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Wu S, Li X, Liu J, Wu H, Xu H, Bai W, Mao L, Shi X. Effective Photocatalytic Ethanol Reforming into High-Value-Added Multicarbon Compound Coupled with H 2 Production Over Pt-S 3 Sites at Pt SA-ZnIn 2S 4 Interface. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2024; 20:e2307386. [PMID: 38084447 DOI: 10.1002/smll.202307386] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/25/2023] [Revised: 11/28/2023] [Indexed: 12/22/2023]
Abstract
Selective photocatalytic production of high-value acetaldehyde concurrently with H2 from bioethanol is an appealing approach to meet the urgent environment and energy issues. However, the difficult ethanol dehydrogenation and insufficient active sites for proton reduction within the catalysts, and the long spatial distance between these two sites always restrict their catalytic activity. Here, guided by the strong metal-substrate interaction effect, an atomic-level catalyst design strategy to construct Pt-S3 single atom on ZnIn2S4 nanosheets (PtSA-ZIS) is demonstrated. As active center with optimized H adsorption energy to facilitate H2 evolution reaction, the unique Pt single atom also donates electrons to its neighboring S atoms with electron-enriched sites formed to activate the O─H bond in *CH3CHOH and promote the desorption of *CH3CHO. Thus, the synergy between Pt single atom and ZIS together will reduce the energy barrier for the ethanol oxidization to acetaldehyde, and also narrow the spatial distance for proton mass transfer. These features enable PtSA-ZIS photocatalyst to produce acetaldehyde with a selectivity of ≈100%, which will spontaneously transform into 1,1-diethoxyethane via acetalization to avoid volatilization. Meanwhile, a remarkable H2 evolution rate (184.4 µmol h-1) is achieved with a high apparent quantum efficiency of 10.50% at 400 nm.
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Affiliation(s)
- Shiting Wu
- New Energy Materials Research Center, College of Materials & Environmental Engineering, Hangzhou Dianzi University, Hangzhou, 310018, P. R. China
| | - Xiaohui Li
- Department of Applied Chemistry, Zhejiang University of Technology, Hangzhou, Zhejiang, 310014, P. R. China
| | - Jiaqi Liu
- New Energy Materials Research Center, College of Materials & Environmental Engineering, Hangzhou Dianzi University, Hangzhou, 310018, P. R. China
| | - Hanfeng Wu
- New Energy Materials Research Center, College of Materials & Environmental Engineering, Hangzhou Dianzi University, Hangzhou, 310018, P. R. China
| | - Hanshuai Xu
- Department of Applied Chemistry, Zhejiang University of Technology, Hangzhou, Zhejiang, 310014, P. R. China
| | - Wangfeng Bai
- New Energy Materials Research Center, College of Materials & Environmental Engineering, Hangzhou Dianzi University, Hangzhou, 310018, P. R. China
| | - Liang Mao
- School of Materials Science and Physics, China University of Mining and Technology, Xuzhou, 221116, P. R. China
| | - Xiaowei Shi
- Department of Applied Chemistry, Zhejiang University of Technology, Hangzhou, Zhejiang, 310014, P. R. China
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Ma XY, Coleman B, Prabhu P, Yang M, Wen F. Engineering Compositionally Uniform Yeast Whole-Cell Biocatalysts with Maximized Surface Enzyme Density for Cellulosic Biofuel Production. ACS Synth Biol 2024; 13:1225-1236. [PMID: 38551819 DOI: 10.1021/acssynbio.3c00669] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/20/2024]
Abstract
In recent decades, whole-cell biocatalysis has played an increasingly important role in the food, pharmaceutical, and energy sector. One promising application is the use of ethanologenic yeast displaying minicellulosomes on the cell surface to combine cellulose hydrolysis and fermentation into a single step for consolidated bioprocessing. However, cellulosic ethanol production using existing yeast whole-cell biocatalysts (yWCBs) has not reached industrial feasibility due to their inefficient cellulose hydrolysis. As prior studies have demonstrated enzyme density on the yWCB surface to be one of the most important parameters for enhancing cellulose hydrolysis, we sought to maximize this parameter at both the population and single-cell levels in yWCBs displaying tetrafunctional minicellulosomes. At the population level, enzyme density is limited by the presence of a nondisplay population constituting 25-50% of all cells. In this study, we identified the cause to be plasmid loss and successfully eliminated the nondisplay population to generate compositionally uniform yWCBs. At the single-cell level, we demonstrate that enzyme density is limited by molecular crowding, which hinders minicellulosome assembly. By adjusting the integrated gene copy number, we obtained yWCBs of tunable enzyme display levels. This tunability allowed us to avoid the crowding-limited regime and achieve a maximum enzyme density per cell. As a result, the best strain showed a cellulose-to-ethanol yield of 4.92 g/g, corresponding to 96% of the theoretical maximum and near-complete conversion (∼96%) of the starting cellulose (1% PASC). Our holistic engineering strategy that combines a population and single-cell level approach is broadly applicable to enhance the WCB performance in other biocatalytic cascade schemes.
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Affiliation(s)
- Xiao Yin Ma
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
- Catalysis Science and Technology Institute, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Bryan Coleman
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
- Catalysis Science and Technology Institute, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Ponnandy Prabhu
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Margaret Yang
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Fei Wen
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109, United States
- Catalysis Science and Technology Institute, University of Michigan, Ann Arbor, Michigan 48109, United States
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Niazi R, Parveen G, Noman M, Mukhtar N, Hadayat N, Sami A, Khaliq B, Shrestha J, Ullah I. Comparative expression analysis of sucrose phosphate synthase gene family in a low and high sucrose Pakistani sugarcane cultivars. PeerJ 2023; 11:e15832. [PMID: 37719124 PMCID: PMC10503496 DOI: 10.7717/peerj.15832] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Accepted: 07/11/2023] [Indexed: 09/19/2023] Open
Abstract
Sugarcane is the world's largest cultivated crop by biomass and is the main source of sugar and biofuel. Sucrose phosphate synthase (SPS) enzymes are directly involved in the synthesis of sucrose. Here, we analyzed and compared one of the important gene families involved in sucrose metabolism in a high and low sucrose sugarcane cultivar. A comprehensive in silico analysis of the SoSPS family displayed their phylogenetic relationship, gene and protein structure, miRNA targets, protein interaction network (PPI), gene ontology and collinearity. This was followed by a spatial expression analysis in two different sugarcane varieties. The phylogenetic reconstruction distributed AtSPS, ZmSPS, OsSPS, SoSPS and SbSPS into three main groups (A, B, C). The regulatory region of SoSPS genes carries ABRE, ARE, G-box, and MYC as the most dominant cis-regulatory elements. The PPI analysis predicted a total of 14 unique proteins interacting with SPS. The predominant expression of SPS in chloroplast clearly indicates that they are the most active in the organelle which is the hub of photosynthesis. Similarly, gene ontology attributed SPS to sucrose phosphate synthase and glucosyl transferase molecular functions, as well as sucrose biosynthetic and disaccharide biological processes. Overall, the expression of SPS in CPF252 (high sucrose variety) was higher in leaf and culm as compared to that of CPF 251 (low sucrose variety). In brief, this study adds to the present literature about sugarcane, sucrose metabolism and role of SPS in sucrose metabolism thereby opening up further avenues of research in crop improvement.
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Affiliation(s)
- Robi Niazi
- Department of Botany, Women University Swabi, Swabi, Khyber Pakhtun Khwa, Pakistan
| | - Gulnaz Parveen
- Department of Botany, Women University Swabi, Swabi, Khyber Pakhtun Khwa, Pakistan
| | - Muhammad Noman
- National Institute for Genomics and Advanced Biotechnology, National Agricultural Research Center Islamabad Pakistan, Islamabad, Capital, Pakistan
| | - Naila Mukhtar
- Department of Botany, University of Okara, Okara, Punjab, Pakistan
| | - Naila Hadayat
- Department of Botany, Division of Science & Technology, University of Education, Lahor
| | - Amtul Sami
- Health Biotechnology, Women University Swabi, Swabi, Khyber Pakhtun Khwan, Pakistan
| | - Binish Khaliq
- Department of Botany, University of Okara, Okara, Punjab, Pakistan
| | - Jiban Shrestha
- Nepal Agricultural Research Council, National Plant Breeding and Genetics Research Centre, Khumaltar, Lalitpur, Nepal
| | - Irfan Ullah
- Department of Zoology, Karakaram International University, Ghizer, Gilgit, Pakistan
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Jayan SS, Jayan JS, Saritha A. A review on recent advances towards sustainable development of bio-inspired agri-waste based cellulose aerogels. Int J Biol Macromol 2023; 248:125928. [PMID: 37481183 DOI: 10.1016/j.ijbiomac.2023.125928] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2023] [Revised: 06/25/2023] [Accepted: 07/19/2023] [Indexed: 07/24/2023]
Abstract
Cellulose aerogel (CA) is considered to be the most promising material due to its extraordinary properties like unique microstructure, porosity, large specific surface area, biodegradability, renewable nature and lightweight. Cellulosic aerogels are thus found to have potential applications in different fields especially in water purification and biomedical field. Agricultural waste based cellulose aerogels are recently getting wider attention owing to its sustainability. The synthesis methods of agri-waste based cellulose aerogels, its properties and application in different fields especially in the field of water purification are detailed in a comprehensive manner. This review tries to bring light into the commercialization of value-added products from sustainable, cheap agricultural waste material and tries to motivate young researchers.
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Affiliation(s)
- Sajitha S Jayan
- Department of Chemistry, Bishop Moore College, Mavelikkara, Kerala, India
| | - Jitha S Jayan
- Department of Chemistry, Amrita Vishwa Vidyapeetham, Amritapuri, Kollam, Kerala, India; Department of Chemistry, National Institute of Technology, Calicut, Kerala, India.
| | - Appukuttan Saritha
- Department of Chemistry, Amrita Vishwa Vidyapeetham, Amritapuri, Kollam, Kerala, India.
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Puliafito SE. Civil aviation emissions in Argentina. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 869:161675. [PMID: 36669658 DOI: 10.1016/j.scitotenv.2023.161675] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/09/2022] [Revised: 12/28/2022] [Accepted: 01/13/2023] [Indexed: 06/17/2023]
Abstract
The impact of aviation on climate change is reflected in increasing emissions of CO2 and other pollutants from fuel burning emitted at high altitudes, representing 2.9 % of total Greenhouse gases (GHG) emissions in 2019. However, mitigations options for decarbonization of aviation are difficult to implement given operational safety, technology maturity, energy density and other constraints. One alternative for mitigation is the use of certified sustainable aviation fuel (SAF) with lower carbon intensity than conventional jet fuel (CJF). This research presents an inventory of Argentine civil aviation emissions for its domestic and international flights, and analyzes the possibility of supplying SAF as a mitigation strategy given its abundant biomass production. Argentine aviation activity is presented as a monthly 4D (latitude, longitude, altitude and time) spatial inventory for the interval 2001-2021, based on origin and destination city pairs, aircraft types and airlines. Fuel consumption and pollutant emissions were calculated for landing-and-take-off and cruise phases. Monthly domestic ranged from 67 to 179 kt CO2eq (2001-2019). Annual peak values occurred in 2019 consuming 560 kt CJF and direct emitting of 1.77 Mt CO2eq. While Revenue-Passenger-Kilometer (RPK) grew almost 4 times (4.18 × 109 in 2001 to 16.42 × 109 in 2019), the number of flights changed only 1.5 times (from 98,000 in 2002 to 152,000 in 2019). The main efficiency indexes varied from 97 t CJF/RPK, 308 gCO2eq/RPK to 34 t CJF/RPK, 107 gCO2eq/RPK between 2001 and 2019, respectively, showing an average annual improvement of 3.5 % due to partial fleet renewal, especially from 2015 onwards. Emissions of other pollutants for 2019 reached total values of CO 14.14 kt; NOx 6.77 kt; PM tot 55.12 kt. For the period 2001-2019, international aviation consumed between 1 Mt - 1.5 Mt CJF, directly emitting between 3.30 and 4.80 Mt of CO2eq; RPKs went from 6.234 × 109 to 20.524 × 109; the efficiency indices ranged from 529 to 240 gCO2eq/RPK. The most important changes occurred with an optimization of routes and number of flights and the replacement of the four-engines (B747, A380) by more efficient twin-engines (B777, A330) aircraft. Argentina is not required to any offsetting regulatory program due to its small aviation market (approx. 0.22 % global market in 2019), nor has to date certified SAF production pathways, nevertheless it has potential for SAF availability based on actual biofuels production (ethanol, biodiesel and soybean oil) and biomass feedstock's existences. In this sense this studies proposes that 2019 domestic fuel consumption could be supplied using 79 % exportable amounts of sugarcane ethanol (257 ± 53 kt) (by Ethanol to Jet ETJ) and 34 % of exportable soybean oil (1079 ± 160 kt) (by hydroprocessed esters and fatty acids- HEFA) pathways. For this scenario average GHG emissions reached 1.321 ± 0.115 Mt CO2eq; which would imply a 62 % of the current emission value using CJF (2.17Mt CO2eq), or savings of about 838 kt CO2eq (38 %). At the 2019 level of harvest and biofuel production, up to 1.4 Mt of SAF could be produced from sugarcane ethanol/ETJ and soybean oil/HEFA mitigating up to 1.8 MtCO2eq. A 35 kt CO2eq annual sectoral national mitigation strategy could be reached by using 14 kt of SAF.
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Affiliation(s)
- S Enrique Puliafito
- Argentine National Technological University (GEAA UTN / CONICET), Argentina.
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Hemalatha P, Abda EM, Shah S, Venkatesa Prabhu S, Jayakumar M, Karmegam N, Kim W, Govarthanan M. Multi-faceted CRISPR-Cas9 strategy to reduce plant based food loss and waste for sustainable bio-economy - A review. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 332:117382. [PMID: 36753844 DOI: 10.1016/j.jenvman.2023.117382] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2022] [Revised: 01/14/2023] [Accepted: 01/25/2023] [Indexed: 06/18/2023]
Abstract
Currently, international development requires innovative solutions to address imminent challenges like climate change, unsustainable food system, food waste, energy crisis, and environmental degradation. All the same, addressing these concerns with conventional technologies is time-consuming, causes harmful environmental impacts, and is not cost-effective. Thus, biotechnological tools become imperative for enhancing food and energy resilience through eco-friendly bio-based products by valorisation of plant and food waste to meet the goals of circular bioeconomy in conjunction with Sustainable Developmental Goals (SDGs). Genome editing can be accomplished using a revolutionary DNA modification tool, CRISPR-Cas9, through its uncomplicated guided mechanism, with great efficiency in various organisms targeting different traits. This review's main objective is to examine how the CRISPR-Cas system, which has positive features, could improve the bioeconomy by reducing food loss and waste with all-inclusive food supply chain both at on-farm and off-farm level; utilising food loss and waste by genome edited microorganisms through food valorisation; efficient microbial conversion of low-cost substrates as biofuel; valorisation of agro-industrial wastes; mitigating greenhouse gas emissions through forestry plantation crops; and protecting the ecosystem and environment. Finally, the ethical implications and regulatory issues that are related to CRISPR-Cas edited products in the international markets have also been taken into consideration.
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Affiliation(s)
- Palanivel Hemalatha
- Department of Biotechnology, Center of Excellence for Biotechnology and Bioprocess, College of Biological and Chemical Engineering, Addis Ababa Science and Technology University, PO Box 16417, Addis Ababa, Ethiopia
| | - Ebrahim M Abda
- Department of Biotechnology, Center of Excellence for Biotechnology and Bioprocess, College of Biological and Chemical Engineering, Addis Ababa Science and Technology University, PO Box 16417, Addis Ababa, Ethiopia
| | - Shipra Shah
- Department of Forestry, College of Agriculture, Fisheries and Forestry, Fiji National University, Kings Road, Koronivia, P. O. Box 1544, Nausori, Republic of Fiji
| | - S Venkatesa Prabhu
- Department of Chemical Engineering, Center of Excellence for Biotechnology and Bioprocess, College of Biological and Chemical Engineering, Addis Ababa Science and Technology University, PO Box 16417, Addis Ababa, Ethiopia
| | - M Jayakumar
- Department of Chemical Engineering, Haramaya Institute of Technology, Haramaya University, P.O. Box 138, Dire Dawa, Ethiopia.
| | - N Karmegam
- PG and Research Department of Botany, Government Arts College (Autonomous), Salem, 636 007, Tamil Nadu, India
| | - Woong Kim
- Department of Environmental Engineering, Kyungpook National University, Daegu, 41566, Republic of Korea
| | - M Govarthanan
- Department of Environmental Engineering, Kyungpook National University, Daegu, 41566, Republic of Korea; Department of Biomaterials, Saveetha Dental College and Hospital, Saveetha Institute of Medical and Technical Sciences, Chennai, 600 077, India.
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Singh G, Kumar S, Afreen S, Bhalla A, Khurana J, Chandel S, Aggarwal A, Arya SK. Laccase mediated delignification of wasted and non-food agricultural biomass: Recent developments and challenges. Int J Biol Macromol 2023; 235:123840. [PMID: 36849073 DOI: 10.1016/j.ijbiomac.2023.123840] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2022] [Revised: 02/13/2023] [Accepted: 02/21/2023] [Indexed: 02/27/2023]
Abstract
Utilization of microbial laccases is considered as the cleaner and target specific biocatalytic mechanism for the recovery of cellulose and hemicelluloses from nonfood and wasted agricultural, lignocellulosic biomass (LCB). The extent of lignin removal by laccase depends on the biochemical composition of biomass and the redox potential (E0) of the biocatalyst. Intensive research efforts are going on all over the world for the recognition of appropriate and easily available agricultural lignocellulosic feedstocks to exploit maximally for the production of value-added bioproducts and biofuels. In such circumstances, laccase can play a major role as a leading biocatalyst and potent substitute for chemical based deconstruction of the lignocellulosic materials. The limited commercialization of laccase at an industrial scale has been feasible due to its full working efficiency mostly expressed in the presence of cost intensive redox mediators only. Although, recently there are some reports that came on the mediator free biocatalysis of enzyme but still not considerably explored and neither understood in depth. The present review will address the various research gaps and shortcomings that acted as the big hurdles before the complete exploitation of laccases at an industrial scale. Further, this article also reveals insights on different microbial laccases and their diverse functional environmental conditions that affect the deconstruction process of LCB.
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Affiliation(s)
- Gursharan Singh
- Department of Medical Laboratory Sciences, Lovely Professional University, Phagwara 144411, Punjab, India.
| | - Shiv Kumar
- Department of Microbiology, Guru Gobind Singh Medical College and Hospital, Baba Farid University of Health Sciences, Faridkot 151203, Punjab, India
| | - Sumbul Afreen
- Department of Biochemical Engineering and Biotechnology, Indian Institute of Technology-Delhi, New Delhi, India
| | - Aditya Bhalla
- Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, USA
| | - Jyoti Khurana
- Biotechnology Department, Arka Jain University, Jamshedpur, Jharkhand, India
| | - Sanjeev Chandel
- GHG College of Pharmacy, Raikot Road, Ludhiana, -141109, India
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Peng P, Lan Y, Xu A, Liu M. Enhanced ethanol pervaporative selectivity of polydimethylsiloxane membranes by incorporating with graphene oxide@silica core‐shell structure. J Appl Polym Sci 2022. [DOI: 10.1002/app.53449] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Ping Peng
- Laboratory of Membrane Science and Technology, School of Resource and Chemical Engineering Sanming University Sanming China
- Science and Technology on Sanming Institute of Fluorochemical Industry Sanming China
| | - Yongqiang Lan
- Laboratory of Membrane Science and Technology, School of Resource and Chemical Engineering Sanming University Sanming China
| | - Amei Xu
- Laboratory of Membrane Science and Technology, School of Resource and Chemical Engineering Sanming University Sanming China
| | - Mengyao Liu
- Laboratory of Membrane Science and Technology, School of Resource and Chemical Engineering Sanming University Sanming China
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Lee JS, Sung YJ, Sim SJ. Kinetic analysis of microalgae cultivation utilizing 3D-printed real-time monitoring system reveals potential of biological CO 2 conversion. BIORESOURCE TECHNOLOGY 2022; 364:128014. [PMID: 36155817 DOI: 10.1016/j.biortech.2022.128014] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2022] [Revised: 09/16/2022] [Accepted: 09/17/2022] [Indexed: 06/16/2023]
Abstract
The microalgae-based bioconversion process is a promising carbon utilization technology because it can upgrade CO2 into valuable substances, but a multiplex monitoring system required for process control to maximize biomass productivity has not been well established. Herein, a 3D printed real-time optical density monitoring device (RTOMD) combined platform was presented. This platform enables precise kinetics analysis by maintaining high accuracy (over 95 %) under raucous outdoor conditions. Through RTOMD-based high-frequency measurements, it was observed that maximum biomass productivity of 4.497 g L-1 d-1 was reached, which greatly exceeds the requirements for a feasible microalgae process. We discovered that the CO2 fixation efficiency could be achieved to 70.75 %, indicating the potential of a bioconversion process to realize a carbon-neutral society. Consequently, the RTOMD system can contribute to promoting microalgae cultivation as an attractive carbon mitigation technology based on an improved understanding of the photosynthetic CO2 fixation kinetics.
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Affiliation(s)
- Jeong Seop Lee
- Department of Chemical and Biological Engineering, Korea University, 145, Anam-ro, Seongbuk-gu, Seoul 02841, Republic of Korea
| | - Young Joon Sung
- Department of Chemical and Biological Engineering, Sookmyung Women's University, 100 Cheongpa-ro 47-gil, Yongsan-gu, Seoul, Republic of Korea
| | - Sang Jun Sim
- Department of Chemical and Biological Engineering, Korea University, 145, Anam-ro, Seongbuk-gu, Seoul 02841, Republic of Korea.
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Darabitabar F, Yavari V, Hedayati A, Zakeri M, Yousefi H. Nanocrystalline cellulose based on chitosan hydrogel structure as a biological adsorbent for effluent of fish culture farms. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:83770-83782. [PMID: 35771323 DOI: 10.1007/s11356-022-21343-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/17/2022] [Accepted: 06/03/2022] [Indexed: 06/15/2023]
Abstract
Synthetic hydrogels have been replaced by natural hydrogels due to their properties such as being long-lasting, more capacity for water absorption, high strength, and resistance. Recently, hydrogels have been defined as two- or multi-component systems consisting of three-dimensional networks of polymer chains that fill the space between macromolecules. Their water absorption efficiency depends on both polymeric nature and the capacity of the polymer network connections. Because of climate change and frequent droughts, fresh water supply has become a limiting factor for sustainable aquaculture development in Iran. Therefore, wastewater treatment and reuse can be a reasonable solution to meet the required water for expanding the aquaculture industry. The present study assessed the efficiency of a new hydrogel prepared from sugarcane waste (bagasse) to remove nitrogen and phosphate compounds from the effluent of fish farms. First, the hydrogel was prepared during the polymerization process, and then, in order to determine the optimal absorption, it was tested in a discontinuous system by performing absorption isotherm calculations. In cellulose/chitosan nanocrystalline hydrogel nanosorbent, the removal rates for nitrate, nitrite, and phosphate were 84.3%, 86%, and 90.9%, respectively. Optimal adsorption was determined at acidity of 6, time of 30 min, temperature of 40 ℃, concentration of 100 mg/L, and adsorbent dose of 0.5 g. A comparison of adsorption isotherm models showed more conformity with Freundlich and Tamkin absorption models with correlation coefficients of 0.99 and 0.97 for nitrate, 0.98 and 0.91 for nitrite, and 0.99 and 0.93 for phosphate, respectively.
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Affiliation(s)
- Fatemeh Darabitabar
- Department of Fisheries, Faculty of Marine Natural Resources, Khorramshahr University of Marine Science and Technology, Khorramshahr, Iran
| | - Vahid Yavari
- Department of Fisheries, Faculty of Marine Natural Resources, Khorramshahr University of Marine Science and Technology, Khorramshahr, Iran
| | - Aliakbar Hedayati
- Faculty of Fisheries and Environmental Sciences, Gorgan University of Agricultural Sciences and Natural Resources, Gorgan, Iran.
| | - Mohammad Zakeri
- Department of Fisheries, Faculty of Marine Natural Resources, Khorramshahr University of Marine Science and Technology, Khorramshahr, Iran
| | - Hossein Yousefi
- Laboratory of Sustainable Nanomaterials, Department of Wood Engineering and Technology, Gorgan University of Agricultural Sciences and Natural Resources, Gorgan, Iran
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Molecular studies of cellulose synthase supercomplex from cotton fiber reveal its unique biochemical properties. SCIENCE CHINA. LIFE SCIENCES 2022; 65:1776-1793. [PMID: 35394636 DOI: 10.1007/s11427-022-2083-9] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/04/2022] [Accepted: 03/01/2022] [Indexed: 01/08/2023]
Abstract
Cotton fiber is a highly elongated and thickened single cell that produces large quantities of cellulose, which is synthesized and assembled into cell wall microfibrils by the cellulose synthase complex (CSC). In this study, we report that in cotton (Gossypium hirsutum) fibers harvested during secondary cell wall (SCW) synthesis, GhCesA 4, 7, and 8 assembled into heteromers in a previously uncharacterized 36-mer-like cellulose synthase supercomplex (CSS). This super CSC was observed in samples prepared using cotton fiber cells harvested during the SCW synthesis period but not from cotton stem tissue or any samples obtained from Arabidopsis. Knock-out of any of GhCesA 4, 7, and 8 resulted in the disappearance of the CSS and the production of fiber cells with no SCW thickening. Cotton fiber CSS showed significantly higher enzyme activity than samples prepared from knock-out cotton lines. We found that the microfibrils from the SCW of wild-type cotton fibers may contain 72 glucan chains in a bundle, unlike other plant materials studied. GhCesA4, 7, and 8 restored both the dwarf and reduced vascular bundle phenotypes of their orthologous Arabidopsis mutants, potentially by reforming the CSC hexamers. Genetic complementation was not observed when non-orthologous CesA genes were used, indicating that each of the three subunits is indispensable for CSC formation and for full cellulose synthase function. Characterization of cotton CSS will increase our understanding of the regulation of SCW biosynthesis.
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12
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Cardoso V, Brás JLA, Costa IF, Ferreira LMA, Gama LT, Vincentelli R, Henrissat B, Fontes CMGA. Generation of a Library of Carbohydrate-Active Enzymes for Plant Biomass Deconstruction. Int J Mol Sci 2022; 23:ijms23074024. [PMID: 35409382 PMCID: PMC8999789 DOI: 10.3390/ijms23074024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2022] [Revised: 03/29/2022] [Accepted: 04/03/2022] [Indexed: 01/27/2023] Open
Abstract
In nature, the deconstruction of plant carbohydrates is carried out by carbohydrate-active enzymes (CAZymes). A high-throughput (HTP) strategy was used to isolate and clone 1476 genes obtained from a diverse library of recombinant CAZymes covering a variety of sequence-based families, enzyme classes, and source organisms. All genes were successfully isolated by either PCR (61%) or gene synthesis (GS) (39%) and were subsequently cloned into Escherichia coli expression vectors. Most proteins (79%) were obtained at a good yield during recombinant expression. A significantly lower number (p < 0.01) of proteins from eukaryotic (57.7%) and archaeal (53.3%) origin were soluble compared to bacteria (79.7%). Genes obtained by GS gave a significantly lower number (p = 0.04) of soluble proteins while the green fluorescent protein tag improved protein solubility (p = 0.05). Finally, a relationship between the amino acid composition and protein solubility was observed. Thus, a lower percentage of non-polar and higher percentage of negatively charged amino acids in a protein may be a good predictor for higher protein solubility in E. coli. The HTP approach presented here is a powerful tool for producing recombinant CAZymes that can be used for future studies of plant cell wall degradation. Successful production and expression of soluble recombinant proteins at a high rate opens new possibilities for the high-throughput production of targets from limitless sources.
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Affiliation(s)
- Vânia Cardoso
- Centro de Investigação Interdisciplinar em Sanidade Animal—Faculdade de Medicina Veterinária, Universidade de Lisboa, Pólo Universitário do Alto da Ajuda, Avenida da Universidade Técnica, 1300-477 Lisboa, Portugal; (L.M.A.F.); (L.T.G.)
- NZYTech Ltd., Estrada do Paço do Lumiar, Campus do Lumiar, 1649-038 Lisboa, Portugal; (J.L.A.B.); (I.F.C.)
- Correspondence: (V.C.); (C.M.G.A.F.)
| | - Joana L. A. Brás
- NZYTech Ltd., Estrada do Paço do Lumiar, Campus do Lumiar, 1649-038 Lisboa, Portugal; (J.L.A.B.); (I.F.C.)
| | - Inês F. Costa
- NZYTech Ltd., Estrada do Paço do Lumiar, Campus do Lumiar, 1649-038 Lisboa, Portugal; (J.L.A.B.); (I.F.C.)
| | - Luís M. A. Ferreira
- Centro de Investigação Interdisciplinar em Sanidade Animal—Faculdade de Medicina Veterinária, Universidade de Lisboa, Pólo Universitário do Alto da Ajuda, Avenida da Universidade Técnica, 1300-477 Lisboa, Portugal; (L.M.A.F.); (L.T.G.)
| | - Luís T. Gama
- Centro de Investigação Interdisciplinar em Sanidade Animal—Faculdade de Medicina Veterinária, Universidade de Lisboa, Pólo Universitário do Alto da Ajuda, Avenida da Universidade Técnica, 1300-477 Lisboa, Portugal; (L.M.A.F.); (L.T.G.)
| | - Renaud Vincentelli
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7257, Université Aix-Marseille, 13288 Marseille, France; (R.V.); (B.H.)
- Institut National de la Recherche Agronomique, Unité sous Contrat 1408 Architecture et Fonction des Macromolécules Biologiques, 13288 Marseille, France
| | - Bernard Henrissat
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7257, Université Aix-Marseille, 13288 Marseille, France; (R.V.); (B.H.)
- Institut National de la Recherche Agronomique, Unité sous Contrat 1408 Architecture et Fonction des Macromolécules Biologiques, 13288 Marseille, France
- Department of Biological Sciences, King Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Carlos M. G. A. Fontes
- Centro de Investigação Interdisciplinar em Sanidade Animal—Faculdade de Medicina Veterinária, Universidade de Lisboa, Pólo Universitário do Alto da Ajuda, Avenida da Universidade Técnica, 1300-477 Lisboa, Portugal; (L.M.A.F.); (L.T.G.)
- NZYTech Ltd., Estrada do Paço do Lumiar, Campus do Lumiar, 1649-038 Lisboa, Portugal; (J.L.A.B.); (I.F.C.)
- Correspondence: (V.C.); (C.M.G.A.F.)
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13
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Xiong W, Devkota L, Zhang B, Muir J, Dhital S. Intact cells: “Nutritional capsules” in plant foods. Compr Rev Food Sci Food Saf 2022; 21:1198-1217. [DOI: 10.1111/1541-4337.12904] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2021] [Revised: 11/23/2021] [Accepted: 12/13/2021] [Indexed: 12/12/2022]
Affiliation(s)
- Weiyan Xiong
- Department of Chemical and Biological Engineering Monash University Clayton Campus, VIC 3800 Australia
- School of Food Science and Engineering, Guangdong Province Key Laboratory for Green Processing of Natural Products and Product Safety South China University of Technology Guangzhou Guangdong P. R. China
| | - Lavaraj Devkota
- Department of Chemical and Biological Engineering Monash University Clayton Campus, VIC 3800 Australia
| | - Bin Zhang
- School of Food Science and Engineering, Guangdong Province Key Laboratory for Green Processing of Natural Products and Product Safety South China University of Technology Guangzhou Guangdong P. R. China
| | - Jane Muir
- Department of Gastroenterology Central Clinical School, Monash University Melbourne Victoria Australia
| | - Sushil Dhital
- Department of Chemical and Biological Engineering Monash University Clayton Campus, VIC 3800 Australia
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Differences in the Abundance of Auxin Homeostasis Proteins Suggest Their Central Roles for In Vitro Tissue Differentiation in Coffea arabica. PLANTS 2021; 10:plants10122607. [PMID: 34961078 PMCID: PMC8708889 DOI: 10.3390/plants10122607] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/28/2021] [Revised: 11/16/2021] [Accepted: 11/17/2021] [Indexed: 02/04/2023]
Abstract
Coffea arabica is one of the most important crops worldwide. In vitro culture is an alternative for achieving Coffea regeneration, propagation, conservation, genetic improvement, and genome editing. The aim of this work was to identify proteins involved in auxin homeostasis by isobaric tandem mass tag (TMT) and the synchronous precursor selection (SPS)-based MS3 technology on the Orbitrap Fusion™ Tribrid mass spectrometer™ in three types of biological materials corresponding to C. arabica: plantlet leaves, calli, and suspension cultures. Proteins included in the β-oxidation of indole butyric acid and in the signaling, transport, and conjugation of indole-3-acetic acid were identified, such as the indole butyric response (IBR), the auxin binding protein (ABP), the ATP-binding cassette transporters (ABC), the Gretchen-Hagen 3 proteins (GH3), and the indole-3-acetic-leucine-resistant proteins (ILR). A more significant accumulation of proteins involved in auxin homeostasis was found in the suspension cultures vs. the plantlet, followed by callus vs. plantlet and suspension culture vs. callus, suggesting important roles of these proteins in the cell differentiation process.
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15
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Penha CB, Santos VDP, Speranza P, Kurozawa LE. Plant-based beverages: Ecofriendly technologies in the production process. INNOV FOOD SCI EMERG 2021. [DOI: 10.1016/j.ifset.2021.102760] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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16
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Li Z, Zhang Y, Anankanbil S, Guo Z. Applications of nanocellulosic products in food: Manufacturing processes, structural features and multifaceted functionalities. Trends Food Sci Technol 2021. [DOI: 10.1016/j.tifs.2021.03.027] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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18
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Yamada T, Park K, Sajiki H. Development of Solid Catalysts for Selective Reactions and their Application to Continuous-Flow Reactions. J SYN ORG CHEM JPN 2021. [DOI: 10.5059/yukigoseikyokaishi.79.472] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Tsuyoshi Yamada
- Laboratory of Organic Chemistry, Gifu Pharmaceutical University
| | | | - Hironao Sajiki
- Laboratory of Organic Chemistry, Gifu Pharmaceutical University
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Parsimehr H, Ehsani A, Goharshenas Moghadam S, Arachchige Dumith Madushanka Jayathilaka W, Ramakrishna S. Energy Harvesting/Storage and Environmental Remediation via Hot Drinks Wastes. CHEM REC 2021; 21:1098-1118. [PMID: 33913239 DOI: 10.1002/tcr.202100018] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2021] [Revised: 04/12/2021] [Indexed: 11/10/2022]
Abstract
Providing energy and materials are considered one most important issue in the world. Produce and storage energy and also, prepare chemical substances from disposable biomass materials have been widely developed in recent decades to decrease environmental pollutions and production costs. The waste of hot drinks including coffee wastes and tea wastes have considerable potentials to provide energy and different chemical substances. Also, hazardous materials (especially aqueous ions) can be absorbed via hot drinks wastes to protect the environment against perilous pollutants. The low-cost and benign hot drinks wastes including tea wastes and coffee grounds and also the pyrolyzed of them as the hot drinks waste biochar materials have been widely used to produce and store green energies and also, absorb hazardous materials. Production and storage energy and environmental remediation in these sustainable procedures not only reduce the cost of energy but also protect the environment.
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Affiliation(s)
- Hamidreza Parsimehr
- Department of Chemistry, Faculty of Science, University of Qom, Qom, Iran.,Color and Surface Coatings Group, Polymer Processing Department, Iran Polymer and Petrochemical Institute (IPPI), Tehran, Iran
| | - Ali Ehsani
- Department of Chemistry, Faculty of Science, University of Qom, Qom, Iran
| | - Saba Goharshenas Moghadam
- Color and Surface Coatings Group, Polymer Processing Department, Iran Polymer and Petrochemical Institute (IPPI), Tehran, Iran
| | | | - Seeram Ramakrishna
- Centre of Nanotechnology and Sustainability, Department of Mechanical Engineering, National University of Singapore, 119260, Singapore
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20
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Zhou P, Zhang Q, Chao Y, Wang L, Li Y, Chen H, Gu L, Guo S. Partially reduced Pd single atoms on CdS nanorods enable photocatalytic reforming of ethanol into high value-added multicarbon compound. Chem 2021. [DOI: 10.1016/j.chempr.2021.01.007] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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21
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Brandt SC, Brognaro H, Ali A, Ellinger B, Maibach K, Rühl M, Wrenger C, Schlüter H, Schäfer W, Betzel C, Janssen S, Gand M. Insights into the genome and secretome of Fusarium metavorans DSM105788 by cultivation on agro-residual biomass and synthetic nutrient sources. BIOTECHNOLOGY FOR BIOFUELS 2021; 14:74. [PMID: 33743779 PMCID: PMC7981871 DOI: 10.1186/s13068-021-01927-9] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/17/2020] [Accepted: 03/11/2021] [Indexed: 06/12/2023]
Abstract
BACKGROUND The transition to a biobased economy involving the depolymerization and fermentation of renewable agro-industrial sources is a challenge that can only be met by achieving the efficient hydrolysis of biomass to monosaccharides. In nature, lignocellulosic biomass is mainly decomposed by fungi. We recently identified six efficient cellulose degraders by screening fungi from Vietnam. RESULTS We characterized a high-performance cellulase-producing strain, with an activity of 0.06 U/mg, which was identified as a member of the Fusarium solani species complex linkage 6 (Fusarium metavorans), isolated from mangrove wood (FW16.1, deposited as DSM105788). The genome, representing nine potential chromosomes, was sequenced using PacBio and Illumina technology. In-depth secretome analysis using six different synthetic and artificial cellulose substrates and two agro-industrial waste products identified 500 proteins, including 135 enzymes assigned to five different carbohydrate-active enzyme (CAZyme) classes. The F. metavorans enzyme cocktail was tested for saccharification activity on pre-treated sugarcane bagasse, as well as untreated sugarcane bagasse and maize leaves, where it was complemented with the commercial enzyme mixture Accellerase 1500. In the untreated sugarcane bagasse and maize leaves, initial cell wall degradation was observed in the presence of at least 196 µg/mL of the in-house cocktail. Increasing the dose to 336 µg/mL facilitated the saccharification of untreated sugarcane biomass, but had no further effect on the pre-treated biomass. CONCLUSION Our results show that F. metavorans DSM105788 is a promising alternative pre-treatment for the degradation of agro-industrial lignocellulosic materials. The enzyme cocktail promotes the debranching of biopolymers surrounding the cellulose fibers and releases reduced sugars without process disadvantages or loss of carbohydrates.
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Affiliation(s)
- Sophie C Brandt
- Faculty of Mathematics, Computer Science and Natural Science, Department of Biology, Biozentrum Klein Flottbek, Molecular Phytopathology, University of Hamburg, Ohnhorststr. 18, 22609, Hamburg, Germany
| | - Hévila Brognaro
- Department of Parasitology, Institute of Biomedical Sciences, University of São Paulo, Av. Prof. Lineu Prestes, 1374, São Paulo, CEP, 05508-000, Brazil
- Institute of Biochemistry and Molecular Biology, University of Hamburg, Martin Luther King Platz 6, 20146, Hamburg, Germany
| | - Arslan Ali
- Institute of Biochemistry and Molecular Biology, University of Hamburg, Martin Luther King Platz 6, 20146, Hamburg, Germany
- Dr. Panjwani Center for Molecular Medicine and Drug Research, International Center for Chemical and Biological Sciences, University of Karachi, University Road, Karachi, 75270, Pakistan
- Institute of Clinical Chemistry and Laboratory Medicine Diagnostic Center, Campus Research. Martinistr. 52, N27, 20246, Hamburg, Germany
| | - Bernhard Ellinger
- Fraunhofer Institute for Translational Medicine and Pharmacology ITMP, Department ScreeningPort, Schnackenburgallee 114, 22525, Hamburg, Germany
| | - Katharina Maibach
- Department Biology and Chemistry, Algorithmic Bioinformatics, Justus Liebig University Giessen, Heinrich-Buff-Ring 58, 35392, Gießen, Germany
| | - Martin Rühl
- Department Biology and Chemistry, Institute of Food Chemistry and Food Biotechnology, Justus Liebig University Giessen, Heinrich-Buff-Ring 17, 35392, Gießen, Germany
| | - Carsten Wrenger
- Department of Parasitology, Institute of Biomedical Sciences, University of São Paulo, Av. Prof. Lineu Prestes, 1374, São Paulo, CEP, 05508-000, Brazil
- Institute of Biochemistry and Molecular Biology, University of Hamburg, Martin Luther King Platz 6, 20146, Hamburg, Germany
| | - Hartmut Schlüter
- Institute of Biochemistry and Molecular Biology, University of Hamburg, Martin Luther King Platz 6, 20146, Hamburg, Germany
- Institute of Clinical Chemistry and Laboratory Medicine Diagnostic Center, Campus Research. Martinistr. 52, N27, 20246, Hamburg, Germany
| | - Wilhelm Schäfer
- Faculty of Mathematics, Computer Science and Natural Science, Department of Biology, Biozentrum Klein Flottbek, Molecular Phytopathology, University of Hamburg, Ohnhorststr. 18, 22609, Hamburg, Germany
| | - Christian Betzel
- Institute of Biochemistry and Molecular Biology, University of Hamburg, Martin Luther King Platz 6, 20146, Hamburg, Germany
| | - Stefan Janssen
- Department Biology and Chemistry, Algorithmic Bioinformatics, Justus Liebig University Giessen, Heinrich-Buff-Ring 58, 35392, Gießen, Germany
| | - Martin Gand
- Faculty of Mathematics, Computer Science and Natural Science, Department of Biology, Biozentrum Klein Flottbek, Molecular Phytopathology, University of Hamburg, Ohnhorststr. 18, 22609, Hamburg, Germany.
- Department Biology and Chemistry, Institute of Food Chemistry and Food Biotechnology, Justus Liebig University Giessen, Heinrich-Buff-Ring 17, 35392, Gießen, Germany.
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Chai Z. Light-Driven Alcohol Splitting by Heterogeneous Photocatalysis: Recent Advances, Mechanism and Prospects. Chem Asian J 2021; 16:460-473. [PMID: 33448692 PMCID: PMC7986840 DOI: 10.1002/asia.202001312] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Revised: 01/13/2021] [Indexed: 11/19/2022]
Abstract
Splitting of alcohols into hydrogen and corresponding carbonyl compounds, also called acceptorless alcohol dehydrogenation, is of great significance for both synthetic chemistry and hydrogen production. Light-Driven Alcohol Splitting (LDAS) by heterogeneous photocatalysis is a promising route to achieve such transformations, and it possesses advantages including high selectivity of the carbonyl compounds, extremely mild reaction conditions (room temperature and irradiation of visible light) and easy separation of the photocatalysts from the reaction mixtures. Because a variety of alcohols can be derived from biomass, LDAS can also be regarded as one of the most sustainable approaches for hydrogen production. In this Review, recent advances in the LDAS catalyzed by the heterogeneous photocatalysts are summarized, focusing on the mechanistic insights for the LDAS and aspects that influence the performance of the photocatalysts from viewpoints of metallic co-catalysts, semiconductors, and metal/semiconductor interfaces. In addition, challenges and prospects have been discussed in order to present a complete picture of this field.
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Affiliation(s)
- Zhigang Chai
- Department of Chemistry – Ångström LaboratoryUppsala University75121UppsalaSweden
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23
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Palazzo A, Marsano RM. Transposable elements: a jump toward the future of expression vectors. Crit Rev Biotechnol 2021; 41:792-808. [PMID: 33622117 DOI: 10.1080/07388551.2021.1888067] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
Expression vectors (EVs) are artificial nucleic acid molecules with a modular structure that allows for the transcription of DNA sequences of interest in either cellular or cell-free environments. These vectors have emerged as cross-disciplinary tools with multiple applications in an expanding Life Sciences market. The cis-regulatory sequences (CRSs) that control the transcription in EVs are typically sourced from either viruses or from characterized genes. However, the recent advancement in transposable elements (TEs) technology provides attractive alternatives that may enable a significant improvement in the design of EVs. Commonly known as "jumping genes," due to their ability to move between genetic loci, TEs are constitutive components of both eukaryotic and prokaryotic genomes. TEs harbor native CRSs that allow the regulated transcription of transposition-related genes. However, some TE-related CRSs display striking characteristics, which provides the opportunity to reconsider TEs as lead actors in the design of EVs. In this article, we provide a synopsis of the transcriptional control elements commonly found in EVs together with an extensive discussion of their advantages and limitations. We also highlight the latest findings that may allow for the implementation of TE-derived sequences in the EVs feasible, possibly improving existing vectors. By introducing this new concept of TEs as a source of regulatory sequences, we aim to stimulate a profitable discussion of the potential advantages and benefits of developing a new generation of EVs based on the use of TE-derived control sequences.
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Affiliation(s)
- Antonio Palazzo
- Laboratory of Translational Nanotechnology, "Istituto Tumori Giovanni Paolo II" I.R.C.C.S, Bari, Italy
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24
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Lin YC, Shangdiar S, Chen SC, Cho CA, Datov A. A study on different parameters affecting the saccharification rate of Typha orientalis pretreated with Ionic Liquids (ILs) and microwave irradiation for bioethanol production by using response surface methodology. CATAL COMMUN 2021. [DOI: 10.1016/j.catcom.2020.106265] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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25
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Tingley JP, Low KE, Xing X, Abbott DW. Combined whole cell wall analysis and streamlined in silico carbohydrate-active enzyme discovery to improve biocatalytic conversion of agricultural crop residues. BIOTECHNOLOGY FOR BIOFUELS 2021; 14:16. [PMID: 33422151 PMCID: PMC7797155 DOI: 10.1186/s13068-020-01869-8] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2020] [Accepted: 12/24/2020] [Indexed: 05/08/2023]
Abstract
The production of biofuels as an efficient source of renewable energy has received considerable attention due to increasing energy demands and regulatory incentives to reduce greenhouse gas emissions. Second-generation biofuel feedstocks, including agricultural crop residues generated on-farm during annual harvests, are abundant, inexpensive, and sustainable. Unlike first-generation feedstocks, which are enriched in easily fermentable carbohydrates, crop residue cell walls are highly resistant to saccharification, fermentation, and valorization. Crop residues contain recalcitrant polysaccharides, including cellulose, hemicelluloses, pectins, and lignin and lignin-carbohydrate complexes. In addition, their cell walls can vary in linkage structure and monosaccharide composition between plant sources. Characterization of total cell wall structure, including high-resolution analyses of saccharide composition, linkage, and complex structures using chromatography-based methods, nuclear magnetic resonance, -omics, and antibody glycome profiling, provides critical insight into the fine chemistry of feedstock cell walls. Furthermore, improving both the catalytic potential of microbial communities that populate biodigester reactors and the efficiency of pre-treatments used in bioethanol production may improve bioconversion rates and yields. Toward this end, knowledge and characterization of carbohydrate-active enzymes (CAZymes) involved in dynamic biomass deconstruction is pivotal. Here we overview the use of common "-omics"-based methods for the study of lignocellulose-metabolizing communities and microorganisms, as well as methods for annotation and discovery of CAZymes, and accurate prediction of CAZyme function. Emerging approaches for analysis of large datasets, including metagenome-assembled genomes, are also discussed. Using complementary glycomic and meta-omic methods to characterize agricultural residues and the microbial communities that digest them provides promising streams of research to maximize value and energy extraction from crop waste streams.
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Affiliation(s)
- Jeffrey P Tingley
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, 5403-1st Avenue South, Lethbridge, AB, T1J 4B1, Canada
- Department of Biochemistry, University of Lethbridge, Lethbridge, AB, T1K 6T5, Canada
| | - Kristin E Low
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, 5403-1st Avenue South, Lethbridge, AB, T1J 4B1, Canada
| | - Xiaohui Xing
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, 5403-1st Avenue South, Lethbridge, AB, T1J 4B1, Canada
| | - D Wade Abbott
- Lethbridge Research and Development Centre, Agriculture and Agri-Food Canada, 5403-1st Avenue South, Lethbridge, AB, T1J 4B1, Canada.
- Department of Biochemistry, University of Lethbridge, Lethbridge, AB, T1K 6T5, Canada.
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Qin H, Ma C, Gärtner S, Headen TF, Zuo T, Jiao G, Han Z, Imberti S, Han CC, Cheng H. Neutron total scattering investigation on the dissolution mechanism of trehalose in NaOH/urea aqueous solution. STRUCTURAL DYNAMICS (MELVILLE, N.Y.) 2021; 8:014901. [PMID: 33644253 PMCID: PMC7889297 DOI: 10.1063/4.0000065] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/08/2020] [Accepted: 01/19/2021] [Indexed: 06/12/2023]
Abstract
Trehalose is chosen as a model molecule to investigate the dissolution mechanism of cellulose in NaOH/urea aqueous solution. The combination of neutron total scattering and empirical potential structure refinement yields the most probable all-atom positions in the complex fluid and reveals the cooperative dynamic effects of NaOH, urea, and water molecules in the dissolution process. NaOH directly interacts with glucose rings by breaking the inter- and intra-molecular hydrogen bonding. Na+, thus, accumulates around electronegative oxygen atoms in the hydration shell of trehalose. Its local concentration is thereby 2-9 times higher than that in the bulk fluid. Urea molecules are too large to interpenetrate into trehalose and too complex to form hydrogen bonds with trehalose. They can only participate in the formation of the hydration shell around trehalose via Na+ bridging. As the main component in the complex fluid, water molecules have a disturbed tetrahedral structure in the presence of NaOH and urea. The structure of the mixed solvent does not change when it is cooled to -12 °C. This indicates that the dissolution may be a dynamic process, i.e., a competition between hydration shell formation and inter-molecule hydrogen bonding determines its dissolution. We, therefore, predict that alkali with smaller ions, such as LiOH, has better solubility for cellulose.
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Affiliation(s)
| | - Changli Ma
- Authors to whom correspondence should be addressed: and
| | - Sabrina Gärtner
- STFC ISIS Facility, Rutherford Appleton Laboratory, Didcot OX11 0QX, United Kingdom
| | - Thomas F. Headen
- STFC ISIS Facility, Rutherford Appleton Laboratory, Didcot OX11 0QX, United Kingdom
| | | | | | | | - Silvia Imberti
- STFC ISIS Facility, Rutherford Appleton Laboratory, Didcot OX11 0QX, United Kingdom
| | - Charles C. Han
- Institute for Advanced Study, Shenzhen University, Shenzhen 508060, China
| | - He Cheng
- Authors to whom correspondence should be addressed: and
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Biological Characterization and Instrumental Analytical Comparison of Two Biorefining Pretreatments for Water Hyacinth (Eichhornia crassipes) Biomass Hydrolysis. SUSTAINABILITY 2020. [DOI: 10.3390/su13010245] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Water hyacinth is a rapidly growing troublesome aquatic weed plant, which causes eutrophication in water bodies and irreversible damage to the ecological system. In this work, we have investigated the water hyacinth biomass (WHB) hydrolysis efficacy of dilute alkaline (DA) pretreatment followed by biological pretreatment with white-rot fungus Alternaria alternata strain AKJK-2. The effectiveness of the dilute alkaline (DA) and biological pretreatment process on WHB was confirmed by using X-ray Diffraction (XRD) and Fourier Transform Infrared Spectrophotometer (FTIR), and was further visualized by Scanning Electron Microscope (SEM) and Confocal Laser Scanning Microscopy (CLSM). XRD spectra showed the increase in the crystallinity of pretreated samples, attributed to the elimination of amorphous components as lignin and hemicellulose. FTIR peak analysis of pre-treated WHB showed substantial changes in the absorption of cellulose functional groups and the elimination of lignin signals. Scanning electron microscopy (SEM) images showed firm, compact, highly ordered, and rigid fibril structures without degradation in the untreated WHB sample, while the pretreated samples exhibited loose, dispersed, and distorted structures. XRD indices (Segal, Landis, and Faneite), and FTIR indices [Hydrogen bond intensity (HBI); Total crystallinity index (TCI); and Lateral order crystallinity (LOI)] results were similar to the aforementioned results, and also showed an increase in the crystallinity both in alkaline and biological pretreatments. Alkaline pretreated WHB, with these indices, also showed the highest crystallinity and a crystalline allomorphs mixture of cellulose I (native) and cellulose II. These results were further validated by the CLSM, wherein fluorescent signals were lost after the pretreatment of WHB over control. Overall, these findings showed the significant potential of integrated assessment tools with chemical and biological pretreatment for large-scale utilization and bioconversion of this potential aquatic weed for bioenergy production.
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Fragment-derived modulators of an industrial β-glucosidase. Biochem J 2020; 477:4383-4395. [PMID: 33111951 PMCID: PMC7702302 DOI: 10.1042/bcj20200507] [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: 07/06/2020] [Revised: 10/26/2020] [Accepted: 10/27/2020] [Indexed: 11/17/2022]
Abstract
A fragment screen of a library of 560 commercially available fragments using a kinetic assay identified a small molecule that increased the activity of the fungal glycoside hydrolase TrBgl2. An analogue by catalogue approach and detailed kinetic analysis identified improved compounds that behaved as nonessential activators with up to a 2-fold increase in maximum activation. The compounds did not activate the related bacterial glycoside hydrolase CcBglA demonstrating specificity. Interestingly, an analogue of the initial fragment inhibits both TrBgl2 and CcBglA, apparently through a mixed-model mechanism. Although it was not possible to determine crystal structures of activator binding to 55 kDa TrBgl2, solution NMR experiments demonstrated a specific binding site for the activator. A partial assignment of the NMR spectrum gave the identity of the amino acids at this site, allowing a model for TrBgl2 activation to be built. The activator binds at the entrance of the substrate-binding site, generating a productive conformation for the enzyme-substrate complex.
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Metabolic Checkpoint Aldehyde Dehydrogenases Are Important for Diverting β-Oxidation into 1-Butanol Biosynthesis from Kitchen Waste Oil in Pseudomonas aeruginosa. Appl Biochem Biotechnol 2020; 193:730-742. [PMID: 33180312 DOI: 10.1007/s12010-020-03456-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Accepted: 11/08/2020] [Indexed: 10/23/2022]
Abstract
1-Butanol (1-BD) is a promising fuel additive which can be biosynthesized via reversed β-oxidation pathway in bacteria. However, heterologous reversed β-oxidation pathway is a carbon chain prolongation process with several genes overexpressed in most of bacterial hosts, leading to low titer of 1-BD and high cost for production. Here we displayed a forward β-oxidation pathway for 1-BD production in a kitchen waste oil (KWO) degrading Pseudomonas aeruginosa PA-3, and we proved that aldehyde dehydrogenase (ALDH) is a checkpoint for diverting metabolic flux into 1-BD biosynthesis. With nitrogen source supplied, titer of 1-BD was increased accompanied with 12 ALDH coding genes transcriptionally promoted to different degrees. At the same time, binding energies of these ALDHs with different length of acyl-CoAs in β-oxidation were calculated to identify their specificities. Based on the above information, ALDH deletions were conducted. We certified that deletion of ALDH8 and ALDH9 led to significant decreased titers of 1-BD. Finally, these two ALDHs were separately overexpressed in PA-3, and titer of 1-BD was promoted to 1.36 g/L at 72 h in shake flask. Totally in this work, we provided a forward β-oxidation pathway for 1-BD production from KWO, and the roles of ALDHs were confirmed.
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Xu P, Cheng S, Han Y, Zhao D, Li H, Wang Y, Zhang G, Chen C. Natural Variation of Lignocellulosic Components in Miscanthus Biomass in China. Front Chem 2020; 8:595143. [PMID: 33251186 PMCID: PMC7674668 DOI: 10.3389/fchem.2020.595143] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2020] [Accepted: 10/07/2020] [Indexed: 11/13/2022] Open
Abstract
Lignocellulose content is an important factor affecting the conversion efficiency of biomass energy plants. In this study, 179 Miscanthus accessions in China were used to determine the content of lignocellulose components in stems via acid hydrolysis and high-performance liquid chromatography. Results showed that the average lignocellulose content of wild Miscanthus germplasm resources was 80.27 ± 6.51%, and the average content of cellulose, hemicellulose, lignin, extracts, and total ash was 38.38 ± 3.52, 24.23 ± 4.21, 17.66 ± 1.56, 14.50 ± 5.60, and 2.53 ± 0.59%, respectively. The average lignocellulose content of M. sinensis, M. floridulus, M. nudipes, M. sacchariflorus, M. lutarioriparius, and the hybrids was 77.94 ± 6.06, 75.16 ± 4.98, 75.68 ± 3.02, 83.71 ± 4.78, 81.50 ± 5.23, and 74.72 ± 7.13%, respectively. In all the tested materials, the highest cellulose content was 48.52%, and the lowest was 29.79%. Hemicellulose had the maximum content of 34.23% and a minimum content of 15.71%. The highest lignin content was 23.75%, and the lowest was 13.01%. The lignocellulosic components of different ploidy materials were compared. The content of lignocellulosic components of diploid M. sacchariflorus was higher than that of tetraploid M. sacchariflorus, and the content of lignocellulosic components of diploid M. lutarioriparius was lower than that of tetraploid M. lutarioriparius. Analysis of the relationship between the changes in lignocellulosic components and geographical locations of Miscanthus showed that the holocellulose and hemicellulose content was significantly positive correlated with the latitude of the original growth location. Results indicated that the lignocellulosic components of Miscanthus resources in China are rich in genetic diversity.
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Affiliation(s)
- Pingping Xu
- State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, China.,College of Agronomy, Shandong Agricultural University, Taian, China
| | - Senan Cheng
- State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, China.,College of Agronomy, Shandong Agricultural University, Taian, China
| | - Yanbin Han
- State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, China.,College of Agronomy, Shandong Agricultural University, Taian, China
| | - Dongbo Zhao
- State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, China
| | - Hongfei Li
- State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, China
| | - Yancui Wang
- State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, China.,College of Agronomy, Shandong Agricultural University, Taian, China
| | - Guobin Zhang
- State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, China.,College of Agronomy, Shandong Agricultural University, Taian, China
| | - Cuixia Chen
- State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, China.,College of Agronomy, Shandong Agricultural University, Taian, China
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Ma T, Hu X, Lu S, Liao X, Song Y, Hu X. Nanocellulose: a promising green treasure from food wastes to available food materials. Crit Rev Food Sci Nutr 2020; 62:989-1002. [DOI: 10.1080/10408398.2020.1832440] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Tao Ma
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
- National Engineering Research Center for Fruits and Vegetables Processing, Beijing, China
- Key Laboratory of Fruits and Vegetables Processing, Ministry of Agriculture, Beijing, China
| | - Xinna Hu
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
- National Engineering Research Center for Fruits and Vegetables Processing, Beijing, China
- Key Laboratory of Fruits and Vegetables Processing, Ministry of Agriculture, Beijing, China
| | - Shuyu Lu
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
- National Engineering Research Center for Fruits and Vegetables Processing, Beijing, China
- Key Laboratory of Fruits and Vegetables Processing, Ministry of Agriculture, Beijing, China
| | - Xiaojun Liao
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
- National Engineering Research Center for Fruits and Vegetables Processing, Beijing, China
- Key Laboratory of Fruits and Vegetables Processing, Ministry of Agriculture, Beijing, China
| | - Yi Song
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
- National Engineering Research Center for Fruits and Vegetables Processing, Beijing, China
- Key Laboratory of Fruits and Vegetables Processing, Ministry of Agriculture, Beijing, China
| | - Xiaosong Hu
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
- National Engineering Research Center for Fruits and Vegetables Processing, Beijing, China
- Key Laboratory of Fruits and Vegetables Processing, Ministry of Agriculture, Beijing, China
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32
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Makraki E, Carneiro MG, Heyam A, Eiso AB, Siegal G, Hubbard RE. 1H, 13C, 15N backbone and IVL methyl group resonance assignment of the fungal β-glucosidase from Trichoderma reesei. BIOMOLECULAR NMR ASSIGNMENTS 2020; 14:265-268. [PMID: 32562251 PMCID: PMC7462900 DOI: 10.1007/s12104-020-09959-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2020] [Accepted: 05/16/2020] [Indexed: 05/13/2023]
Abstract
β-glucosidases have received considerable attention due to their essential role in bioethanol production from lignocellulosic biomass. β-glucosidase can hydrolyse cellobiose in cellulose degradation and its low activity has been considered as one of the main limiting steps in the process. Large-scale conversions of cellulose therefore require high enzyme concentration which increases the cost. β-glucosidases with improved activity and thermostability are therefore of great commercial interest. The fungus Trichoderma reseei expresses thermostable cellulolytic enzymes which have been widely studied as attractive targets for industrial applications. Genetically modified β-glucosidases from Trichoderma reseei have been recently commercialised. We have developed an approach in which screening of low molecular weight molecules (fragments) identifies compounds that increase enzyme activity and are currently characterizing fragment-based activators of TrBgl2. A structural analysis of the 55 kDa apo form of TrBgl2 revealed a classical (α/β)8-TIM barrel fold. In the present study we present a partial assignment of backbone chemical shifts, along with those of the Ile (I)-Val (V)-Leu (L) methyl groups of TrBgl2. These data will be used to characterize the interaction of TrBgl2 with the small molecule activators.
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Affiliation(s)
- Eleni Makraki
- YSBL, Department of Chemistry, University of York, Heslington, York, UK
| | | | - Alex Heyam
- YSBL, Department of Chemistry, University of York, Heslington, York, UK
| | - A B Eiso
- ZoBio BV, J.H. Oortweg 19, 2333 CH, Leiden, The Netherlands
| | - Gregg Siegal
- ZoBio BV, J.H. Oortweg 19, 2333 CH, Leiden, The Netherlands
- Division of Medicinal Chemistry, Amsterdam Institute for Molecules, Medicines and Systems (AIMMS), Vrije Universiteit, De Boelelaan 1108, 1081 HZ, Amsterdam, Netherlands
| | - Roderick E Hubbard
- YSBL, Department of Chemistry, University of York, Heslington, York, UK.
- Vernalis Research, Granta Park, Abington, Cambridge, UK.
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33
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Hefferon K, Cantero-Tubilla B, Badar U, Wilson DW. Plant-Based Cellulase Assay Systems as Alternatives for Synthetic Substrates. Appl Biochem Biotechnol 2020; 192:1318-1330. [PMID: 32734581 DOI: 10.1007/s12010-020-03395-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2020] [Accepted: 07/16/2020] [Indexed: 11/25/2022]
Abstract
Dissociative enzymes such as cellulases are greatly desired for a variety of applications in the food, fuel, and fiber industries. Cellulases and other cell wall-degrading enzymes are currently being engineered with improved traits for application in the breakdown of lignocellulosic biomass. Biochemical assays using these "designer" enzymes have traditionally been carried out using synthetic substrates such as crystalline bacterial microcellulose (BMCC). However, the use of synthetic substrates may not reflect the actual action of these cellulases on real plant biomass. We examined the potential of suspension cell walls from several plant species as possible alternatives for synthetic cellulose substrates. Suspension cells grow synchronously; hence, their cell walls are more uniform than those derived from mature plants. This work will help to establish a new assay system that is more genuine than using synthetic substrates. In addition to this, we have demonstrated that it is feasible to produce cellulases inexpensively and at high concentrations and activities in plants using a recombinant plant virus expression system. Our long-term goals are to use this system to develop tailored cocktails of cellulases that have been engineered to function optimally for specific tasks (i.e., the conversion of biomass into biofuel or the enhancement of nutrients available in livestock feed). The broad impact would be to provide a facile and economic system for generating industrial enzymes that offer green solutions to valorize biomass in industrialized communities and specifically in developing countries.
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Affiliation(s)
- Kathleen Hefferon
- Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY, 14850, USA.
| | - Borja Cantero-Tubilla
- Robert Frederick Smith School of Chemical and Biomolecular Engineering, Cornell University, Ithaca, NY, 14850, USA
| | - Uzma Badar
- Cell and Systems Biology, University of Toronto, Toronto, Canada
| | - David W Wilson
- Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY, 14850, USA
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34
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Tong P, Huai B, Chen Y, Bai M, Wu H. CisPG21 and CisCEL16 are involved in the regulation of the degradation of cell walls during secretory cavity cell programmed cell death in the fruits of Citrus sinensis (L.) Osbeck. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2020; 297:110540. [PMID: 32563470 DOI: 10.1016/j.plantsci.2020.110540] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2020] [Revised: 05/18/2020] [Accepted: 05/21/2020] [Indexed: 06/11/2023]
Abstract
Pectinase and cellulase participate in cell wall degradation during secretory cavity formation in Citrus fruits. However, it remains unknown how secretory cavity formation is regulated by pectinase and cellulase genes in a schizolysigenous model. Our Results showed that PCD was involved in the schizolysigenous formation of the secretory cavities, and pectinase was involved in the degradation of the middle lamella while pectinase combined with cellulase were responsible for the degradation of the primary cell wall. Furthermore, the expression levels of CisPG21 and CisCEL16 at the intercellular space-forming and lumen-expanding stages with the continuous degradation of the cell wall were significantly higher than those at the initial cell stage and mature stage. The in situ hybridization (ISH) results also showed that CisPG21 and CisCEL16 were mainly located in the degrading cells of secretory cavities, and signals were very strong at the intercellular space-forming and lumen-expanding stages. In conclusion, pectinase and cellulase are directly involved in the degradation of PCD cell walls during schizolysigenous formation in the secretary cavity of Citrus sinensis (L.) Osbeck fruit, while CisPG21 and CisCEL16 are important regulatory genes of pectinase and cellulose during cell wall degradation.
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Affiliation(s)
- Panpan Tong
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Sciences, South China Agricultural University, Guangzhou, 510642, China.
| | - Bin Huai
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Sciences, South China Agricultural University, Guangzhou, 510642, China.
| | - Ying Chen
- Shaanxi University of Chinese Medicine, Xianyang, 712046, China.
| | - Mei Bai
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Sciences, South China Agricultural University, Guangzhou, 510642, China.
| | - Hong Wu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Sciences, South China Agricultural University, Guangzhou, 510642, China; Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry, South China Agricultural University, Guangzhou, 510642, China.
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35
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Zhou P, Chao Y, Lv F, Wang K, Zhang W, Zhou J, Chen H, Wang L, Li Y, Zhang Q, Gu L, Guo S. Metal Single Atom Strategy Greatly Boosts Photocatalytic Methyl Activation and C–C Coupling for the Coproduction of High-Value-Added Multicarbon Compounds and Hydrogen. ACS Catal 2020. [DOI: 10.1021/acscatal.0c01192] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Peng Zhou
- Department of Materials Science and Engineering, Peking University, Beijing 100871, China
- Beijing Innovation Center for Engineering Science and Advanced Technology, Peking University, Beijing 100871, China
| | - Yuguang Chao
- Department of Materials Science and Engineering, Peking University, Beijing 100871, China
| | - Fan Lv
- Department of Materials Science and Engineering, Peking University, Beijing 100871, China
| | - Kai Wang
- Department of Materials Science and Engineering, Peking University, Beijing 100871, China
| | - Weiyu Zhang
- Department of Materials Science and Engineering, Peking University, Beijing 100871, China
| | - Jinhui Zhou
- Department of Materials Science and Engineering, Peking University, Beijing 100871, China
| | - Hui Chen
- Department of Materials Science and Engineering, Peking University, Beijing 100871, China
| | - Liang Wang
- Department of Materials Science and Engineering, Peking University, Beijing 100871, China
| | - Yiju Li
- Department of Materials Science and Engineering, Peking University, Beijing 100871, China
| | - Qinghua Zhang
- Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China
| | - Lin Gu
- Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China
| | - Shaojun Guo
- Department of Materials Science and Engineering, Peking University, Beijing 100871, China
- Beijing Innovation Center for Engineering Science and Advanced Technology, Peking University, Beijing 100871, China
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Fungus-growing insects host a distinctive microbiota apparently adapted to the fungiculture environment. Sci Rep 2020; 10:12384. [PMID: 32709946 PMCID: PMC7381635 DOI: 10.1038/s41598-020-68448-7] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2019] [Accepted: 06/24/2020] [Indexed: 01/09/2023] Open
Abstract
Some lineages of ants, termites, and beetles independently evolved a symbiotic association with lignocellulolytic fungi cultivated for food, in a lifestyle known as fungiculture. Fungus-growing insects' symbiosis also hosts a bacterial community thought to integrate their physiology. Similarities in taxonomic composition support the microbiota of fungus-growing insects as convergent, despite differences in fungus-rearing by these insects. Here, by comparing fungus-growing insects to several hosts ranging diverse dietary patterns, we investigate whether the microbiota taxonomic and functional profiles are characteristic of the fungiculture environment. Compared to other hosts, the microbiota associated with fungus-growing insects presents a distinctive taxonomic profile, dominated by Gammaproteobacteria at class level and by Pseudomonas at genera level. Even with a functional profile presenting similarities with the gut microbiota of herbivorous and omnivorous hosts, some differentially abundant features codified by the microbiota of fungus-growing insects suggest these communities occupying microhabitats that are characteristic of fungiculture. These features include metabolic pathways involved in lignocellulose breakdown, detoxification of plant secondary metabolites, metabolism of simple sugars, fungal cell wall deconstruction, biofilm formation, antimicrobials biosynthesis, and metabolism of diverse nutrients. Our results suggest that the microbiota could be functionally adapted to the fungiculture environment, codifying metabolic pathways potentially relevant to the fungus-growing insects' ecosystems functioning.
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Yamada T, Teranishi W, Park K, Jiang J, Tachikawa T, Furusato S, Sajiki H. Development of Carbon‐Neutral Cellulose‐Supported Heterogeneous Palladium Catalysts for Chemoselective Hydrogenation. ChemCatChem 2020. [DOI: 10.1002/cctc.202000805] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Tsuyoshi Yamada
- Laboratory of Organic Chemistry Gifu Pharmaceutical University 1-25-4 Daigaku-nishi Gifu 501-1196 Japan
| | - Wataru Teranishi
- Laboratory of Organic Chemistry Gifu Pharmaceutical University 1-25-4 Daigaku-nishi Gifu 501-1196 Japan
| | - Kwihwan Park
- Laboratory of Organic Chemistry Gifu Pharmaceutical University 1-25-4 Daigaku-nishi Gifu 501-1196 Japan
| | - Jing Jiang
- Laboratory of Organic Chemistry Gifu Pharmaceutical University 1-25-4 Daigaku-nishi Gifu 501-1196 Japan
| | - Takumu Tachikawa
- Laboratory of Organic Chemistry Gifu Pharmaceutical University 1-25-4 Daigaku-nishi Gifu 501-1196 Japan
| | - Shinichi Furusato
- Production engineering department JNC Corporation 1-1 Noguchi, Minamata Kumamoto 867-8501 Japan
| | - Hironao Sajiki
- Laboratory of Organic Chemistry Gifu Pharmaceutical University 1-25-4 Daigaku-nishi Gifu 501-1196 Japan
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38
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Novel Routes in Transformation of Lignocellulosic Biomass to Furan Platform Chemicals: From Pretreatment to Enzyme Catalysis. Catalysts 2020. [DOI: 10.3390/catal10070743] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
Abstract
The constant depletion of fossil fuels along with the increasing need for novel materials, necessitate the development of alternative routes for polymer synthesis. Lignocellulosic biomass, the most abundant carbon source on the planet, can serve as a renewable starting material for the design of environmentally-friendly processes for the synthesis of polyesters, polyamides and other polymers with significant value. The present review provides an overview of the main processes that have been reported throughout the literature for the production of bio-based monomers from lignocellulose, focusing on physicochemical procedures and biocatalysis. An extensive description of all different stages for the production of furans is presented, starting from physicochemical pretreatment of biomass and biocatalytic decomposition to monomeric sugars, coupled with isomerization by enzymes prior to chemical dehydration by acid Lewis catalysts. A summary of all biotransformations of furans carried out by enzymes is also described, focusing on galactose, glyoxal and aryl-alcohol oxidases, monooxygenases and transaminases for the production of oxidized derivatives and amines. The increased interest in these products in polymer chemistry can lead to a redirection of biomass valorization from second generation biofuels to chemical synthesis, by creating novel pathways to produce bio-based polymers.
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39
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Hassan MM, Yuan G, Chen JG, Tuskan GA, Yang X. Prime Editing Technology and Its Prospects for Future Applications in Plant Biology Research. BIODESIGN RESEARCH 2020; 2020:9350905. [PMID: 37849904 PMCID: PMC10530660 DOI: 10.34133/2020/9350905] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2020] [Accepted: 05/19/2020] [Indexed: 10/19/2023] Open
Abstract
Many applications in plant biology requires editing genomes accurately including correcting point mutations, incorporation of single-nucleotide polymorphisms (SNPs), and introduction of multinucleotide insertion/deletions (indels) into a predetermined position in the genome. These types of modifications are possible using existing genome-editing technologies such as the CRISPR-Cas systems, which require induction of double-stranded breaks in the target DNA site and the supply of a donor DNA molecule that contains the desired edit sequence. However, low frequency of homologous recombination in plants and difficulty of delivering the donor DNA molecules make this process extremely inefficient. Another kind of technology known as base editing can perform precise editing; however, only certain types of modifications can be obtained, e.g., C/G-to-T/A and A/T-to-G/C. Recently, a new type of genome-editing technology, referred to as "prime editing," has been developed, which can achieve various types of editing such as any base-to-base conversion, including both transitions (C→T, G→A, A→G, and T→C) and transversion mutations (C→A, C→G, G→C, G→T, A→C, A→T, T→A, and T→G), as well as small indels without the requirement for inducing double-stranded break in the DNA. Because prime editing has wide flexibility to achieve different types of edits in the genome, it holds a great potential for developing superior crops for various purposes, such as increasing yield, providing resistance to various abiotic and biotic stresses, and improving quality of plant product. In this review, we describe the prime editing technology and discuss its limitations and potential applications in plant biology research.
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Affiliation(s)
- Md. Mahmudul Hassan
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge TN 37831, USA
- Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA
- Department of Genetics and Plant Breeding, Patuakhali Science and Technology University, Dumki, Patuakhali 8602, Bangladesh
| | - Guoliang Yuan
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge TN 37831, USA
- Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA
| | - Jin-Gui Chen
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge TN 37831, USA
- Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA
| | - Gerald A. Tuskan
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge TN 37831, USA
- Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA
| | - Xiaohan Yang
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge TN 37831, USA
- Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA
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40
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Miyamoto T, Tsuchiya K, Numata K. Dual Peptide-Based Gene Delivery System for the Efficient Transfection of Plant Callus Cells. Biomacromolecules 2020; 21:2735-2744. [PMID: 32432860 DOI: 10.1021/acs.biomac.0c00481] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Owing to their diverse functions and tunable physicochemical properties, peptides are promising alternatives to the conventional gene delivery tools that are available for plant systems. However, peptide-mediated gene delivery is limited by low transfection efficiency in plants because of the insufficient cytosolic translocation of DNA cargo. Here, we report a dual peptide-based gene delivery system for the efficient transfection of plant callus cells. This system is based on the combination of an artificial peptide composed of cationic cell-penetrating and hydrophobic endosomal escape domains with a gene carrier peptide composed of amphiphilic cell-penetrating and cationic DNA-binding domains. Cellular internalization and transfection studies revealed that this dual peptide-based system enables more efficient transfection of callus cells than does a carrier peptide alone by enhancing the endocytic uptake and subsequent cytosolic translocation of a carrier peptide/DNA complex. The present strategy will expand the utility of peptide-mediated plant gene delivery for a wide range of applications and basic research.
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Affiliation(s)
- Takaaki Miyamoto
- Biomacromolecules Research Team, RIKEN Center for Sustainable Resource Science, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan
| | - Kousuke Tsuchiya
- Biomacromolecules Research Team, RIKEN Center for Sustainable Resource Science, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan
| | - Keiji Numata
- Biomacromolecules Research Team, RIKEN Center for Sustainable Resource Science, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan.,Department of Material Chemistry, Graduate School of Engineering, Kyoto University, Kyoto-Daigaku-Katsura, Nishikyo-ku, Kyoto 615-8510, Japan
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41
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Okokpujie IP, Akinlabi ET, Fayomi OO. Assessing the policy issues relating to the use of bamboo in the construction industry in Nigeria. Heliyon 2020; 6:e04042. [PMID: 32478193 PMCID: PMC7248667 DOI: 10.1016/j.heliyon.2020.e04042] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2019] [Revised: 10/20/2019] [Accepted: 05/19/2020] [Indexed: 10/26/2022] Open
Abstract
The Nigerian government has promoted industrial development based on the area of policy implementation. The development of policy and the use of bamboo in the construction company is very significant because of the role of bamboo cultivation in reducing environmental pollution. Bamboo, in its existence, applies to the environment in absorbing carbon dioxide of about 35% and releases to the environment a high amount of oxygen. This carbon dioxide absorbs by bamboo reduces the ozone layer depletion in the aspect of climate change. Another significance of bamboo is that it creates an environment that reduces the light intensity to protect against ultraviolet emissions. The use of Bamboo is considerable in the construction industry and also as useful reinforcement material. This research discusses the effects of policy issues relating to the use of bamboo in the construction industry in Nigeria. And also, study the significance of bamboo implementation in terms of bamboo used for biomass as a source for bio-energy, furniture, and building development. Also, how bamboo cultivation will affect economic growth in Nigeria. This study also discusses the three policy dimensions as it pertains to implementing bamboo policy in Nigeria and suggested ways of developing bamboo policy for proper regulations.
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Affiliation(s)
- I P Okokpujie
- Department of Mechanical Engineering, Covenant University, Ota, Ogun State, Nigeria
| | - E T Akinlabi
- Department of Mechanical Engineering, Covenant University, Ota, Ogun State, Nigeria.,University of Johannesburg, Department of Mechanical Engineering Science, P. O. Box 524, Auckland Park, 2006, South Africa
| | - O O Fayomi
- Department of Political Science and International Relations, College of Leadership Development Studies, Covenant University, Ota, Ogun State, Nigeria
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Patel M, Patel HM, Dave S. Determination of bioethanol production potential from lignocellulosic biomass using novel Cel-5m isolated from cow rumen metagenome. Int J Biol Macromol 2020; 153:1099-1106. [DOI: 10.1016/j.ijbiomac.2019.10.240] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2019] [Revised: 10/13/2019] [Accepted: 10/25/2019] [Indexed: 11/17/2022]
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Cho EJ, Nguyen QA, Lee YG, Song Y, Park BJ, Bae HJ. Enhanced Biomass Yield of and Saccharification in Transgenic Tobacco Over-Expressing β-Glucosidase. Biomolecules 2020; 10:E806. [PMID: 32456184 PMCID: PMC7278181 DOI: 10.3390/biom10050806] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2020] [Revised: 05/21/2020] [Accepted: 05/21/2020] [Indexed: 11/16/2022] Open
Abstract
Here, we report an increase in biomass yield and saccharification in transgenic tobacco plants (Nicotiana tabacumL.) overexpressing thermostable β-glucosidase from Thermotoga maritima, BglB, targeted to the chloroplasts and vacuoles. The transgenic tobacco plants showed phenotypic characteristics that were significantly different from those of the wild-type plants. The biomass yield and life cycle (from germination to flowering and harvest) of the transgenic tobacco plants overexpressing BglB were 52% higher and 36% shorter than those of the wild-type tobacco plants, respectively, indicating a change in the genome transcription levels in the transgenic tobacco plants. Saccharification in biomass samples from the transgenic tobacco plants was 92% higher than that in biomass samples from the wild-type tobacco plants. The transgenic tobacco plants required a total investment (US$/year) corresponding to 52.9% of that required for the wild-type tobacco plants, but the total biomass yield (kg/year) of the transgenic tobacco plants was 43% higher than that of the wild-type tobacco plants. This approach could be applied to other plants to increase biomass yields and overproduce β-glucosidase for lignocellulose conversion.
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Affiliation(s)
- Eun Jin Cho
- Bio-Energy Research Center, Chonnam National University, Gwangju 61186, Korea; (E.J.C.); (Q.A.N.); (Y.S.)
| | - Quynh Anh Nguyen
- Bio-Energy Research Center, Chonnam National University, Gwangju 61186, Korea; (E.J.C.); (Q.A.N.); (Y.S.)
| | - Yoon Gyo Lee
- Department of Bioenergy science and Technology, Chonnam National University, Gwangju 61186, Korea;
| | - Younho Song
- Bio-Energy Research Center, Chonnam National University, Gwangju 61186, Korea; (E.J.C.); (Q.A.N.); (Y.S.)
| | - Bok Jae Park
- Division of Business and Commerce, Chonnam National University, Yeosu 500-749, Korea;
| | - Hyeun-Jong Bae
- Bio-Energy Research Center, Chonnam National University, Gwangju 61186, Korea; (E.J.C.); (Q.A.N.); (Y.S.)
- Department of Bioenergy science and Technology, Chonnam National University, Gwangju 61186, Korea;
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Varela Villarreal J, Burgués C, Rösch C. Acceptability of genetically engineered algae biofuels in Europe: opinions of experts and stakeholders. BIOTECHNOLOGY FOR BIOFUELS 2020; 13:92. [PMID: 32489422 PMCID: PMC7245023 DOI: 10.1186/s13068-020-01730-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/10/2019] [Accepted: 05/12/2020] [Indexed: 06/11/2023]
Abstract
BACKGROUND The development of alternative pathways for sustainable fuel production is a crucial task for politics, industry and research, since the current use of fossil fuels contributes to resource depletion and climate change. Microalgae are a promising option, but the technology readiness level (TRL) is low and cannot compete economically with fossil fuels. Novel genetic engineering technologies are being investigated to improve productivity and reduce the cost of harvesting products extracted from or excreted by microalgae for fuel production. However, high resource efficiency and low costs alone are no guarantee that algae fuels will find their way into the market. Technologies must be accepted by the public to become valuable for society. Despite strong efforts in algae research and development, as well as political commitments at different scales to promote algae biofuels for transport sectors, little is known about public acceptance of this alternative transport fuel. Despite the advantages of algae technology, genetically engineered (GE) microalgae can be controversial in Europe due to risk perception. Therefore, the aim of this study was to investigate, for the first time, the knowledge and views of European experts and stakeholders on the conditions and requirements for acceptability of GE microalgae for next generation biofuel production. RESULTS The results of the survey-based study indicate that the majority of the respondents believe that GE algae biofuels could provide strong benefits compared to other fuels. The majority would choose to be final consumers of engineered algae biofuels, if there is clear evidence of their benefits and open communication of potential risks. They believe that closed production systems with high security standards and rigorous risk assessment should be applied to avoid unintended impacts on humans and nature. Some respondents, however, are not convinced about the need to alter natural occurring algae strains to increase productivity, arguing that there is a huge unexplored variety, and that the consequences of using genome editing are still unknown. CONCLUSIONS This evaluation of the opinions held by European experts and stakeholders regarding GE algae biofuels provides valuable and differentiated insights, both for future research and for the development of feasible socio-technical algae systems for next generation biofuel production. The identified conditions and requirements for achieving public acceptability can support the (re-)design of this innovative technology and adaptation of the framework conditions towards the implementation of algae biofuels in Europe.
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Affiliation(s)
- Jessica Varela Villarreal
- Institute for Technology Assessment and Systems Analysis (ITAS), Karlsruhe Institute of Technology (KIT), Karlstr.11, 76133 Karlsruhe, Germany
| | - Cecilia Burgués
- Institute for Technology Assessment and Systems Analysis (ITAS), Karlsruhe Institute of Technology (KIT), Karlstr.11, 76133 Karlsruhe, Germany
| | - Christine Rösch
- Institute for Technology Assessment and Systems Analysis (ITAS), Karlsruhe Institute of Technology (KIT), Karlstr.11, 76133 Karlsruhe, Germany
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Harindintwali JD, Zhou J, Yu X. Lignocellulosic crop residue composting by cellulolytic nitrogen-fixing bacteria: A novel tool for environmental sustainability. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 715:136912. [PMID: 32014770 DOI: 10.1016/j.scitotenv.2020.136912] [Citation(s) in RCA: 59] [Impact Index Per Article: 14.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2019] [Revised: 01/19/2020] [Accepted: 01/22/2020] [Indexed: 06/10/2023]
Abstract
Lignocellulosic crop residue (LCCR) composting is a cost-effective and sustainable approach for addressing environmental pollution associated with open biomass burning and application of chemical fertilizers in agriculture. The value-added bio-product of the composting process contributes to the improvement of the soil properties and plant growth in an environment-friendly way. However, the conventional process employed for composting LCCRs is slow and becomes an impediment for farmers who plant two or three crops a year. This concern has led to the development of different techniques for rapid composting of LCCRs. The use of cellulolytic nitrogen-fixing microorganisms for composting has emerged as a promising method for enhancing LCCR composting and quality of the compost. Therefore, this review addresses the recent progress on the potential use of cellulolytic nitrogen-fixing bacteria (CNFB) for LCCR composting and discusses various applications of nutrient-rich compost for sustainable agriculture to increase crop yields in a nature-friendly way. This knowledge of bacteria with both cellulose-degrading and nitrogen-fixing activities is significant with respect to rapid composting, soil fertility, plant growth and sustainable management of the lignocellulosic agricultural waste and it provides a means for the development of new technology for sustainability.
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Affiliation(s)
- Jean Damascene Harindintwali
- The Key Laboratory of Carbohydrate Chemistry & Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, 1800 Li-Hu Road, Bin-Hu District, Wuxi 214122, China
| | - Jianli Zhou
- The Key Laboratory of Carbohydrate Chemistry & Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, 1800 Li-Hu Road, Bin-Hu District, Wuxi 214122, China
| | - Xiaobin Yu
- The Key Laboratory of Carbohydrate Chemistry & Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, 1800 Li-Hu Road, Bin-Hu District, Wuxi 214122, China.
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Syzonenko I, Phillips JL. Accelerated Protein Folding Using Greedy-Proximal A*. J Chem Inf Model 2020; 60:3093-3104. [DOI: 10.1021/acs.jcim.9b01194] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Ivan Syzonenko
- Computational Sciences PhD Program, Middle Tennessee State University, Murfreesboro, Tennessee 37132, United States
- Middle Tennessee State University, Murfreesboro, Tennessee 37132, United States
| | - Joshua L. Phillips
- Department of Computer Science, Middle Tennessee State University, Murfreesboro, Tennessee 37132, United States
- Middle Tennessee State University, Murfreesboro, Tennessee 37132, United States
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Chen Q, Zhao H, Wen M, Li J, Zhou H, Wang J, Zhou Y, Liu Y, Du L, Kang H, Zhang J, Cao R, Xu X, Zhou JJ, Ren B, Wang Y. Genome of the webworm Hyphantria cunea unveils genetic adaptations supporting its rapid invasion and spread. BMC Genomics 2020; 21:242. [PMID: 32183717 PMCID: PMC7079503 DOI: 10.1186/s12864-020-6629-6] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2019] [Accepted: 02/26/2020] [Indexed: 02/07/2023] Open
Abstract
BACKGROUND The fall webworm Hyphantria cunea is an invasive and polyphagous defoliator pest that feeds on nearly any type of deciduous tree worldwide. The silk web of H. cunea aids its aggregating behavior, provides thermal regulation and is regarded as one of causes for its rapid spread. In addition, both chemosensory and detoxification genes are vital for host adaptation in insects. RESULTS Here, a high-quality genome of H. cunea was obtained. Silk-web-related genes were identified from the genome, and successful silencing of the silk protein gene HcunFib-H resulted in a significant decrease in silk web shelter production. The CAFE analysis showed that some chemosensory and detoxification gene families, such as CSPs, CCEs, GSTs and UGTs, were expanded. A transcriptome analysis using the newly sequenced H. cunea genome showed that most chemosensory genes were specifically expressed in the antennae, while most detoxification genes were highly expressed during the feeding peak. Moreover, we found that many nutrient-related genes and one detoxification gene, HcunP450 (CYP306A1), were under significant positive selection, suggesting a crucial role of these genes in host adaptation in H. cunea. At the metagenomic level, several microbial communities in H. cunea gut and their metabolic pathways might be beneficial to H. cunea for nutrient metabolism and detoxification, and might also contribute to its host adaptation. CONCLUSIONS These findings explain the host and environmental adaptations of H. cunea at the genetic level and provide partial evidence for the cause of its rapid invasion and potential gene targets for innovative pest management strategies.
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Affiliation(s)
- Qi Chen
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Hanbo Zhao
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Ming Wen
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Jiaxin Li
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Haifeng Zhou
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Jiatong Wang
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Yuxin Zhou
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Yulin Liu
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Lixin Du
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Hui Kang
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Jian Zhang
- School of Life Sciences, Changchun Normal University, Changchun, Jilin, China
| | - Rui Cao
- Meihekou Forest Pest Control Station, Changchun, Jilin, China
| | - Xiaoming Xu
- Garden and Plant Protection Station of Changchun, Changchun, Jilin, China
| | - Jing-Jiang Zhou
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
- Rothamsted Research, Harpenden, AL5 2JQ, UK
| | - Bingzhong Ren
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China
| | - Yinliang Wang
- Jilin Provincial Key Laboratory of Animal Resource Conservation and Utilization, Northeast Normal University, Changchun, Jilin, China.
- Key Laboratory of Vegetation Ecology, MOE, Northeast Normal University, Changchun, China.
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Zhang H, Lang J, Lan P, Yang H, Lu J, Wang Z. Study on the Dissolution Mechanism of Cellulose by ChCl-Based Deep Eutectic Solvents. MATERIALS (BASEL, SWITZERLAND) 2020; 13:E278. [PMID: 31936299 PMCID: PMC7014281 DOI: 10.3390/ma13020278] [Citation(s) in RCA: 36] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/05/2019] [Revised: 12/29/2019] [Accepted: 01/03/2020] [Indexed: 11/16/2022]
Abstract
Four deep eutectic solvents (DESs), namely, glycerol/chlorocholine (glycerol/ChCl), urea/ChCl, citric acid/ChCl, and oxalic acid/ChCl, were synthesized and their performance in the dissolution of cellulose was studied. The results showed that the melting point of the DESs varied with the proportion of the hydrogen bond donor material. The viscosity of the DESs changed considerably with the change in temperature; as the temperature increased, the viscosity decreased and the electrical conductivity increased. Oxalic acid/ChCl exhibited the best dissolution effects on cellulose. The microscopic morphology of cellulose was observed with a microscope. The solvent system effectively dissolved the cellulose, and the dissolution method of the oxalic acid/ChCl solvent on cellulose was preliminarily analyzed. The ChCl solvent formed new hydrogen bonds with the hydroxyl groups of the cellulose through its oxygen atom in the hydroxyl group and its nitrogen atom in the amino group. That is to say, after the deep eutectic melt formed an internal hydrogen bond, a large number of remaining ions formed a hydrogen bond with the hydroxyl groups of the cellulose, resulting in a great dissolution of the cellulose. Although the cellulose and regenerated cellulose had similar structures, the crystal form of cellulose changed from type I to type II.
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Affiliation(s)
- Heng Zhang
- College of Marine Science and Biological Engineering, Qingdao University of Science & Technology, Qingdao 266042, China; (J.L.); (H.Y.); (J.L.); (Z.W.)
- Guangxi Key Laboratory of Polysaccharide Materials and Modification, School of Chemistry and Chemical Engineering, Guangxi University for Nationalities, Nanning 530008, China;
- Key Laboratory of Biomass Chemical Engineering of Ministry of Education, Zhejiang University, Hangzhou 310027, China
| | - Jinyan Lang
- College of Marine Science and Biological Engineering, Qingdao University of Science & Technology, Qingdao 266042, China; (J.L.); (H.Y.); (J.L.); (Z.W.)
| | - Ping Lan
- Guangxi Key Laboratory of Polysaccharide Materials and Modification, School of Chemistry and Chemical Engineering, Guangxi University for Nationalities, Nanning 530008, China;
| | - Hongyan Yang
- College of Marine Science and Biological Engineering, Qingdao University of Science & Technology, Qingdao 266042, China; (J.L.); (H.Y.); (J.L.); (Z.W.)
| | - Junliang Lu
- College of Marine Science and Biological Engineering, Qingdao University of Science & Technology, Qingdao 266042, China; (J.L.); (H.Y.); (J.L.); (Z.W.)
| | - Zhe Wang
- College of Marine Science and Biological Engineering, Qingdao University of Science & Technology, Qingdao 266042, China; (J.L.); (H.Y.); (J.L.); (Z.W.)
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Malik JA, Bhadauria M. Polyhydroxyalkanoates. HANDBOOK OF RESEARCH ON ENVIRONMENTAL AND HUMAN HEALTH IMPACTS OF PLASTIC POLLUTION 2020. [DOI: 10.4018/978-1-5225-9452-9.ch018] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Human dependence on number of chemicals or chemical derivatives has increased alarmingly. Among the commodity chemicals, plastics are becoming independent for our modern lifestyle, as the usage of plastics is increasing worryingly. However, these synthetic plastics are extremely persistent in nature and accumulate in the environment, thereby leading to serious ecological problems. So, to build our economy sustainably, a need of replacement is necessary. Biomaterials in terms of bioplastics are an anticipated option, being synthesized and catabolized by different organisms with myriad biotechnological applications. Polyhydroxyalkanoates (PHAs) are among such biodegradable bioplastics, which are considered as an effective alternative for conventional plastics due to their similar mechanical properties of plastics. A range of microbes under different nutrient and environmental conditions produce PHAs significantly with the help of enzymes. PHA synthases encoded by phaC genes are the key enzymes that polymerize PHA monomers. Four major classes of PHA synthases can be distinguished based on their primary structures, as well as the number of subunits and substrate specificity. PHAs can also be produced from renewable feedstock under, unlike the petrochemically derived plastics that are produced by fractional distillation of depleting fossil fuels. Polyhydroxybutyrate (PHB) is the simplest yet best known polyester of PHAs, as the PHB derived bioplastics are heat tolerant, thus used to make heat tolerant and clear packaging film. They have several medical applications such as drug delivery, suture, scaffold and heart valves, tissue engineering, targeted drug delivery, and agricultural fields. Genetic modification (GM) may be necessary to achieve adequate yields. The selections of suitable bacterial strains, inexpensive carbon sources, efficient fermentation, and recovery processes are also some aspects important aspects taken into consideration for the commercialization of PHA. PHA producers have been reported to reside at various ecological niches with few among them also produce some byproducts like extracellular polymeric substances, rhamnolipids and biohydrogen gas. So, the metabolic engineering thereafter promises to bring a feasible solution for the production of “green plastic” in order to preserve petroleum reserves and diminish the escalating human and animal health concerns environmental implications.
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Shimizu FL, Zamora HDZ, Schmatz AA, Melati RB, Bueno D, Brienzo M. Biofuels Generation Based on Technical Process and Biomass Quality. CLEAN ENERGY PRODUCTION TECHNOLOGIES 2020. [DOI: 10.1007/978-981-13-8637-4_2] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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