Biotechnological Applications. Curr Microbiol 2020; 77:3114-3124. [PMID: 32719889 DOI: 10.1007/s00284-020-02136-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2020] [Accepted: 07/15/2020] [Indexed: 10/23/2022]
Abstract
This paper outlines two cellulolytic bacterial consortia named SCS and SCB, isolated from soil samples of sugarcane (Saccharum officinarum) crop field, and a sugarcane bagasse deposit in an ethanol mill. Both consortia were able to grow on different carbon sources, such as sugarcane bagasse, corn husk, peanut hulls, and carboxymethylcellulose, releasing up to 11.90 µmol/mL and 15.23 µmol/mL of glucose for SCS and SCB, respectively. In addition, SCS and SCB have several strains capable of producing cellulase, amylase, lipase, and protease. Whole genome sequencing of the SCS consortium revealed that Burkholderia was the most prevalent genus, encompassing approximately 80% of the consortia. In addition, metagenome analysis allowed the identification of genes encoding enzymes related to starch and cellulose degradation, as well as enzymes related to lipases and proteases, confirming our initial findings. The results showed that SCS and SCB had the capability to degrade cellulose, and that they were an efficient source of enzyme production, which would provide a new choice for use in different biotechnological applications.
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29
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Ali SS, Kornaros M, Manni A, Sun J, El-Shanshoury AERR, Kenawy ER, Khalil MA. Enhanced anaerobic digestion performance by two artificially constructed microbial consortia capable of woody biomass degradation and chlorophenols detoxification. JOURNAL OF HAZARDOUS MATERIALS 2020; 389:122076. [PMID: 32004834 DOI: 10.1016/j.jhazmat.2020.122076] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2019] [Revised: 01/10/2020] [Accepted: 01/10/2020] [Indexed: 06/10/2023]
Abstract
Catalpa sawdust (CSW) is a promising biomass-based biofuel. However, the complex lignocellulosic structure limits its efficient utilization in biorefinery applications. It is even more so when chlorophenols (CPs), highly toxic organic substances widely used as wood preservatives, are present. Hence, it is crucial to develop effective and eco-friendly approaches to attain deconstruction of lignocellulose and chlorophenols simultaneously as well as to improve methane (CH4) production efficiently. This study might be the first to explore the performance of the novel constructed microbial consortia CS-5 and BC-4 on woody biomass degradation and CPs detoxification simultaneously with CH4 production. After the degradation of CSW and CPs for 15 days by C5-5 or BC-4, significant reduction in lignocellulosic components and CPs mixture was realized with a total weight loss of 69.2 and 56.3 % and CPs degradation of 89 and 95 %, respectively. The toxicity of individual or mixed CPs after 15 days of degradation was reduced by approximately 90 %. The synergistic action of CS-5 and BC-4 enhanced biogas and CH4 yields over 76 and 64 % respectively, higher than control. Furthermore, CH4 production increased by 113.7 % at the peak phase of AD process. Methanosataceae represented 45.1 % of the methanogenic Archaea in digester G-III.
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Affiliation(s)
- Sameh S Ali
- Biofuels Institute, School of the Environment and Safety Engineering, Jiangsu University, Zhenjiang, 212013, China; Botany Department, Faculty of Science, Tanta University, Tanta, 31527, Egypt.
| | - Michael Kornaros
- Laboratory of Biochemical Engineering & Environmental Technology (LBEET), Department of Chemical Engineering, University of Patras, 1 Karatheodori Str., University Campus, 26504, Patras, Greece
| | - Alessandro Manni
- Department of Industrial Engineering, University of Rome Tor Vergata, Italy
| | - Jianzhong Sun
- Biofuels Institute, School of the Environment and Safety Engineering, Jiangsu University, Zhenjiang, 212013, China.
| | | | - El-Refaie Kenawy
- Polymer Research Group, Department of Chemistry, Faculty of Science, Tanta University, Tanta, 31527, Egypt
| | - Maha A Khalil
- Botany Department, Faculty of Science, Tanta University, Tanta, 31527, Egypt; Biology Department, Faculty of Science, Taif University, Saudi Arabia
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30
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Zheng G, Yin T, Lu Z, Boboua SYB, Li J, Zhou W. Degradation of rice straw at low temperature using a novel microbial consortium LTF-27 with efficient ability. BIORESOURCE TECHNOLOGY 2020; 304:123064. [PMID: 32115346 DOI: 10.1016/j.biortech.2020.123064] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2019] [Revised: 02/17/2020] [Accepted: 02/18/2020] [Indexed: 06/10/2023]
Abstract
In this study, a novel psychrotrophic lignocelluloses degrading microbial consortium LTF-27 was successfully obtained from cold perennial forest soil by successive enrichment culture under facultative anaerobic static conditions. The microbial consortium showed efficient degradation of rice straw, which cellulose, hemicelluloses and lignin lost 71.7%, 65.6% and 12.5% of its weigh, respectively, in 20 days at 15 °C. The predominant liquid products were acetic acid and butyric acid during degrading lignocellulose in anaerobic digestion (AD) process inoculated with the LTF-27. The consortium mainly composed of Parabacteroides, Alcaligenes, Lysinibacillus, Sphingobacterium, and Clostridium, along with some unclassified uncultured bacteria, indicating powerful synergistic interaction in AD process. A multi-species lignocellulolytic enzyme system working cooperatingly on lignocelluolse degradation was revealed by proteomics analysis of cellulose bound fraction of the crude extracellular enzyme, which provides key theoretical base for further exploration and application of LTF-27.
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Affiliation(s)
- Guoxiang Zheng
- College of Engineering, Northeast Agriculture University, Harbin 150030, China; Key Laboratory of Pig-breeding Facilities Engineering, Ministry of Agriculture, Harbin 150030, China; Heilongjiang Key Laboratory of Technology and Equipment for the Utilization of Agricultural Renewable Resources, Harbin 150030, China.
| | - Ting Yin
- College of Engineering, Northeast Agriculture University, Harbin 150030, China; Heilongjiang Key Laboratory of Technology and Equipment for the Utilization of Agricultural Renewable Resources, Harbin 150030, China
| | - Zhaoxin Lu
- College of Engineering, Northeast Agriculture University, Harbin 150030, China; Heilongjiang Key Laboratory of Technology and Equipment for the Utilization of Agricultural Renewable Resources, Harbin 150030, China
| | - Stopira Yannick Benz Boboua
- College of Engineering, Northeast Agriculture University, Harbin 150030, China; Heilongjiang Key Laboratory of Technology and Equipment for the Utilization of Agricultural Renewable Resources, Harbin 150030, China
| | - Jiachen Li
- College of Engineering, Northeast Agriculture University, Harbin 150030, China; Heilongjiang Key Laboratory of Technology and Equipment for the Utilization of Agricultural Renewable Resources, Harbin 150030, China
| | - Wenlong Zhou
- College of Engineering, Northeast Agriculture University, Harbin 150030, China; Key Laboratory of Pig-breeding Facilities Engineering, Ministry of Agriculture, Harbin 150030, China
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31
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Paulo LM, Castilla-Archilla J, Ramiro-Garcia J, Escamez-Picón JA, Hughes D, Mahony T, Murray M, Wilmes P, O'Flaherty V. Microbial Community Redundancy and Resilience Underpins High-Rate Anaerobic Treatment of Dairy-Processing Wastewater at Ambient Temperatures. Front Bioeng Biotechnol 2020; 8:192. [PMID: 32232038 PMCID: PMC7082317 DOI: 10.3389/fbioe.2020.00192] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2019] [Accepted: 02/27/2020] [Indexed: 11/25/2022] Open
Abstract
High-rate anaerobic digestion (AD) is a reliable, efficient process to treat wastewaters and is often operated at temperatures exceeding 30°C, involving energy consumption of biogas in temperate regions, where wastewaters are often discharged at variable temperatures generally below 20°C. High-rate ambient temperature AD, without temperature control, is an economically attractive alternative that has been proven to be feasible at laboratory-scale. In this study, an ambient temperature pilot scale anaerobic reactor (2 m3) was employed to treat real dairy wastewater in situ at a milk processing plant, at organic loading rates of 1.3 ± 0.6 to 10.6 ± 3.7 kg COD/m3/day and hydraulic retention times (HRT) ranging from 36 to 6 h. Consistent high levels of COD removal efficiencies, ranging from 50 to 70% for total COD removal and 70 to 84% for soluble COD removal, were achieved during the trial. Within the reactor biomass, stable active archaeal populations were observed, consisting mainly of Methanothrix (previously Methanosaeta) species, which represented up to 47% of the relative abundant active species in the reactor. The decrease in HRT, combined with increases in the loading rate had a clear effect on shaping the structure and composition of the bacterial fraction of the microbial community, however, without affecting reactor performance. On the other hand, perturbances in influent pH had a strong impact, especially when pH went higher than 8.5, inducing shifts in the microbial community composition and, in some cases, affecting negatively the performance of the reactor in terms of COD removal and biogas methane content. For example, the main pH shock led to a drop in the methane content to 15%, COD removals decreased to 0%, while the archaeal population decreased to ~11% both at DNA and cDNA levels. Functional redundancy in the microbial community underpinned stable reactor performance and rapid reactor recovery after perturbations.
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Affiliation(s)
- Lara M Paulo
- Microbiology, School of Natural Sciences and Ryan Institute, NUI Galway, Galway, Ireland.,Dairy Processing Technology Centre (DPTC), Limerick, Ireland
| | - Juan Castilla-Archilla
- Microbiology, School of Natural Sciences and Ryan Institute, NUI Galway, Galway, Ireland.,Dairy Processing Technology Centre (DPTC), Limerick, Ireland
| | - Javier Ramiro-Garcia
- Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg
| | - José Antonio Escamez-Picón
- Microbiology, School of Natural Sciences and Ryan Institute, NUI Galway, Galway, Ireland.,Dairy Processing Technology Centre (DPTC), Limerick, Ireland
| | - Dermot Hughes
- Microbiology, School of Natural Sciences and Ryan Institute, NUI Galway, Galway, Ireland.,NVP Energy Ltd., Galway Technology & Business Centre, Galway, Ireland
| | - Thérèse Mahony
- Microbiology, School of Natural Sciences and Ryan Institute, NUI Galway, Galway, Ireland.,Dairy Processing Technology Centre (DPTC), Limerick, Ireland
| | - Michael Murray
- NVP Energy Ltd., Galway Technology & Business Centre, Galway, Ireland
| | - Paul Wilmes
- Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg
| | - Vincent O'Flaherty
- Microbiology, School of Natural Sciences and Ryan Institute, NUI Galway, Galway, Ireland.,Dairy Processing Technology Centre (DPTC), Limerick, Ireland
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32
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Puentes-Téllez PE, Salles JF. Dynamics of Abundant and Rare Bacteria During Degradation of Lignocellulose from Sugarcane Biomass. MICROBIAL ECOLOGY 2020; 79:312-325. [PMID: 31286170 PMCID: PMC7033055 DOI: 10.1007/s00248-019-01403-w] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2018] [Accepted: 06/19/2019] [Indexed: 06/02/2023]
Abstract
Microorganisms play a crucial role in lignocellulosic degradation. Many enriched microbial communities have demonstrated to reach functional and structural stability with effective degrading capacities of industrial interest. These microbial communities are typically composed by only few dominant species and a high number of usually overlooked rare species. Here, we used two sources of lignocellulose (sugarcane bagasse and straw) in order to obtain lignocellulose-degrading bacteria through an enriched process, followed the selective trajectory of both abundant and rare bacterial communities by 16S rRNA gene amplification and analyzed the outcomes of selection in terms of capacities and specialization. We verified the importance of pre-selection by using two sources of microbial inoculum: soil samples from a sugarcane field with history of straw addition (St15) and control samples, from the same field, without amendments (St0). We found similitudes in terms of stabilization between the abundant and rare fractions. We also found positive correlations of both abundant and rare taxa (like Caulobacteraceae and Alcaligenaceae) and the degradation of lignocellulosic fractions. Differences in the inocula's initial diversity rapidly decreased during the enrichment resulting in comparable richness levels at the end of the process; however, the legacy of the St15 inoculum and its specialization positively influenced the degradation capacities of the community. Analysis of specialization of the final communities revealed increased straw degradation capacity in the communities enriched in bagasse, which could be potentially used as a strategy for improving lignocellulose waste degradation on the sugarcane fields. This work highlights the importance of including the rare fraction of bacterial communities during investigations involving the screening and assessment of effective degrading communities.
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Affiliation(s)
- Pilar Eliana Puentes-Téllez
- Microbial Community Ecology, GELIFES, Groningen Institute for Evolutionary Life Sciences, University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands
- Department of Biology, Institute of Environmental Biology, Ecology and Biodiversity Group, Padualaan 8, 3584 CH, Utrecht, The Netherlands
| | - Joana Falcao Salles
- Microbial Community Ecology, GELIFES, Groningen Institute for Evolutionary Life Sciences, University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands.
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33
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López-Mondéjar R, Algora C, Baldrian P. Lignocellulolytic systems of soil bacteria: A vast and diverse toolbox for biotechnological conversion processes. Biotechnol Adv 2019; 37:107374. [DOI: 10.1016/j.biotechadv.2019.03.013] [Citation(s) in RCA: 47] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2018] [Revised: 03/06/2019] [Accepted: 03/21/2019] [Indexed: 12/12/2022]
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34
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Champreda V, Mhuantong W, Lekakarn H, Bunterngsook B, Kanokratana P, Zhao XQ, Zhang F, Inoue H, Fujii T, Eurwilaichitr L. Designing cellulolytic enzyme systems for biorefinery: From nature to application. J Biosci Bioeng 2019; 128:637-654. [PMID: 31204199 DOI: 10.1016/j.jbiosc.2019.05.007] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2019] [Revised: 05/06/2019] [Accepted: 05/11/2019] [Indexed: 12/14/2022]
Abstract
Cellulolytic enzymes play a key role on conversion of lignocellulosic plant biomass to biofuels and biochemicals in sugar platform biorefineries. In this review, we survey composite carbohydrate-active enzymes (CAZymes) among groups of cellulolytic fungi and bacteria that exist under aerobic and anaerobic conditions. Recent advances in designing effective cellulase mixtures are described, starting from the most complex microbial consortium-based enzyme preparations, to single-origin enzymes derived from intensively studied cellulase producers such as Trichoderma reesei, Talaromyces cellulolyticus, and Penicellium funiculosum, and the simplest minimal enzyme systems comprising selected sets of mono-component enzymes tailor-made for specific lignocellulosic substrates. We provide a comprehensive update on studies in developing high-performance cellulases for biorefineries.
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Affiliation(s)
- Verawat Champreda
- National Center for Genetic Engineering and Biotechnology, 113 Thailand Science Park, Phahonyothin Road, Khlong Luang, Pathumthani 12120, Thailand.
| | - Wuttichai Mhuantong
- National Center for Genetic Engineering and Biotechnology, 113 Thailand Science Park, Phahonyothin Road, Khlong Luang, Pathumthani 12120, Thailand
| | - Hataikarn Lekakarn
- Department of Biotechnology, Faculty of Science and Technology, Thammasat University, Rangsit Campus, Phahonyothin Road, Khlong Luang, Pathumthani 12120, Thailand
| | - Benjarat Bunterngsook
- National Center for Genetic Engineering and Biotechnology, 113 Thailand Science Park, Phahonyothin Road, Khlong Luang, Pathumthani 12120, Thailand
| | - Pattanop Kanokratana
- National Center for Genetic Engineering and Biotechnology, 113 Thailand Science Park, Phahonyothin Road, Khlong Luang, Pathumthani 12120, Thailand
| | - Xin-Qing Zhao
- State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Fei Zhang
- State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Hiroyuki Inoue
- Research Institute for Sustainable Chemistry, National Institute of Advanced Industrial Science and Technology, 3-11-32 Kagamiyama, Hiroshima 739-0046, Japan
| | - Tatsuya Fujii
- Research Institute for Sustainable Chemistry, National Institute of Advanced Industrial Science and Technology, 3-11-32 Kagamiyama, Hiroshima 739-0046, Japan
| | - Lily Eurwilaichitr
- National Center for Genetic Engineering and Biotechnology, 113 Thailand Science Park, Phahonyothin Road, Khlong Luang, Pathumthani 12120, Thailand
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35
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Degradation profile of nixtamalized maize pericarp by the action of the microbial consortium PM-06. AMB Express 2019; 9:85. [PMID: 31197616 PMCID: PMC6565776 DOI: 10.1186/s13568-019-0812-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2019] [Accepted: 06/08/2019] [Indexed: 11/25/2022] Open
Abstract
The nixtamalized maize pericarp (NMP) is a plentiful by-product of the tortilla industry and an important source of fermentable sugars. The aim of this study was to describe the degradation profile of NMP by the action of a consortium (PM-06) obtained from the native microbial community of this residue. The degradation was analyzed in terms of the changes in the community dynamics, production of enzymes (endo-xylanase and endo-cellulase), physicochemical parameters, and substrate chemical and microstructural characteristics, to understand the mechanisms behind the process. The consortium PM-06 degraded 86.8 ± 3.3% of NMP after 192 h of growth. Scanning electron microscopy images, and the composition and weight of the residual solids, showed that degradation was sequential starting with the consumption of hemicellulose. Xylanase was the highest enzyme activity produced, with a maximum value of 12.45 ± 0.03 U mL−1. There were fluctuations in the pH during the NMP degradation, starting with the acidification of the culture media and finishing with a pH close to 8.5. The most abundant species in the consortium, at the moment of maximum degradation activity, were Aneurinibacillus migulanus, Paenibacillus macerans, Bacillus coagulans, Microbacterium sp. LCT-H2, and Bacillus thuringiensis. The diversity of PM-06 provided metabolic abilities that in combination helped to produce an efficient process. The consortium PM-06 generated a set of different tools that worked coordinated to increase the substrate availability through the solubilization of components and elimination of structural diffusion barriers. This is the first report about the degradation of NMP using a microbial consortium.
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36
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Carrillo-Barragan P, Bowler B, Dolfing J, Sallis P, Gray ND. Enrichment and Characterisation of a Mixed-Source Ethanologenic Community Degrading the Organic Fraction of Municipal Solid Waste Under Minimal Environmental Control. Front Microbiol 2019; 10:722. [PMID: 31024500 PMCID: PMC6465759 DOI: 10.3389/fmicb.2019.00722] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2019] [Accepted: 03/21/2019] [Indexed: 01/08/2023] Open
Abstract
The utilisation of the organic fraction of municipal solid waste as feedstock for bioethanol production could reduce the need for disposal of the ever-increasing amounts of municipal solid waste, especially in developing countries, and fits with the integrated goals of climate change mitigation and transport energy security. Mixed culture fermentation represents a suitable approach to handle the complexity and variability of such waste, avoiding expensive and vulnerable closed-control operational conditions. It is widely accepted that the control of pH in these systems can direct the fermentation process toward a desired fermentation product, however, little empirical evidence has been provided in respect of lignocellulosic waste substrates and different environmental inocula sources. We evaluated ethanol production from the organic fraction of municipal solid waste using five different inocula sources where lignocellulose degradation putatively occurs, namely, compost, woodland soil, rumen, cow faeces and anaerobic granular sludge, when incubated in batch microcosms at either initially neutral or acidic pH and under initially aerobic or anaerobic conditions. Although ethanol was produced by all the inocula tested, their performance was different in response to the imposed experimental conditions. Rumen and anaerobic granular sludge produced significantly the highest ethanol concentrations (∼30 mM) under initially neutral and acidic pH, respectively. A mixed-source community formed by mixing rumen and sludge (R + S) was then tested over a range of initial pH. In contrast to the differences observed for the individual inocula, the maximal ethanol production of the mixed community was not significantly different at initial pH of 5.5 and 7. Consistent with this broader functionality, the microbial community analyses confirmed the R + S community enriched comprised bacterial taxa representative of both original inocula. It was demonstrated that the interaction of initial pH and inocula source dictated ethanologenic activity from the organic fraction of municipal solid waste. Furthermore, the ethanologenic mixed-source community enriched, was comprised of taxa belonging to the two original inocula sources (rumen and sludge) and had a broader functionality. This information is relevant when diverse inocula sources are combined for mix culture fermentation studies as it experimentally demonstrates the benefits of diversity and function assembled from different inocula.
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Affiliation(s)
| | - Bernard Bowler
- School of Natural and Environmental Sciences, Newcastle University, Newcastle upon Tyne, United Kingdom
| | - Jan Dolfing
- School of Engineering, Newcastle University, Newcastle upon Tyne, United Kingdom
| | - Paul Sallis
- School of Engineering, Newcastle University, Newcastle upon Tyne, United Kingdom
| | - Neil Duncan Gray
- School of Natural and Environmental Sciences, Newcastle University, Newcastle upon Tyne, United Kingdom
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37
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Lu J, Yang Z, Xu W, Shi X, Guo R. Enrichment of thermophilic and mesophilic microbial consortia for efficient degradation of corn stalk. J Environ Sci (China) 2019; 78:118-126. [PMID: 30665630 DOI: 10.1016/j.jes.2018.07.010] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2017] [Revised: 07/23/2018] [Accepted: 07/25/2018] [Indexed: 06/09/2023]
Abstract
Six different environmental samples were applied to enrich microbial consortia for efficient degradation of corn stalk, under the thermophilic and mesophilic conditions. The consortium obtained from anaerobic digested sludge under thermophilic condition (TC-Y) had the highest lignocellulose-degrading activity. The CO2 yield was 246.73 mL/g VS in 23 days, meanwhile, the maximum CO2 production rate was 15.48 mL/(CO2·d), which was 28.75% and 52.27% higher than that under mesophilic condition, respectively. The peak value of cellulase activity reached 0.105 U/mL, which was at least 34.61% higher than the other groups. In addition, 49.5% of corn stalk was degraded in 20 days, moreover, the degradation ratio of cellulose, hemicellulose and lignin can reach 52.76%, 62.45% and 42.23%, respectively. Microbial consortium structure analysis indicated that the TC-Y contained the phylum of Gemmatimonadetes, Acidobacteria, Chloroflexi, Planctomycetes, Firmicutes, and Proteobacteria. Furthermore, the Pseudoxanthomonas belonging to GammaProteobacteria might be the key bacterial group for the lignocellulose degradation. These results indicated the capability of degrading un-pretreated corn stalk and the potential for further investigation and application of TC-Y.
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Affiliation(s)
- Jun Lu
- Shandong Industrial Engineering Laboratory of Biogas Production & Utilization, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China. E-mail: (Jun Lu), (Zhiman Yang); University of Chinese Academy of Sciences, Beijing 100049, China
| | - Zhiman Yang
- Shandong Industrial Engineering Laboratory of Biogas Production & Utilization, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China. E-mail: (Jun Lu), (Zhiman Yang)
| | - Wanying Xu
- Shandong Industrial Engineering Laboratory of Biogas Production & Utilization, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China. E-mail: (Jun Lu), (Zhiman Yang)
| | - Xiaoshuang Shi
- Shandong Industrial Engineering Laboratory of Biogas Production & Utilization, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China. E-mail: (Jun Lu), (Zhiman Yang)
| | - Rongbo Guo
- Shandong Industrial Engineering Laboratory of Biogas Production & Utilization, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China. E-mail: (Jun Lu), (Zhiman Yang).
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38
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Bohra V, Dafale NA, Hathi Z, Purohit HJ. Genomic annotation and validation of bacterial consortium NDMC-1 for enhanced degradation of sugarcane bagasse. ANN MICROBIOL 2019. [DOI: 10.1007/s13213-019-01462-x] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023] Open
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39
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Effects of chemical treatments on the bioethanol yield and composition of Isoberlinia doka waste. SN APPLIED SCIENCES 2019. [DOI: 10.1007/s42452-019-0223-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
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40
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Suleiman M, Klippel B, Busch P, Schäfers C, Moccand C, Bel-Rhlid R, Palzer S, Antranikian G. Enrichment of anaerobic heterotrophic thermophiles from four Azorean hot springs revealed different community composition and genera abundances using recalcitrant substrates. Extremophiles 2019; 23:277-281. [PMID: 30741334 DOI: 10.1007/s00792-019-01079-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2018] [Accepted: 02/03/2019] [Indexed: 11/26/2022]
Abstract
DGGE analysis combined with a metagenomic approach was used to get insights into heterotrophic anoxic enrichment cultures of four hot springs of Vale das Furnas, Portugal, using the recalcitrant substrate spent coffee ground (SCG). Parallel enrichment cultures were performed using the major components of spent coffee ground, namely arabinogalactan, galactomannan, cellulose, and proteins. DGGE revealed that heterotrophic thermophilic bacteria are highly abundant in the hydrothermal springs and significant differences in community composition depending on the substrate were observed. DNA, isolated from enrichment cultures of different locations that were grown on the same substrate were pooled, and the respective metagenomes were analyzed. Results indicated that cultures grown on recalcitrant substrate SCG consists of a totally different thermophilic community, dominated by Dictyoglomus. Enrichments with galactomannan and arabinogalactan were dominated by Thermodesulfovibrio, while cultures with casein and cellulose were dominated by Thermus. This study indicates the high potential of thermophilic bacteria degrading recalcitrant substrate such as SCG and furthermore how the accessibility to complex polymers shapes the bacterial community.
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Affiliation(s)
- Marcel Suleiman
- Institute of Technical Microbiology, Hamburg University of Technology, Hamburg, Germany
| | - Barbara Klippel
- Institute of Technical Microbiology, Hamburg University of Technology, Hamburg, Germany
| | - Philip Busch
- Institute of Technical Microbiology, Hamburg University of Technology, Hamburg, Germany
| | - Christian Schäfers
- Institute of Technical Microbiology, Hamburg University of Technology, Hamburg, Germany
| | | | | | | | - Garabed Antranikian
- Institute of Technical Microbiology, Hamburg University of Technology, Hamburg, Germany.
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Singh R, Bennett JP, Gupta M, Sharma M, Eqbal D, Alessi AM, Dowle AA, McQueen-Mason SJ, Bruce NC, Yazdani SS. Mining the biomass deconstructing capabilities of rice yellow stem borer symbionts. BIOTECHNOLOGY FOR BIOFUELS 2019; 12:265. [PMID: 31719844 PMCID: PMC6839054 DOI: 10.1186/s13068-019-1603-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/03/2019] [Accepted: 10/25/2019] [Indexed: 05/09/2023]
Abstract
BACKGROUND Efficient deconstruction of lignocellulosic biomass into simple sugars in an economically viable manner is a prerequisite for its global acceptance as a feedstock in bioethanol production. This is achieved in nature by suites of enzymes with the capability of efficiently depolymerizing all the components of lignocellulose. Here, we provide detailed insight into the repertoire of enzymes produced by microorganisms enriched from the gut of the crop pathogen rice yellow stem borer (Scirpophaga incertulas). RESULTS A microbial community was enriched from the gut of the rice yellow stem borer for enhanced rice straw degradation by sub-culturing every 10 days, for 1 year, in minimal medium with rice straw as the main carbon source. The enriched culture demonstrated high cellulolytic and xylanolytic activity in the culture supernatant. Metatranscriptomic and metaexoproteomic analysis revealed a large array of enzymes potentially involved in rice straw deconstruction. The consortium was found to encode genes ascribed to all five classes of carbohydrate-active enzymes (GHs, GTs, CEs, PLs, and AAs), including carbohydrate-binding modules (CBMs), categorized in the carbohydrate-active enzymes (CAZy) database. The GHs were the most abundant class of CAZymes. Predicted enzymes from these CAZy classes have the potential to digest each cell-wall components of rice straw, i.e., cellulose, hemicellulose, pectin, callose, and lignin. Several identified CAZy proteins appeared novel, having an unknown or hypothetical catalytic counterpart with a known class of CBM. To validate the findings, one of the identified enzymes that belong to the GH10 family was functionally characterized. The enzyme expressed in E. coli efficiently hydrolyzed beechwood xylan, and pretreated and untreated rice straw. CONCLUSIONS This is the first report describing the enrichment of lignocellulose degrading bacteria from the gut of the rice yellow stem borer to deconstruct rice straw, identifying a plethora of enzymes secreted by the microbial community when growing on rice straw as a carbon source. These enzymes could be important candidates for biorefineries to overcome the current bottlenecks in biomass processing.
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Affiliation(s)
- Rahul Singh
- Microbial Engineering Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
- DBT-ICGEB Centre for Advanced Bioenergy Research, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
| | - Joseph P. Bennett
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, UK
| | - Mayank Gupta
- Microbial Engineering Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
- DBT-ICGEB Centre for Advanced Bioenergy Research, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
| | - Medha Sharma
- Microbial Engineering Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
- DBT-ICGEB Centre for Advanced Bioenergy Research, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
| | - Danish Eqbal
- Microbial Engineering Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
| | - Anna M. Alessi
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, UK
| | - Adam A. Dowle
- Department of Biology, Bioscience Technology Facility, University of York, York, UK
| | - Simon J. McQueen-Mason
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, UK
| | - Neil C. Bruce
- Department of Biology, Centre for Novel Agricultural Products, University of York, York, UK
| | - Syed Shams Yazdani
- Microbial Engineering Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
- DBT-ICGEB Centre for Advanced Bioenergy Research, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
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Shikata A, Sermsathanaswadi J, Thianheng P, Baramee S, Tachaapaikoon C, Waeonukul R, Pason P, Ratanakhanokchai K, Kosugi A. Characterization of an Anaerobic, Thermophilic, Alkaliphilic, High Lignocellulosic Biomass-Degrading Bacterial Community, ISHI-3, Isolated from Biocompost. Enzyme Microb Technol 2018; 118:66-75. [DOI: 10.1016/j.enzmictec.2018.07.001] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2018] [Revised: 06/25/2018] [Accepted: 07/02/2018] [Indexed: 11/29/2022]
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Kaushal G, Kumar J, Sangwan RS, Singh SP. Metagenomic analysis of geothermal water reservoir sites exploring carbohydrate-related thermozymes. Int J Biol Macromol 2018; 119:882-895. [DOI: 10.1016/j.ijbiomac.2018.07.196] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2018] [Revised: 07/17/2018] [Accepted: 07/31/2018] [Indexed: 10/28/2022]
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Lazuka A, Auer L, O’Donohue M, Hernandez-Raquet G. Anaerobic lignocellulolytic microbial consortium derived from termite gut: enrichment, lignocellulose degradation and community dynamics. BIOTECHNOLOGY FOR BIOFUELS 2018; 11:284. [PMID: 30356893 PMCID: PMC6191919 DOI: 10.1186/s13068-018-1282-x] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2018] [Accepted: 10/06/2018] [Indexed: 05/25/2023]
Abstract
BACKGROUND Lignocellulose is the most abundant renewable carbon resource that can be used for biofuels and commodity chemicals production. The ability of complex microbial communities present in natural environments that are specialized in biomass deconstruction can be exploited to develop lignocellulose bioconversion processes. Termites are among the most abundant insects on earth and play an important role in lignocellulose decomposition. Although their digestive microbiome is recognized as a potential reservoir of microorganisms producing lignocellulolytic enzymes, the potential to enrich and maintain the lignocellulolytic activity of microbial consortia derived from termite gut useful for lignocellulose biorefinery has not been assessed. Here, we assessed the possibility of enriching a microbial consortium from termite gut and maintaining its lignocellulose degradation ability in controlled anaerobic bioreactors. RESULTS We enriched a termite gut-derived consortium able to transform lignocellulose into carboxylates under anaerobic conditions. To assess the impact of substrate natural microbiome on the enrichment and the maintenance of termite gut microbiome, the enrichment process was performed using both sterilized and non-sterilized straw. The enrichment process was carried out in bioreactors operating under industrially relevant aseptic conditions. Two termite gut-derived microbial consortia were obtained from Nasutitermes ephratae by sequential batch culture on raw wheat straw as the sole carbon source. Analysis of substrate loss, carboxylate production and microbial diversity showed that regardless of the substrate sterility, the diversity of communities selected by the enrichment process strongly changed compared to that observed in the termite gut. Nevertheless, the community obtained on sterile straw displayed higher lignocellulose degradation capacity; it showed a high xylanase activity and an initial preference for hemicellulose. CONCLUSIONS This study demonstrates that it is possible to enrich and maintain a microbial consortium derived from termite gut microbiome in controlled anaerobic bioreactors, producing useful carboxylates from raw biomass. Our results suggest that the microbial community is shaped both by the substrate and the conditions that prevail during enrichment. However, when aseptic conditions are applied, it is also affected by the biotic pressure exerted by microorganisms naturally present in the substrate and in the surrounding environment. Besides the efficient lignocellulolytic consortium enriched in this study, our results revealed high levels of xylanase activity that can now be further explored for enzyme identification and overexpression for biorefinery purposes.
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Affiliation(s)
- Adèle Lazuka
- Laboratoire d’Ingénierie des Systèmes Biologiques et des Procédés - LISBP, UMR5504, UMR792, CNRS, INRA, INSA, Université de Toulouse, 135 Avenue de Rangueil, 31077 Toulouse Cedex 04, France
| | - Lucas Auer
- Laboratoire d’Ingénierie des Systèmes Biologiques et des Procédés - LISBP, UMR5504, UMR792, CNRS, INRA, INSA, Université de Toulouse, 135 Avenue de Rangueil, 31077 Toulouse Cedex 04, France
| | - Michael O’Donohue
- Laboratoire d’Ingénierie des Systèmes Biologiques et des Procédés - LISBP, UMR5504, UMR792, CNRS, INRA, INSA, Université de Toulouse, 135 Avenue de Rangueil, 31077 Toulouse Cedex 04, France
| | - Guillermina Hernandez-Raquet
- Laboratoire d’Ingénierie des Systèmes Biologiques et des Procédés - LISBP, UMR5504, UMR792, CNRS, INRA, INSA, Université de Toulouse, 135 Avenue de Rangueil, 31077 Toulouse Cedex 04, France
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Koyama M, Nagao N, Syukri F, Rahim AA, Kamarudin MS, Toda T, Mitsuhashi T, Nakasaki K. Effect of temperature on thermophilic composting of aquaculture sludge: NH 3 recovery, nitrogen mass balance, and microbial community dynamics. BIORESOURCE TECHNOLOGY 2018; 265:207-213. [PMID: 29902653 DOI: 10.1016/j.biortech.2018.05.109] [Citation(s) in RCA: 38] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2018] [Revised: 05/27/2018] [Accepted: 05/30/2018] [Indexed: 06/08/2023]
Abstract
Development of thermophilic composting for maximizing NH3 gas recovery would enable the production of a nitrogen source which is free from pathogen/heavy metal, for the cultivation of high-value microalgae. The present study examined the effect of NH3 recovery, nitrogen mass balance, and microbial community dynamics on thermophilic composting of shrimp aquaculture sludge. The emission of NH3 gas at 60 and 70 °C was 14.7% and 15.6%, respectively, which was higher than that at 50 °C (9.0%). The nitrogen mass balance analysis revealed that higher temperatures enhanced the solubilization of non-dissolved nitrogen and liberation of NH3 gas from the produced NH4+-N. High-throughput microbial community analysis revealed the shift of the dominant bacterial group from Bacillus to Geobacillus with the rise of composting temperature. In conclusion, thermophilic composting of shrimp aquaculture sludge at 60-70 °C was the most favorable condition for enhancing NH3 gas recovery.
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Affiliation(s)
- Mitsuhiko Koyama
- School of Environment and Society, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8550, Japan.
| | - Norio Nagao
- Faculty of Agriculture, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor Darul Ehsan, Malaysia
| | - Fadhil Syukri
- Faculty of Agriculture, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor Darul Ehsan, Malaysia
| | - Abdullah Abd Rahim
- Faculty of Agriculture, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor Darul Ehsan, Malaysia
| | - Mohd Salleh Kamarudin
- Faculty of Agriculture, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor Darul Ehsan, Malaysia
| | - Tatsuki Toda
- Faculty of Science and Engineering, Soka University, 1-236 Tangi-machi, Hachioji, Tokyo 192-8577, Japan
| | - Takuya Mitsuhashi
- School of Environment and Society, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8550, Japan
| | - Kiyohiko Nakasaki
- School of Environment and Society, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8550, Japan
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Rabelo CABS, Soares LA, Sakamoto IK, Silva EL, Varesche MBA. Optimization of hydrogen and organic acids productions with autochthonous and allochthonous bacteria from sugarcane bagasse in batch reactors. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2018; 223:952-963. [PMID: 30007891 DOI: 10.1016/j.jenvman.2018.07.015] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2017] [Revised: 07/03/2018] [Accepted: 07/05/2018] [Indexed: 06/08/2023]
Abstract
The individual and mutual effects of substrate concentration (from 0.8 to 9.2 g/L) and pH (from 4.6 to 7.4) on hydrogen and volatile fatty acids production from sugarcane bagasse (SCB) were investigated in batch reactors, using a response surface methodology (RSM) and central composite design (CCD). The maximum of 23.10 mmoL H2/L was obtained under optimized conditions of 7.0 g SCB/L and pH 7.2, at 37 °C through the acetic acid pathway (1.57 g/L). Butyric and succinic acids were the major volatile fatty acids (VFA) produced in the fermentation process (from 0.66 to 1.88 g/L and from 1.06 to 1.65 g/L, respectively). According to the results, the RSM and CCD were useful tools to achieve high hydrogen production rates using Clostridium, Bacillus and Enterobacter, identified by Illumina sequencing (16S RNAr) in the fermentative consortium, and Clostridium and Paenibacillus, autochthonous bacteria from SCB. Significant changes were observed in the microbial community according to the changes in the independent variables, since the genera in the central point condition (5.0 g SCB/L and pH 6.0) were Lactobacillus, Escherichia and Clostridium, and Bacteroides and Enterobacter, which were identified in the optimized condition (7.0 g SCB/L and pH 7.2).
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Affiliation(s)
| | - Laís Américo Soares
- University of São Paulo, João Dagnone Avenue, 1100, CEP 13563-120, São Carlos, SP, Brazil.
| | - Isabel Kimiko Sakamoto
- University of São Paulo, João Dagnone Avenue, 1100, CEP 13563-120, São Carlos, SP, Brazil.
| | - Edson Luiz Silva
- Federal University of São Carlos, Rod Washington Luis, Km 235, 13565-905, São Carlos, SP, Brazil.
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Kong X, Du J, Ye X, Xi Y, Jin H, Zhang M, Guo D. Enhanced methane production from wheat straw with the assistance of lignocellulolytic microbial consortium TC-5. BIORESOURCE TECHNOLOGY 2018; 263:33-39. [PMID: 29729539 DOI: 10.1016/j.biortech.2018.04.079] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2018] [Revised: 04/16/2018] [Accepted: 04/20/2018] [Indexed: 06/08/2023]
Abstract
The major obstacle of methane production from lignocellulose lies in the inefficient deconstruction of biomass. In this study, an anaerobic microbial consortium TC-5 was enriched with high lignocellulose-degradation capacity to enhance methane production from wheat straw. High degradation ratio of 45.7% of un-pretreated wheat straw was achieved due to a multi-species lignocellulolytic enzyme presented in the crude culture supernatant. The specific activity of xylanase, xylan esterase and β-xylosidase reached the highest level of 4.23, 0.15 and 0.48 U/mg, while cellobiohydrolase, endoglucanase and β-glucosidase showed the highest specific activity of 0.36, 0.22 and 0.41 U/mg during 9 days' degradation. Inoculation of TC-5 in digestion sludge during anaerobic digestion of wheat straw resulted in remarkable enhancement of 22.2% and 36.6% in methane yield under mesophilic and thermophilic conditions, respectively. This work demonstrates the potential of TC-5 for enhancing the production of biogas and other chemicals through biomass based biorefinery.
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Affiliation(s)
- Xiangping Kong
- East China Scientific Observing and Experimental Station of Development and Utilization of Rural Renewable Energy, Ministry of Agriculture, Biomass Conversion Laboratory, Circular Agriculture Research Center, Jiangsu Academy of Agricultural Science, Nanjing 210014, People's Republic of China
| | - Jing Du
- East China Scientific Observing and Experimental Station of Development and Utilization of Rural Renewable Energy, Ministry of Agriculture, Biomass Conversion Laboratory, Circular Agriculture Research Center, Jiangsu Academy of Agricultural Science, Nanjing 210014, People's Republic of China
| | - Xiaomei Ye
- East China Scientific Observing and Experimental Station of Development and Utilization of Rural Renewable Energy, Ministry of Agriculture, Biomass Conversion Laboratory, Circular Agriculture Research Center, Jiangsu Academy of Agricultural Science, Nanjing 210014, People's Republic of China.
| | - Yonglan Xi
- East China Scientific Observing and Experimental Station of Development and Utilization of Rural Renewable Energy, Ministry of Agriculture, Biomass Conversion Laboratory, Circular Agriculture Research Center, Jiangsu Academy of Agricultural Science, Nanjing 210014, People's Republic of China
| | - Hongmei Jin
- East China Scientific Observing and Experimental Station of Development and Utilization of Rural Renewable Energy, Ministry of Agriculture, Biomass Conversion Laboratory, Circular Agriculture Research Center, Jiangsu Academy of Agricultural Science, Nanjing 210014, People's Republic of China
| | - Min Zhang
- East China Scientific Observing and Experimental Station of Development and Utilization of Rural Renewable Energy, Ministry of Agriculture, Biomass Conversion Laboratory, Circular Agriculture Research Center, Jiangsu Academy of Agricultural Science, Nanjing 210014, People's Republic of China
| | - Dong Guo
- College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Puzhu South Road 30#, Nanjing 211816, People's Republic of China
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Lepcha K, Ghosh S. Glycoside hydrolases from a thermophilic microbial consortium and their implication in the saccharification of agroresidues. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2018. [DOI: 10.1016/j.bcab.2018.05.021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
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49
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In vitro evaluation of lignocellulolytic activity of thermophilic bacteria isolated from different composts and soils of Iran. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2018. [DOI: 10.1016/j.bcab.2018.04.010] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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50
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Wongwilaiwalin S, Mhuantong W, Champreda V, Tangphatsornruang S, Panichnumsin P, Ratanakhanokchai K, Tachaapaikoon C. Structural and metabolic adaptation of cellulolytic microcosm in co-digested Napier grass-swine manure and its application in enhancing thermophilic biogas production. RSC Adv 2018; 8:29806-29815. [PMID: 35547297 PMCID: PMC9085282 DOI: 10.1039/c8ra05616a] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2018] [Accepted: 08/09/2018] [Indexed: 11/21/2022] Open
Abstract
Biogas production from cellulosic wastes has received increasing attention. However, its efficiency is limited by the recalcitrant nature of plant cell wall materials. In this study, an active and structurally stable lignocellulolytic microcosm (PLMC) was isolated from seed culture in sugarcane bagasse compost by successive enrichment on Napier grass supplemented with swine manure, which is a mixture of highly fibrous co-digested waste under septic conditions. Tagged 16S rRNA gene sequencing on an Ion PGM platform revealed the adaptive merging of microorganisms in the co-digested substrates resulting in a stable symbiotic consortium comprising anaerobic cellulolytic clostridia stably co-existing with facultative (hemi)cellulolytic bacteria in the background of native microflora in the substrates. Ethanoligenens, Tepidimicrobium, Clostridium, Coprococcus, and Ruminococcus were the most predominant taxonomic groups comprising 72.82% of the total community. The remarkable enrichment of catabolic genes encoding for endo-cellulases and hemicellulases, both of which are key accessory enzymes in PLMC, was predicted by PICRUSt. PLMC was capable of degrading 43.6% g VS and 36.8% g VSS of the co-digested substrates within 7 days at 55 °C. Inoculation of the microcosm to batch thermophilic anaerobic digestion containing both substrates led to a 36.6% increase in methane yield along with an increase in cellulose removal efficiency. This study demonstrated structural and metabolic adaptation of the cellulolytic microcosms isolated in the background of native microflora from the co-digested wastes and its potent application in the enhancement of anaerobic digestion efficiency. Structurally and functionally stable symbiotic cellulolytic consortium was established for enhancing the methane production from Napier grass co-digested with swine manure.![]()
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Affiliation(s)
- Sarunyou Wongwilaiwalin
- The Joint Graduate School of Energy and Environment
- King Mongkut's University of Technology Thonburi
- Bangkok 10140
- Thailand
- Enzyme Technology Laboratory and BIOTEC-JGSEE Integrative Biorefinery Laboratory
| | - Wuttichai Mhuantong
- Enzyme Technology Laboratory and BIOTEC-JGSEE Integrative Biorefinery Laboratory
- National Center for Genetic Engineering and Biotechnology
- Thailand
| | - Verawat Champreda
- Enzyme Technology Laboratory and BIOTEC-JGSEE Integrative Biorefinery Laboratory
- National Center for Genetic Engineering and Biotechnology
- Thailand
| | | | - Pornpan Panichnumsin
- Excellent Center of Waste Utilization and Management
- National Center for Genetic Engineering and Biotechnology at King Mongkut's University of Technology Thonburi
- Bangkok 10150
- Thailand
| | - Khanok Ratanakhanokchai
- School of Bioresources Technology
- King Mongkut's University of Technology Thonburi
- Bangkok 10150
- Thailand
| | - Chakrit Tachaapaikoon
- School of Bioresources Technology
- King Mongkut's University of Technology Thonburi
- Bangkok 10150
- Thailand
- Pilot Plant Development and Training Institute
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